Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.
ALE, Flask, Isolate Predicted Mutations Mean Coverage Total Reads Percent Mapped Mapped Reads Average Read Length
A1 F1 I2 R1 882 254.4 12957588 98.0% 12698436 93.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,185,807 T→C F131S (TTT→TCT)  yqiG → putative membrane protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,185,8070TC99.7% 1072.6 / ‑5.5 299F131S (TTT→TCT) yqiGputative membrane protein
Reads supporting (aligned to +/- strand):  ref base T (0/0);  major base C (155/143);  minor base A (1/0);  total (156/143)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.92e-01

Only 100 of 301 total aligned reads displayed.

AGCAAAACCTGATCGATGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATTTCGATAAAGGGAAAATGCAATTATCCATATTTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTGGGGCATTTCTTGACT  >  NC_000913/3185717‑3185896
                                                                                          |                                                                                         
aGCAAAACCTGATCGATGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTg                                                                                         >  2:4534305/1‑93 (MQ=255)
 gCAAAACCTGATCGATGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGc                                                                                        >  2:315954/1‑93 (MQ=255)
 gCAAAACCTGATCGATGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGc                                                                                        >  2:3344603/1‑93 (MQ=255)
 gCAAAACCTGATCGATGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGc                                                                                        <  1:2971812/93‑1 (MQ=255)
  cAAAACCTGATCGATGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCa                                                                                       <  1:3935842/93‑1 (MQ=255)
  cAAAACCTGATCGATGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCa                                                                                       >  2:1442255/1‑93 (MQ=255)
  cAAAACCTGATCGATAGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCa                                                                                       >  2:2288774/1‑93 (MQ=255)
   aaaaCCTGATCGATGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCAc                                                                                      >  2:1703386/1‑93 (MQ=255)
    aaaCCTGATCGATGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCAcc                                                                                     <  1:3082702/93‑1 (MQ=255)
     aaCCTGATCGATGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCt                                                                                    >  2:2015216/1‑93 (MQ=255)
     aaCCTGATCGATGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCt                                                                                    <  2:4354265/93‑1 (MQ=255)
       ccTGATCGATGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCa                                                                                  >  2:4418710/1‑93 (MQ=255)
       ccTGATCGATGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCa                                                                                  <  2:2713735/93‑1 (MQ=255)
         tGATCGATGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAgg                                                                                <  1:6221891/93‑1 (MQ=255)
         tGATCGATGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAgg                                                                                >  2:4900071/1‑93 (MQ=255)
         tGATCGATGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAgg                                                                                >  1:4478231/1‑93 (MQ=255)
          gATCGATGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGc                                                                               >  1:3827088/1‑93 (MQ=255)
           aTCGATGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCa                                                                              >  1:5409967/1‑93 (MQ=255)
             cGATGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATg                                                                            <  2:3486839/93‑1 (MQ=255)
             cGATGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATg                                                                            <  1:4107287/93‑1 (MQ=255)
             cGATGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATg                                                                            <  1:3679730/93‑1 (MQ=255)
              gATGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATgg                                                                           <  2:2644809/93‑1 (MQ=255)
                tGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGAAAAATGCAATTATCCATATCTGCACCTCAGGCATGGtt                                                                         <  2:3287137/93‑1 (MQ=255)
                 ggTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTa                                                                        >  2:520094/1‑93 (MQ=255)
                 ggTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTa                                                                        <  1:3235992/93‑1 (MQ=255)
                   ttgttACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTaaa                                                                      >  2:1783701/1‑93 (MQ=255)
                   ttgttACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTaaa                                                                      <  2:4263951/93‑1 (MQ=255)
                      ttACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATa                                                                   >  2:3422967/1‑93 (MQ=255)
                       tACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATAc                                                                  <  1:1694378/93‑1 (MQ=255)
                        aCCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACa                                                                 >  1:3570562/1‑93 (MQ=255)
                         cccTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACaa                                                                <  1:2378201/93‑1 (MQ=255)
                          ccTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACaaa                                                               <  2:1592779/93‑1 (MQ=255)
                          ccTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACaaa                                                               <  1:3995943/93‑1 (MQ=255)
                           cTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAg                                                              <  1:2289415/93‑1 (MQ=255)
                           cTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAg                                                              >  2:4790600/1‑93 (MQ=255)
                           cTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAg                                                              >  1:1883145/1‑93 (MQ=255)
                             aTCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGAt                                                            <  1:4372764/93‑1 (MQ=255)
                             aTCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGAt                                                            >  2:5255168/1‑93 (MQ=255)
                              tCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATg                                                           <  1:6420618/93‑1 (MQ=255)
                               cGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGc                                                          <  2:1292955/93‑1 (MQ=255)
                               cGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGc                                                          <  2:2382884/93‑1 (MQ=255)
                               cGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGc                                                          >  2:5397769/1‑93 (MQ=255)
                                gaaaaagaaaaaCAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCa                                                         <  2:5128908/93‑1 (MQ=255)
                                gaaaaagaaaaaCAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCa                                                         >  2:6385407/1‑93 (MQ=255)
                                   aaagaaaaaCAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAAc                                                      >  1:3356717/1‑93 (MQ=255)
                                   aaagaaaaaCAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAAc                                                      >  2:3626698/1‑93 (MQ=255)
                                   aaagaaaaaCAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAAc                                                      >  2:2908737/1‑93 (MQ=255)
                                     agaaaaaCAAATTACAATTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTg                                                    <  2:1894258/93‑1 (MQ=255)
                                     agaaaaaCAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTg                                                    <  2:787424/93‑1 (MQ=255)
                                        aaaaCAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGAc                                                 <  2:1131889/93‑1 (MQ=255)
                                         aaaCAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACg                                                >  1:4778533/1‑93 (MQ=255)
                                          aaCAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGc                                               >  2:497642/1‑93 (MQ=255)
                                           aCAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGcc                                              >  2:1858935/1‑93 (MQ=255)
                                           aCAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGcc                                              <  1:3443468/93‑1 (MQ=255)
                                            cAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGcct                                             >  1:6118873/1‑93 (MQ=255)
                                            cAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGcct                                             <  1:4894897/93‑1 (MQ=255)
                                             aaaTTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGcctc                                            >  1:2806611/1‑93 (MQ=255)
                                              aaTTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGcctcc                                           <  1:4640842/93‑1 (MQ=255)
                                                ttACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTg                                         <  2:1913124/93‑1 (MQ=255)
                                                  aCAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGaa                                       <  2:5654877/93‑1 (MQ=255)
                                                  aCAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGaa                                       <  1:5291306/93‑1 (MQ=255)
                                                   cAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAAc                                      >  2:6290143/1‑93 (MQ=255)
                                                    aaCTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACt                                     >  1:4311222/1‑93 (MQ=255)
                                                    aaCTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACt                                     <  1:2696913/93‑1 (MQ=255)
                                                      cTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACttt                                   <  1:5787331/93‑1 (MQ=255)
                                                       ttATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTg                                  <  2:1732196/93‑1 (MQ=255)
                                                       ttATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTg                                  >  2:5953008/1‑93 (MQ=255)
                                                        tATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTgg                                 <  2:2334745/93‑1 (MQ=255)
                                                         atctCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGa                                <  1:3780377/90‑1 (MQ=255)
                                                             cGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCa                            <  1:2596640/93‑1 (MQ=255)
                                                              gATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCAt                           >  1:5579674/1‑93 (MQ=255)
                                                               aTAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATg                          >  1:1096294/1‑93 (MQ=255)
                                                                tAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATgg                         >  2:1184195/1‑93 (MQ=255)
                                                                tAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATgg                         >  1:5883856/1‑93 (MQ=255)
                                                                 aaaGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGt                        >  2:4731608/1‑93 (MQ=255)
                                                                  aaGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTa                       <  1:5174506/93‑1 (MQ=255)
                                                                  aaGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTa                       >  1:3491471/1‑93 (MQ=255)
                                                                   aGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTAt                      >  1:682908/1‑93 (MQ=255)
                                                                    gggAAAATGCAATTATCCATATATGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTAtt                     >  2:3031782/1‑93 (MQ=255)
                                                                       aaaaTGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCt                  <  1:993412/93‑1 (MQ=255)
                                                                       aaaaTGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCt                  <  2:5554578/93‑1 (MQ=255)
                                                                        aaaTGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTg                 <  2:2759210/93‑1 (MQ=255)
                                                                         aaTGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTgg                <  1:173677/93‑1 (MQ=255)
                                                                         aaTGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTgg                <  2:4053919/93‑1 (MQ=255)
                                                                          aTGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTggg               >  2:6064044/1‑93 (MQ=255)
                                                                           tGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTgggg              >  1:210736/1‑93 (MQ=255)
                                                                            gCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTGGGGc             >  1:219217/1‑93 (MQ=255)
                                                                             cAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTGGGGCa            >  2:616015/1‑93 (MQ=255)
                                                                              aaTTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTTGGGcgt           >  1:5635659/1‑91 (MQ=255)
                                                                              aaTTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTGGGGCAt           >  1:6006338/1‑93 (MQ=255)
                                                                              aaTTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTGGGGCAt           <  1:804196/93‑1 (MQ=255)
                                                                              aaTTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTGGGGCAt           >  2:2499149/1‑93 (MQ=255)
                                                                               aTTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTGGGGCAtt          <  1:5975665/93‑1 (MQ=255)
                                                                                   tCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTGGGGCATTTCtt      <  1:1401219/93‑1 (MQ=255)
                                                                                    ccATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTGGGGCATTTCTTg     >  1:2419586/1‑93 (MQ=255)
                                                                                    ccATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTGGGGCATTTCTTg     >  2:5792068/1‑93 (MQ=255)
                                                                                     cATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTGGGGCATTTCTTGa    <  2:1636670/93‑1 (MQ=255)
                                                                                      atatCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTGGGGCATTTCTTGAc   <  2:3853853/93‑1 (MQ=255)
                                                                                       tatCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTGGGGCATTTCTTGACt  >  1:2903983/1‑93 (MQ=255)
                                                                                       tatCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTGGGGCATTTCTTGACt  >  1:1212159/1‑93 (MQ=255)
                                                                                          |                                                                                         
AGCAAAACCTGATCGATGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATTTCGATAAAGGGAAAATGCAATTATCCATATTTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTGGGGCATTTCTTGACT  >  NC_000913/3185717‑3185896

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

BRESEQ :: bam2aln output
CTCAGCAAAACCTGATCGATGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATTTCGATAAAGGGAAAATGCAATTATCCATATTTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTGGGGCATTTCTTGACTACA  >  NC_000913/3185714‑3185899
                                                                                             |                                                                                            
CTCAGCAAAACCTGATCGATGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATC                                                                                              >  SRR4302537.2380386/1‑94 (MQ=60)
CTCAGCAAAACCTGATCGATGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATC                                                                                              <  SRR4302537.5858350/94‑1 (MQ=60)
ATCAGCAAAACCTTATCGATGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATC                                                                                              <  SRR4302537.5195909/94‑1 (MQ=60)
 TCAGCAAACCCTGATCGATGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCT                                                                                             <  SRR4302537.3058233/94‑1 (MQ=60)
 TCAGCAAAACCTGATCGATGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCT                                                                                             <  SRR4302537.3058234/94‑1 (MQ=60)
  CAGCAAAACCTGATCGATGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTG                                                                                            <  SRR4302537.2685855/94‑1 (MQ=60)
  CAGCAAAACCTGATCGATGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTG                                                                                            <  SRR4302537.1548130/94‑1 (MQ=60)
    GCAAAACCTGATCGATGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCA                                                                                          >  SRR4302537.6075198/1‑94 (MQ=60)
    GCAAAACCTGATCGATGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCA                                                                                          <  SRR4302537.2992636/94‑1 (MQ=60)
    GCAAAACCTGATCGATGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCA                                                                                          <  SRR4302537.2630241/94‑1 (MQ=60)
     CAAAACCTGATCGATGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCAC                                                                                         <  SRR4302537.3963350/94‑1 (MQ=60)
      AAAACCTGATCGATGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACC                                                                                        <  SRR4302537.5960669/94‑1 (MQ=60)
       AAACCTGATCGATGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCT                                                                                       <  SRR4302537.3104174/94‑1 (MQ=60)
       AAACCTGATCGATGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCC                                                                                       >  SRR4302537.1349411/1‑94 (MQ=60)
         ACCTGATCGATGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCA                                                                                     >  SRR4302537.1817755/1‑94 (MQ=60)
          CCTGATCGATGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAG                                                                                    >  SRR4302537.3795618/1‑94 (MQ=60)
           CTGATCGATGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGG                                                                                   <  SRR4302537.4342180/94‑1 (MQ=60)
           CTGATCGATGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGG                                                                                   >  SRR4302537.6046389/1‑94 (MQ=60)
           CTGATCGATGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGG                                                                                   >  SRR4302537.4509210/1‑94 (MQ=60)
            TGATCGATGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGC                                                                                  <  SRR4302537.6264719/94‑1 (MQ=60)
            TGATCGATGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGC                                                                                  >  SRR4302537.4475704/1‑94 (MQ=60)
            TGATCGATGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGC                                                                                  <  SRR4302537.2914617/94‑1 (MQ=60)
            TGATCGATGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGC                                                                                  >  SRR4302537.3853921/1‑94 (MQ=60)
             GATCGATGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCA                                                                                 >  SRR4302537.5446861/1‑94 (MQ=60)
               TCGATGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATG                                                                               >  SRR4302537.1741336/1‑94 (MQ=60)
               TCGATGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATG                                                                               >  SRR4302537.473458/1‑94 (MQ=60)
               TCGATGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATG                                                                               <  SRR4302537.5953844/94‑1 (MQ=60)
                CGATGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGG                                                                              <  SRR4302537.3705621/94‑1 (MQ=60)
                CGATGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGG                                                                              <  SRR4302537.1366496/94‑1 (MQ=60)
                CGATGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGG                                                                              <  SRR4302537.4135980/94‑1 (MQ=60)
                   TGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTA                                                                           <  SRR4302537.2256821/94‑1 (MQ=60)
                    GGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAA                                                                          <  SRR4302537.3258801/94‑1 (MQ=60)
                     GTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAA                                                                         <  SRR4302537.3197313/94‑1 (MQ=60)
                       TGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAAT                                                                       <  SRR4302537.52599/94‑1 (MQ=60)
                        GTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCCCCTCAGGCATGGTTAAAATA                                                                      <  SRR4302537.3684046/94‑1 (MQ=60)
                         TTACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATAC                                                                     <  SRR4302537.3060220/94‑1 (MQ=60)
                          TACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACA                                                                    >  SRR4302537.3595738/1‑94 (MQ=60)
                          TACCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACA                                                                    <  SRR4302537.1706235/94‑1 (MQ=60)
                            CCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATNCAATTATCCATATCTGCANNNCAGGCATGGTTAANNNNCNAA                                                                  >  SRR4302537.6268905/1‑94 (MQ=60)
                            CCCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAA                                                                  <  SRR4302537.2394958/94‑1 (MQ=60)
                             CCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAG                                                                 <  SRR4302537.4023916/94‑1 (MQ=60)
                             CCTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAG                                                                 >  SRR4302537.1896239/1‑94 (MQ=60)
                             CCTATCGAAAAAGAAAAACAAATTACAACTTATCGCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAG                                                                 <  SRR4302537.6037294/94‑1 (MQ=60)
                              CTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGA                                                                >  SRR4302537.3089583/1‑94 (MQ=60)
                              CTATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGA                                                                <  SRR4302537.2305581/94‑1 (MQ=60)
                               TATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGAT                                                               <  SRR4302537.2192865/94‑1 (MQ=60)
                                ATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATG                                                              <  SRR4302537.4402974/94‑1 (MQ=60)
                                ATCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATG                                                              <  SRR4302537.3504944/94‑1 (MQ=60)
                                 TCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGC                                                             <  SRR4302537.359310/94‑1 (MQ=60)
                                 TCGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGC                                                             <  SRR4302537.6464265/94‑1 (MQ=60)
                                  CGAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCA                                                            <  SRR4302537.2984509/94‑1 (MQ=60)
                                   GAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAA                                                           >  SRR4302537.2740984/1‑94 (MQ=60)
                                   GAAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAA                                                           >  SRR4302537.482565/1‑94 (MQ=60)
                                    AAAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAA                                                          <  SRR4302537.183134/94‑1 (MQ=60)
                                     AAAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAAC                                                         >  SRR4302537.3380494/1‑94 (MQ=60)
                                      AAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACT                                                        <  SRR4302537.3419391/94‑1 (MQ=60)
                                      AAAGAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACT                                                        >  SRR4302537.6470149/1‑94 (MQ=60)
                                         GAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGA                                                     >  SRR4302537.6253737/1‑94 (MQ=60)
                                         GAAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGA                                                     <  SRR4302537.6335598/94‑1 (MQ=60)
                                          AAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGAC                                                    >  SRR4302537.3996327/1‑94 (MQ=60)
                                          AAAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGAC                                                    <  SRR4302537.6338629/94‑1 (MQ=60)
                                           AAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACG                                                   >  SRR4302537.4811524/1‑94 (MQ=60)
                                           AAAACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACG                                                   <  SRR4302537.1141689/94‑1 (MQ=60)
                                             AACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCC                                                 >  SRR4302537.2395541/1‑94 (MQ=60)
                                              ACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCT                                                <  SRR4302537.3467830/94‑1 (MQ=60)
                                              ACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCT                                                >  SRR4302537.6160930/1‑94 (MQ=60)
                                              ACAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCT                                                >  SRR4302537.4673166/1‑94 (MQ=60)
                                               CAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCATGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTC                                               >  SRR4302537.5922529/1‑94 (MQ=60)
                                               CAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTC                                               <  SRR4302537.4928694/94‑1 (MQ=60)
                                               CAAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTC                                               >  SRR4302537.2826230/1‑94 (MQ=60)
                                                AAATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCC                                              >  SRR4302537.1985631/1‑94 (MQ=60)
                                                 AATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCT                                             <  SRR4302537.4672933/94‑1 (MQ=60)
                                                 AATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCT                                             >  SRR4302537.2618406/1‑94 (MQ=60)
                                                 AATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCT                                             >  SRR4302537.2156374/1‑94 (MQ=60)
                                                  ATTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTG                                            >  SRR4302537.1563611/1‑94 (MQ=60)
                                                   TTACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGA                                           >  SRR4302537.4150750/1‑94 (MQ=60)
                                                    TACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAA                                          <  SRR4302537.944678/94‑1 (MQ=60)
                                                     ACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAAC                                         <  SRR4302537.5327668/94‑1 (MQ=60)
                                                     ACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAAC                                         <  SRR4302537.5634665/94‑1 (MQ=60)
                                                     ACAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAAC                                         <  SRR4302537.5263288/94‑1 (MQ=60)
                                                      CAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACT                                        >  SRR4302537.2576725/1‑94 (MQ=60)
                                                      CAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACT                                        >  SRR4302537.3961990/1‑94 (MQ=60)
                                                      CAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACT                                        >  SRR4302537.542236/1‑94 (MQ=60)
                                                      CAACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACT                                        >  SRR4302537.4341183/1‑94 (MQ=60)
                                                       AACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTT                                       <  SRR4302537.3293855/94‑1 (MQ=60)
                                                       AACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTT                                       <  SRR4302537.2715754/94‑1 (MQ=60)
                                                        ACTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTT                                      >  SRR4302537.3988960/1‑94 (MQ=60)
                                                         CTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTG                                     >  SRR4302537.6049189/1‑94 (MQ=60)
                                                         CTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTG                                     <  SRR4302537.5376564/94‑1 (MQ=60)
                                                         CTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTG                                     <  SRR4302537.5827014/94‑1 (MQ=60)
                                                         CTTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTG                                     >  SRR4302537.3244252/1‑94 (MQ=60)
                                                          TTATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGG                                    >  SRR4302537.2861547/1‑94 (MQ=60)
                                                           TATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGA                                   >  SRR4302537.3878757/1‑94 (MQ=60)
                                                           TATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGA                                   <  SRR4302537.5450912/94‑1 (MQ=60)
                                                            ATCTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAA                                  <  SRR4302537.3806927/94‑1 (MQ=60)
                                                              CTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATC                                >  SRR4302537.5637639/1‑94 (MQ=60)
                                                              CTCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATC                                >  SRR4302537.4535264/1‑94 (MQ=60)
                                                               TCGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCA                               >  SRR4302537.3813094/1‑94 (MQ=60)
                                                                CGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCAT                              >  SRR4302537.2773305/1‑94 (MQ=60)
                                                                CGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCAT                              <  SRR4302537.2614803/94‑1 (MQ=60)
                                                                CGATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCAT                              >  SRR4302537.5617809/1‑94 (MQ=60)
                                                                 GATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATG                             >  SRR4302537.1103867/1‑94 (MQ=60)
                                                                 GATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATG                             >  SRR4302537.3833727/1‑94 (MQ=60)
                                                                  ATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGG                            >  SRR4302537.3411279/1‑94 (MQ=60)
                                                                  ATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGG                            >  SRR4302537.5924227/1‑94 (MQ=60)
                                                                  ATAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGG                            <  SRR4302537.4055069/94‑1 (MQ=60)
                                                                   TAAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGT                           >  SRR4302537.3280833/1‑94 (MQ=60)
                                                                    AAAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTA                          >  SRR4302537.3516166/1‑94 (MQ=60)
                                                                     AAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCACACTGGACGCCTCCTGAACTTTGGAATCATGGTAT                         <  SRR4302537.987598/94‑1 (MQ=60)
                                                                     AAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTAT                         <  SRR4302537.4046979/94‑1 (MQ=60)
                                                                     AAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTAT                         <  SRR4302537.5210122/94‑1 (MQ=60)
                                                                     AAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTAT                         >  SRR4302537.687588/1‑94 (MQ=60)
                                                                     AAGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTAT                         <  SRR4302537.484256/94‑1 (MQ=60)
                                                                      AGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATT                        <  SRR4302537.2364958/94‑1 (MQ=60)
                                                                      AGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATT                        >  SRR4302537.3775436/1‑94 (MQ=60)
                                                                      AGGGAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATT                        >  SRR4302537.4399734/1‑94 (MQ=60)
                                                                         GAAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCT                     >  SRR4302537.2947515/1‑94 (MQ=60)
                                                                          AAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTG                    <  SRR4302537.1000275/94‑1 (MQ=60)
                                                                          AAAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTG                    >  SRR4302537.5871029/1‑94 (MQ=60)
                                                                           AAATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTGG                   >  SRR4302537.1196765/1‑94 (MQ=60)
                                                                            AATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTGGG                  <  SRR4302537.5511992/94‑1 (MQ=60)
                                                                            AATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTGGG                  <  SRR4302537.174911/94‑1 (MQ=60)
                                                                            AATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTGGG                  <  SRR4302537.363030/94‑1 (MQ=60)
                                                                             ATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTGGGG                 >  SRR4302537.212246/1‑94 (MQ=60)
                                                                             ATGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTGGGG                 <  SRR4302537.2457377/94‑1 (MQ=60)
                                                                              TGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTGGGGC                >  SRR4302537.220780/1‑94 (MQ=60)
                                                                              TGCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTGGGGC                >  SRR4302537.6258359/1‑94 (MQ=60)
                                                                               GCAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTGGGGCA               <  SRR4302537.677075/94‑1 (MQ=60)
                                                                                CAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTTGGGCGT              >  SRR4302537.5674225/1‑94 (MQ=60)
                                                                                CAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTGGGGCAT              >  SRR4302537.6047601/1‑94 (MQ=60)
                                                                                CAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTGGGGCAT              >  SRR4302537.2399859/1‑94 (MQ=60)
                                                                                CAATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTGGGGCAT              >  SRR4302537.769390/1‑94 (MQ=60)
                                                                                 AATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTGGGGCATT             <  SRR4302537.1601339/94‑1 (MQ=60)
                                                                                 AATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTGGGGCATT             <  SRR4302537.809716/94‑1 (MQ=60)
                                                                                 AATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTGGGGCATT             >  SRR4302537.2258383/1‑94 (MQ=60)
                                                                                  ATTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTGGGGCATTT            <  SRR4302537.6016690/94‑1 (MQ=60)
                                                                                   TTATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTGGGGCATTTC           >  SRR4302537.1743860/1‑94 (MQ=60)
                                                                                     ATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAGACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTGGGGCATTTCTT         >  SRR4302537.4585090/1‑94 (MQ=60)
                                                                                     ATCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTGGGGCATTTCTT         >  SRR4302537.5093020/1‑94 (MQ=60)
                                                                                      TCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTGGGGCATTTCTTG        >  SRR4302537.2336643/1‑94 (MQ=60)
                                                                                      TCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTGGGGCATTTCTTG        <  SRR4302537.1410982/94‑1 (MQ=60)
                                                                                      TCCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTGGGGCATTTCTTG        >  SRR4302537.2436638/1‑94 (MQ=60)
                                                                                       CCATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTGGGGCATTTCTTGA       <  SRR4302537.5708481/94‑1 (MQ=60)
                                                                                        CATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACCGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTGGGGCATTTCTTGAC      >  SRR4302537.3496002/1‑94 (MQ=60)
                                                                                         ATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTGGGGCATTTCTTGACT     <  SRR4302537.5201142/94‑1 (MQ=60)
                                                                                         ATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTGGGGCATTTCTTGACT     >  SRR4302537.1220593/1‑94 (MQ=60)
                                                                                         ATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTGGGGCATTTCTTGACT     >  SRR4302537.2924385/1‑94 (MQ=60)
                                                                                         ATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTGGGGCATTTCTTGACT     >  SRR4302537.5808519/1‑94 (MQ=60)
                                                                                         ATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTGGGGCATTTCTTGACT     >  SRR4302537.694682/1‑94 (MQ=60)
                                                                                         ATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTGGGGCATTTCTTGACT     >  SRR4302537.3528930/1‑94 (MQ=60)
                                                                                         ATATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTGGGGCATTTCTTGACT     <  SRR4302537.4439114/94‑1 (MQ=60)
                                                                                          TATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTGGGGCATTTCTTGACTA    <  SRR4302537.4266314/94‑1 (MQ=60)
                                                                                          TATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATAGTATTGCTGGGGCATTTCTTGACTA    <  SRR4302537.2008236/94‑1 (MQ=60)
                                                                                           ATCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTANNGCTGGGGCATTTCTNGACNAC   >  SRR4302537.2992436/1‑94 (MQ=60)
                                                                                            TCTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTGGGGCATTTCTTGACTACA  <  SRR4302537.2923951/94‑1 (MQ=60)
                                                                                             |                                                                                            
CTCAGCAAAACCTGATCGATGGTTGTTACCCTATCGAAAAAGAAAAACAAATTACAACTTATTTCGATAAAGGGAAAATGCAATTATCCATATTTGCACCTCAGGCATGGTTAAAATACAAAGATGCAAACTGGACGCCTCCTGAACTTTGGAATCATGGTATTGCTGGGGCATTTCTTGACTACA  >  NC_000913/3185714‑3185899

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑