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 3,308,293 T→C S173G (AGC→GGC)  b3164 ← polynucleotide phosphorylase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,308,2930TC95.3% 741.0 / 19.1 235S173G (AGC→GGC) b3164polynucleotide phosphorylase
Reads supporting (aligned to +/- strand):  ref base T (3/8);  new base C (104/120);  total (107/128)
Fisher's exact test for biased strand distribution p-value = 3.53e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.40e-01

Only 100 of 249 total aligned reads displayed.

CCAGCATCTGGTCTTCGCTCAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCTCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCACCAATCGGGCCATTGAACGGAATA  >  NC_000913/3308203‑3308384
                                                                                          |                                                                                           
 cAGCATCTGGTCTTCGCTCAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGccctc                                                                                          >  2:3610552/1‑93 (MQ=255)
 cAGCATCTGGTCTTCGCTCAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGccctc                                                                                          <  1:6028303/93‑1 (MQ=255)
  cgCATCTGGTCTTCGCTCAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGccctct                                                                                         <  1:1923993/92‑1 (MQ=255)
  aGCATCTAGTCTTCGCTCAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGccctct                                                                                         >  2:6365172/1‑93 (MQ=255)
     aTCTGGTCTTCGCTCAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTc                                                                                      >  2:1345166/1‑93 (MQ=255)
     aTCTGGTCTTCGCTCAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTc                                                                                      >  2:2143839/1‑93 (MQ=255)
     aTCTGGTCTTCGCTCAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTc                                                                                      <  1:5572154/93‑1 (MQ=255)
     aTCTGGTCTTCGCTCAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTc                                                                                      <  1:3652151/93‑1 (MQ=255)
     aTCTGGTCTTCGCTCAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTc                                                                                      <  2:3452911/93‑1 (MQ=255)
      tCTGGTCTTCGCTCAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCa                                                                                     <  1:4840456/93‑1 (MQ=255)
      tCTGGTCTTCGCTCAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCa                                                                                     <  2:2317935/93‑1 (MQ=255)
      tCTGGTCTTCGCTCAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCa                                                                                     >  2:4979541/1‑93 (MQ=255)
       cTGGTCTTCGCTCAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAg                                                                                    <  1:869097/93‑1 (MQ=255)
           tCTTCGCTCAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCg                                                                                >  1:527150/1‑93 (MQ=255)
           tCTTCGCTCAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCg                                                                                >  2:349864/1‑93 (MQ=255)
             ttCGCTCAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTc                                                                              >  2:5226352/1‑93 (MQ=255)
             ttCGCTCAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTc                                                                              >  2:1985577/1‑93 (MQ=255)
             ttCGCTCAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTc                                                                              <  2:2278883/93‑1 (MQ=255)
                gCTCAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTg                                                                           <  1:1270621/93‑1 (MQ=255)
                gCTCAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTg                                                                           >  2:5578264/1‑93 (MQ=255)
                gCTCAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTg                                                                           <  1:4065063/93‑1 (MQ=255)
                 cTCAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGa                                                                          >  1:1056331/1‑93 (MQ=255)
                 cTCAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGa                                                                          >  1:1613525/1‑93 (MQ=255)
                  tCAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAg                                                                         <  2:3082344/93‑1 (MQ=255)
                    agcagTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTc                                                                       <  2:2048472/93‑1 (MQ=255)
                         ttGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCTCTCTTTCAGCTCGTCCTGAGTCGGGtt                                                                  >  1:4179242/1‑93 (MQ=255)
                         ttGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGtt                                                                  <  2:4023275/93‑1 (MQ=255)
                          tGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTc                                                                 <  2:1012649/93‑1 (MQ=255)
                           gAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCa                                                                <  1:5841722/93‑1 (MQ=255)
                           gAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCa                                                                >  1:1764814/1‑93 (MQ=255)
                           gAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCa                                                                >  2:5438258/1‑93 (MQ=255)
                             gCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAgt                                                              <  1:1397274/93‑1 (MQ=255)
                             gCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAgt                                                              >  2:3906512/1‑93 (MQ=255)
                             gCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAgt                                                              <  1:928624/93‑1 (MQ=255)
                             gCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAgt                                                              >  1:6154568/1‑93 (MQ=255)
                               ttCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAgtac                                                            >  1:382259/1‑93 (MQ=255)
                               ttCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAgtac                                                            <  2:165949/93‑1 (MQ=255)
                                tCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAgtacg                                                           >  1:1435061/1‑93 (MQ=255)
                                 cAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAgtacgt                                                          <  1:5681609/93‑1 (MQ=255)
                                 cAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAgtacgt                                                          <  1:4253878/93‑1 (MQ=255)
                                  aGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAgtacgta                                                         <  2:658440/93‑1 (MQ=255)
                                     ttCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTg                                                      <  1:1180729/93‑1 (MQ=255)
                                     ttCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTg                                                      <  1:5154914/93‑1 (MQ=255)
                                     ttCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTg                                                      <  1:2933261/93‑1 (MQ=255)
                                      tCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTgg                                                     >  1:6266170/1‑93 (MQ=255)
                                      tCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTgg                                                     <  1:2754068/93‑1 (MQ=255)
                                         aCCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCa                                                  <  1:361742/93‑1 (MQ=255)
                                         aCCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCa                                                  <  1:2769619/93‑1 (MQ=255)
                                          ccATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCAt                                                 <  1:4938381/93‑1 (MQ=255)
                                          ccATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCAt                                                 >  2:3418661/1‑93 (MQ=255)
                                           cATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCAtt                                                <  2:2432042/93‑1 (MQ=255)
                                           cATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCAtt                                                >  2:1299670/1‑93 (MQ=255)
                                           cATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCAtt                                                >  2:4677711/1‑93 (MQ=255)
                                           cATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCAtt                                                >  2:867631/1‑93 (MQ=255)
                                           cATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCAtt                                                <  1:2207827/93‑1 (MQ=255)
                                            aTCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTg                                               >  1:658498/1‑93 (MQ=255)
                                            aTCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTg                                               >  2:2983930/1‑93 (MQ=255)
                                             tCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGa                                              <  1:224153/93‑1 (MQ=255)
                                             tCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGa                                              <  1:2496848/93‑1 (MQ=255)
                                              cAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGAt                                             >  1:2590272/1‑93 (MQ=255)
                                               aGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATg                                            >  1:3934352/1‑93 (MQ=255)
                                               aGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATg                                            >  1:4890743/1‑93 (MQ=255)
                                                gTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGt                                           <  2:4367602/93‑1 (MQ=255)
                                                   cAGCGGCTTCAGTGCCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAAc                                        <  2:3185131/93‑1 (MQ=255)
                                                   cAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAAc                                        <  1:4516124/93‑1 (MQ=255)
                                                   cAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAATACGTACCGGTCATTGATGTAAc                                        >  2:3677334/1‑93 (MQ=255)
                                                    aGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAAcc                                       <  2:4172174/93‑1 (MQ=255)
                                                    aGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAAcc                                       <  1:5511981/93‑1 (MQ=255)
                                                       ggCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTAc                                    <  1:4763560/93‑1 (MQ=255)
                                                       ggCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTAc                                    >  2:5744203/1‑93 (MQ=255)
                                                         cTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTAcgc                                  >  2:1902360/1‑93 (MQ=255)
                                                          ttCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTAcgcg                                 <  1:6424666/93‑1 (MQ=255)
                                                           tCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGATCAGTACGTACTGGTCATTGATGTTACCCAcgccg                                >  1:4568586/1‑91 (MQ=255)
                                                              gTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGgca                             >  2:1125736/1‑93 (MQ=255)
                                                              gTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGgca                             <  1:3506290/93‑1 (MQ=255)
                                                                aCCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGgcagc                           <  1:2152504/93‑1 (MQ=255)
                                                                aCCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGgcaga                           >  2:5988607/1‑92 (MQ=255)
                                                                  cGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCAc                         <  1:5126546/93‑1 (MQ=255)
                                                                  cGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCAc                         <  2:4876349/93‑1 (MQ=255)
                                                                   ggCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCAcc                        >  1:540245/1‑93 (MQ=255)
                                                                    gCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCACCa                       <  2:6418529/93‑1 (MQ=255)
                                                                     caacaaCCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCACCaa                      <  1:1210759/93‑1 (MQ=255)
                                                                      aacaacCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCACCAAt                     <  2:381169/93‑1 (MQ=255)
                                                                       acaacCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCACCAATc                    <  2:3867117/93‑1 (MQ=255)
                                                                       acaacCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGGTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCACCAATc                    >  1:3344996/1‑93 (MQ=255)
                                                                        caacCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCACCAATCg                   >  1:3570120/1‑93 (MQ=255)
                                                                          acCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCACCAATCggg                 >  2:5817998/1‑93 (MQ=255)
                                                                              gATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCACCAATCGGGCCAt             >  1:5022372/1‑93 (MQ=255)
                                                                               aTCCAGTTTGCTCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCACCAATCGGGCCAtt            <  1:3077773/93‑1 (MQ=255)
                                                                               aTCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCACCAATCGGGCCAtt            <  2:453262/93‑1 (MQ=255)
                                                                               aTCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCACCAATCGGGCCAtt            >  2:5153181/1‑93 (MQ=255)
                                                                               aTCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCACCAATCGGGCCAtt            >  2:2504319/1‑93 (MQ=255)
                                                                               aTCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCACCAATCGGGCCAtt            <  2:6172567/93‑1 (MQ=255)
                                                                                 ccAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCACCAATCGGGCCATTGa          >  1:2452486/1‑93 (MQ=255)
                                                                                 ccAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCACCAATCGGGCCATTGa          >  1:2401383/1‑93 (MQ=255)
                                                                                   aGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCACCAATCGGGCCATTGAAc        <  2:1612858/93‑1 (MQ=255)
                                                                                   aGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCACCAATCGGGCCATTGAAc        <  2:2625845/93‑1 (MQ=255)
                                                                                     tttGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCACCAATCGGGCCATTGAACgg      <  2:2411021/93‑1 (MQ=255)
                                                                                      ttGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCACCAATCGGGCCATTGAACGGa     <  1:4794425/93‑1 (MQ=255)
                                                                                       tGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCACCAATCGGGCCATTGAACGGaa    <  1:2050136/93‑1 (MQ=255)
                                                                                          |                                                                                           
CCAGCATCTGGTCTTCGCTCAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCTCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCACCAATCGGGCCATTGAACGGAATA  >  NC_000913/3308203‑3308384

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

BRESEQ :: bam2aln output
CGCCCAGCATCTGGTCTTCGCTCAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCTCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCACCAATCGGGCCATTGAACGGAATACC  >  NC_000913/3308200‑3308386
                                                                                             |                                                                                             
CGCCCAGCATCTGGTCTTCGCTCAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCC                                                                                               >  SRR4302537.4999002/1‑94 (MQ=60)
 GCCCAGCATCTGGTCTTCGCTCAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCC                                                                                              >  SRR4302537.3289169/1‑94 (MQ=60)
   CCAGCATCTGGTCTTCGCTCAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTC                                                                                            >  SRR4302537.2712531/1‑94 (MQ=60)
   CCAGCATCTGGTCTTCGCTCAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTC                                                                                            >  SRR4302537.2168455/1‑94 (MQ=60)
    CAGCATCTGGTCTTCGCTCAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCT                                                                                           >  SRR4302537.134721/1‑94 (MQ=60)
    CAGCATCTGGTCTTCGCTCAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCT                                                                                           <  SRR4302537.6069723/94‑1 (MQ=60)
     CGCATCTGGTCTTCGCTCAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTT                                                                                          <  SRR4302537.1937347/94‑1 (MQ=60)
     AGCATCTGGTCTTCGCTCAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTT                                                                                          >  SRR4302537.675292/1‑94 (MQ=60)
        ATCTGGTCTTCGCTCAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCA                                                                                       <  SRR4302537.3677860/94‑1 (MQ=60)
        ATCTGGTCTTCGCTCAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCA                                                                                       <  SRR4302537.1739293/94‑1 (MQ=60)
        ATCTGGTCTTCGCTCAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCA                                                                                       <  SRR4302537.4414238/94‑1 (MQ=60)
        ATCTGGTCTTCGCTCAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCA                                                                                       <  SRR4302537.5610243/94‑1 (MQ=60)
        ATCTGGTCTTCGCTCAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCA                                                                                       >  SRR4302537.4259915/1‑94 (MQ=60)
         TCTGGTCTTCGCTCAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAG                                                                                      <  SRR4302537.4132355/94‑1 (MQ=60)
         TCTGGTCTTCGCTCAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAG                                                                                      <  SRR4302537.4873866/94‑1 (MQ=60)
         TCTGGTCTTCGCTCAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAG                                                                                      <  SRR4302537.5227656/94‑1 (MQ=60)
         TCTGGTCTTCGCTCAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAG                                                                                      <  SRR4302537.6482686/94‑1 (MQ=60)
          CTGGTCTTCGCTCAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGC                                                                                     <  SRR4302537.875065/94‑1 (MQ=60)
           TGGTCTTCGCTCAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCTCTCTTTCAGCT                                                                                    <  SRR4302537.3544107/94‑1 (MQ=60)
             GTCTTCGCTCAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCG                                                                                  >  SRR4302537.530764/1‑94 (MQ=60)
             GTCTTCGCTCAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCG                                                                                  >  SRR4302537.5061465/1‑94 (MQ=60)
               CTTCGCTCAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCTCTCTTTCAGCTCGTC                                                                                <  SRR4302537.63046/94‑1 (MQ=60)
                 TCGCTCAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGACAACAACCAGATCCAGTTTGCTCTCTTTCAGCTCGTCCT                                                                              <  SRR4302537.141831/94‑1 (MQ=60)
                  CGCTCAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTG                                                                             <  SRR4302537.2439051/94‑1 (MQ=60)
                   GCTCAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGA                                                                            <  SRR4302537.4093466/94‑1 (MQ=60)
                   GCTCAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGA                                                                            >  SRR4302537.1063617/1‑94 (MQ=60)
                   GCTCAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGA                                                                            >  SRR4302537.1624801/1‑94 (MQ=60)
                   GCTCAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGA                                                                            <  SRR4302537.1279456/94‑1 (MQ=60)
                    CTCAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAG                                                                           <  SRR4302537.639498/94‑1 (MQ=60)
                    CTCAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAG                                                                           <  SRR4302537.1248839/94‑1 (MQ=60)
                      CAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCTCTCTTTCAGCTCGTCCTGAGTC                                                                         <  SRR4302537.3659635/94‑1 (MQ=60)
                      CAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTC                                                                         <  SRR4302537.2611221/94‑1 (MQ=60)
                         CAGTTGGGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGG                                                                      >  SRR4302537.5559974/1‑94 (MQ=60)
                          AGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGT                                                                     >  SRR4302537.5192714/1‑94 (MQ=60)
                          AGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGT                                                                     <  SRR4302537.2837761/94‑1 (MQ=60)
                           GTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCTCTCTTTCAGCTCGTCCTGAGTCGGGTT                                                                    >  SRR4302537.4208414/1‑94 (MQ=60)
                           GTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTT                                                                    >  SRR4302537.2202315/1‑94 (MQ=60)
                             TGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCA                                                                  <  SRR4302537.1599397/94‑1 (MQ=60)
                             TGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCA                                                                  >  SRR4302537.1777106/1‑94 (MQ=60)
                             TGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCA                                                                  <  SRR4302537.4908677/94‑1 (MQ=60)
                             TGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGCTCA                                                                  >  SRR4302537.2502178/1‑94 (MQ=60)
                              GAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAG                                                                 <  SRR4302537.5881778/94‑1 (MQ=60)
                               AGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGT                                                                >  SRR4302537.6196910/1‑94 (MQ=60)
                                GCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTA                                                               >  SRR4302537.3917404/1‑94 (MQ=60)
                                GCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTA                                                               <  SRR4302537.935028/94‑1 (MQ=60)
                                GCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTA                                                               <  SRR4302537.1407014/94‑1 (MQ=60)
                                 CTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTAC                                                              >  SRR4302537.384906/1‑94 (MQ=60)
                                 CTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTAC                                                              <  SRR4302537.3728447/94‑1 (MQ=60)
                                 CTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGGTCAGTAC                                                              >  SRR4302537.3368171/1‑94 (MQ=60)
                                  TTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACG                                                             >  SRR4302537.282184/1‑94 (MQ=60)
                                  TTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACG                                                             >  SRR4302537.1445041/1‑94 (MQ=60)
                                    CAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTA                                                           <  SRR4302537.5720471/94‑1 (MQ=60)
                                    CAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTA                                                           <  SRR4302537.4283446/94‑1 (MQ=60)
                                    CAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTA                                                           >  SRR4302537.5338946/1‑94 (MQ=60)
                                       ATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTG                                                        <  SRR4302537.2783212/94‑1 (MQ=60)
                                       ATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTG                                                        <  SRR4302537.5181299/94‑1 (MQ=60)
                                        TTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGG                                                       >  SRR4302537.6309178/1‑94 (MQ=60)
                                        TTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGG                                                       <  SRR4302537.6011684/94‑1 (MQ=60)
                                        TTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGG                                                       <  SRR4302537.1188943/94‑1 (MQ=60)
                                        TTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGG                                                       <  SRR4302537.2953861/94‑1 (MQ=60)
                                        TTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGG                                                       <  SRR4302537.5190431/94‑1 (MQ=60)
                                        TTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGG                                                       >  SRR4302537.5722395/1‑94 (MQ=60)
                                         TCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGT                                                      >  SRR4302537.5147098/1‑94 (MQ=60)
                                         TCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGT                                                      <  SRR4302537.2773293/94‑1 (MQ=60)
                                          CAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTC                                                     >  SRR4302537.801476/1‑94 (MQ=60)
                                          CAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTC                                                     >  SRR4302537.4832978/1‑94 (MQ=60)
                                          CAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTC                                                     >  SRR4302537.4751622/1‑94 (MQ=60)
                                           AACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCA                                                    >  SRR4302537.1885338/1‑94 (MQ=60)
                                           AACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCA                                                    >  SRR4302537.4951047/1‑94 (MQ=60)
                                            ACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCAT                                                   <  SRR4302537.364255/94‑1 (MQ=60)
                                            ACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCAT                                                   <  SRR4302537.2788971/94‑1 (MQ=60)
                                             CCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATT                                                  <  SRR4302537.4972443/94‑1 (MQ=60)
                                              CATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTG                                                 >  SRR4302537.662988/1‑94 (MQ=60)
                                              CATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTG                                                 <  SRR4302537.2223393/94‑1 (MQ=60)
                                               ATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGA                                                <  SRR4302537.6305961/94‑1 (MQ=60)
                                                TCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGAT                                               <  SRR4302537.225747/94‑1 (MQ=60)
                                                TCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGAT                                               >  SRR4302537.2608397/1‑94 (MQ=60)
                                                TCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGAT                                               <  SRR4302537.3469840/94‑1 (MQ=60)
                                                TCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGAT                                               <  SRR4302537.2514422/94‑1 (MQ=60)
                                                 CAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATG                                              >  SRR4302537.4924513/1‑94 (MQ=60)
                                                 CAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATG                                              >  SRR4302537.3961847/1‑94 (MQ=60)
                                                 CAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATG                                              <  SRR4302537.3313710/94‑1 (MQ=60)
                                                 CAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATG                                              >  SRR4302537.3606233/1‑94 (MQ=60)
                                                  AGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGT                                             >  SRR4302537.5536114/1‑94 (MQ=60)
                                                    TACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAA                                           <  SRR4302537.3580842/94‑1 (MQ=60)
                                                     ACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAAC                                          <  SRR4302537.4569440/94‑1 (MQ=60)
                                                     ACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAAC                                          <  SRR4302537.1252536/94‑1 (MQ=60)
                                                      CAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACC                                         <  SRR4302537.4547364/94‑1 (MQ=60)
                                                      CAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACC                                         <  SRR4302537.6047833/94‑1 (MQ=60)
                                                       AGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCT                                        <  SRR4302537.5549619/94‑1 (MQ=60)
                                                       AGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCT                                        >  SRR4302537.4011157/1‑94 (MQ=60)
                                                       AGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCT                                        <  SRR4302537.1420466/94‑1 (MQ=60)
                                                       AGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCT                                        <  SRR4302537.4753145/94‑1 (MQ=60)
                                                        GCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTA                                       <  SRR4302537.3644275/94‑1 (MQ=60)
                                                          GGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACG                                     >  SRR4302537.1123137/1‑94 (MQ=60)
                                                          GGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACG                                     <  SRR4302537.4796459/94‑1 (MQ=60)
                                                          GGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACG                                     <  SRR4302537.5000932/94‑1 (MQ=60)
                                                          GGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTCCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACG                                     <  SRR4302537.934062/94‑1 (MQ=60)
                                                           GCTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGC                                    >  SRR4302537.2008675/1‑94 (MQ=60)
                                                            CTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCG                                   <  SRR4302537.444708/94‑1 (MQ=60)
                                                            CTTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCG                                   <  SRR4302537.4157085/94‑1 (MQ=60)
                                                             TTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGG                                  >  SRR4302537.2144888/1‑94 (MQ=60)
                                                             TTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGG                                  <  SRR4302537.6468324/94‑1 (MQ=60)
                                                             TTCAGTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGATCAGTACGTACTGGTCATTGATGTTACCCACGCCG                                  >  SRR4302537.4600204/1‑94 (MQ=60)
                                                                 GTACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAG                              <  SRR4302537.3531097/94‑1 (MQ=60)
                                                                  TACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGC                             <  SRR4302537.2500105/94‑1 (MQ=60)
                                                                   ACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCA                            <  SRR4302537.2167677/94‑1 (MQ=60)
                                                                   ACCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCA                            >  SRR4302537.2013096/1‑94 (MQ=60)
                                                                    CCGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCAC                           <  SRR4302537.2564856/94‑1 (MQ=60)
                                                                     CGGCAACAACCAGATCCAGTTTGCTCTCTTCCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCACC                          <  SRR4302537.1763951/94‑1 (MQ=60)
                                                                     CGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCACC                          <  SRR4302537.5161873/94‑1 (MQ=60)
                                                                     CGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCACC                          >  SRR4302537.4806347/1‑94 (MQ=60)
                                                                     CGGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCACC                          >  SRR4302537.543964/1‑94 (MQ=60)
                                                                      GGCAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCACCA                         >  SRR4302537.225110/1‑94 (MQ=60)
                                                                        CAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCACCAAT                       <  SRR4302537.4831211/94‑1 (MQ=60)
                                                                        CAACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCACCAAT                       <  SRR4302537.1219184/94‑1 (MQ=60)
                                                                         AACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCACCAATC                      >  SRR4302537.231347/1‑94 (MQ=60)
                                                                         AACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGGTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCACCAATC                      >  SRR4302537.3368676/1‑94 (MQ=60)
                                                                          ACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCACCAATCG                     <  SRR4302537.5624342/94‑1 (MQ=60)
                                                                          ACAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCACCAATCG                     >  SRR4302537.3595295/1‑94 (MQ=60)
                                                                           CAACCAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCACCAATCGG                    >  SRR4302537.3085919/1‑94 (MQ=60)
                                                                               CAGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCACCAATCGGGCCA                >  SRR4302537.2299132/1‑94 (MQ=60)
                                                                                AGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCACCAATCGGGCCAT               >  SRR4302537.1006834/1‑94 (MQ=60)
                                                                                AGATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCACCAATCGGGCCAT               >  SRR4302537.5056964/1‑94 (MQ=60)
                                                                                 GATCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCACCAATCGGGCCATT              <  SRR4302537.4954525/94‑1 (MQ=60)
                                                                                  ATCCAGTTTGCTCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCACCAATCGGGCCATTG             <  SRR4302537.3099210/94‑1 (MQ=60)
                                                                                   TCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCACCAATCGGGCCATTGA            >  SRR4302537.2469740/1‑94 (MQ=60)
                                                                                   TCCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCACCAATCGGGCCATTGA            >  SRR4302537.2418294/1‑94 (MQ=60)
                                                                                    CCAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCACCAATCGGGCCATTGAA           >  SRR4302537.3900415/1‑94 (MQ=60)
                                                                                     CAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCACCAATCGGGCCATTGAAC          <  SRR4302537.5651351/94‑1 (MQ=60)
                                                                                     CAGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCACCAATCGGGCCATTGAAC          <  SRR4302537.1201778/94‑1 (MQ=60)
                                                                                      AGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCACCAATCGGGCCATTGAACG         >  SRR4302537.5487087/1‑94 (MQ=60)
                                                                                      AGTTTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCACCAATCGGGCCATTGAACG         <  SRR4302537.6156753/94‑1 (MQ=60)
                                                                                         TTGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCACCAATCGGGCCATTGAACGGAA      <  SRR4302537.4827513/94‑1 (MQ=60)
                                                                                          TGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCACCAATCGGGCCATTGAACGGAAT     >  SRR4302537.2740613/1‑94 (MQ=60)
                                                                                          TGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCACCAATCGGGCCATTGAACGGAAT     >  SRR4302537.4907282/1‑94 (MQ=60)
                                                                                          TGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCACCAATCGGGCCATTGAACGGAAT     <  SRR4302537.2064518/94‑1 (MQ=60)
                                                                                          TGCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGCACTGGCCATTGATGTAACCTACGCGGGCAGAACCCATCGGGCCATTGAACGGAAT     >  SRR4302537.4190508/1‑94 (MQ=60)
                                                                                           GCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCACCAATCGGGCCATTGAACGGAATA    <  SRR4302537.4892682/94‑1 (MQ=60)
                                                                                           GCCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCACCAATCGGGCCATTGAACGGAATA    <  SRR4302537.1454861/94‑1 (MQ=60)
                                                                                            CCCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCACCAATCGGGCCATTGAACGGAATAC   >  SRR4302537.2842736/1‑94 (MQ=60)
                                                                                             CCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCACCAATCGGGCCATTGAACGGAATACC  >  SRR4302537.2545703/1‑94 (MQ=60)
                                                                                             CCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCACCAATCGGGCCATTGAACGGAATACC  <  SRR4302537.1585732/94‑1 (MQ=60)
                                                                                             CCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCACCAATCGGGCCATTGAACGGAATACC  >  SRR4302537.2917003/1‑94 (MQ=60)
                                                                                             |                                                                                             
CGCCCAGCATCTGGTCTTCGCTCAGCAGTTGAGCTTCAGATTCAACCATCAGTACAGCGGCTTCAGTACCGGCAACAACCAGATCCAGTTTGCTCTCTTTCAGCTCGTCCTGAGTCGGGTTCAGTACGTACTGGTCATTGATGTAACCTACGCGGGCAGCACCAATCGGGCCATTGAACGGAATACC  >  NC_000913/3308200‑3308386

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 18 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑