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 593 264.2 13311096 97.8% 13018251 93.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,832,048 A→G R39R (CGT→CGC)  yicI ← hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,832,0480AG86.1% 734.0 / 98.6 281R39R (CGT→CGC) yicIhypothetical protein
Reads supporting (aligned to +/- strand):  ref base A (18/21);  new base G (114/127);  total (132/149)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.03e-01

Only 100 of 293 total aligned reads displayed.

TCAATCCGCACACCGACAATACCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCACGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGAATCAAATTGAGGCCAGGTTGAAT  >  NC_000913/3831956‑3832137
                                                                                            |                                                                                         
tCAATCCGCACACCGACAATACCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCa                                                                                           <  1:1226308/93‑1 (MQ=255)
   aTCCGCACACCGACAATACCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCgg                                                                                        <  2:166713/93‑1 (MQ=255)
    tCCGCACACCGACAATACCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCggg                                                                                       <  2:2247463/93‑1 (MQ=255)
    tCCGCACACCGACAATACCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCggg                                                                                       <  1:6226098/93‑1 (MQ=255)
    tCCGCACACCGACAATACCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCggg                                                                                       <  2:130560/93‑1 (MQ=255)
     ccGCACACCGACAATACCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCgggg                                                                                      <  2:812855/93‑1 (MQ=255)
     ccGCACACCGACAATACCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCgggg                                                                                      >  1:4192453/1‑93 (MQ=255)
       gCACACCGACAATACCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCgggggg                                                                                    >  1:2812380/1‑93 (MQ=255)
       gCACACCGACAATACCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCgggggg                                                                                    <  2:615561/93‑1 (MQ=255)
       ccacaCCGACAATACCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCgggggg                                                                                    <  2:2654407/92‑1 (MQ=255)
        cacaCCGACAATCCCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGgc                                                                                   <  1:1758679/93‑1 (MQ=255)
         acacCGACAATACCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCACGGGGGgca                                                                                  <  1:85/93‑1 (MQ=255)
          cacCGACAATACCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCACGGGGGgcag                                                                                 >  1:6559417/1‑93 (MQ=255)
            ccGACAATACCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGgcagca                                                                               >  1:502898/1‑93 (MQ=255)
             cGACAATACCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCAt                                                                              >  2:5586367/1‑93 (MQ=255)
             cGACAATACCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCAt                                                                              <  2:431599/93‑1 (MQ=255)
             cGACAATACCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCAt                                                                              >  2:5754683/1‑93 (MQ=255)
                  aTACCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCCGCATAGacc                                                                         >  1:6106845/1‑93 (MQ=255)
                  aTACCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGacc                                                                         <  1:4869015/93‑1 (MQ=255)
                    aCCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGaccac                                                                       >  1:6472713/1‑93 (MQ=255)
                    aCCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGaccac                                                                       >  2:475363/1‑93 (MQ=255)
                    aCCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCACGGGGGGCAGCATAGaccac                                                                       >  2:2788655/1‑93 (MQ=255)
                      cTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCACGGGGGGCAGCATAGAccacca                                                                     <  1:721484/93‑1 (MQ=255)
                         ccTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCAttt                                                                  <  1:216519/93‑1 (MQ=255)
                            gtgGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCAt                                                               >  2:1509192/1‑93 (MQ=255)
                            gtgGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCAt                                                               <  2:298929/93‑1 (MQ=255)
                             tgGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCAtt                                                              >  1:5618101/1‑93 (MQ=255)
                              ggggAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTa                                                             >  1:3555754/1‑93 (MQ=255)
                              ggggAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTa                                                             >  1:3027460/1‑93 (MQ=255)
                                ggAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATc                                                           <  1:197295/93‑1 (MQ=255)
                                 gagaAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATcc                                                          <  2:2023447/93‑1 (MQ=255)
                                  agaAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTTCGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCct                                                         <  2:934349/93‑1 (MQ=255)
                                  agaAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCct                                                         <  2:2968068/93‑1 (MQ=255)
                                   gaAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCACAGACCACCATTTCATTATCctg                                                        >  2:3799583/1‑93 (MQ=255)
                                    aaaaaGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCctgc                                                       <  1:626335/93‑1 (MQ=255)
                                     aaaaGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCctgct                                                      <  1:3971027/93‑1 (MQ=255)
                                      aaaGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCctgctg                                                     >  1:1807415/1‑93 (MQ=255)
                                        aGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGtt                                                   >  1:1093287/1‑93 (MQ=255)
                                        aGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGtt                                                   >  2:5863663/1‑93 (MQ=255)
                                          cgcAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCa                                                 >  1:4502435/1‑93 (MQ=255)
                                           gcAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCaa                                                >  2:6071232/1‑93 (MQ=255)
                                            cAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAAc                                               >  2:1845105/1‑93 (MQ=255)
                                             aaCGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAAcc                                              <  2:583138/93‑1 (MQ=255)
                                             aaCGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAAcc                                              <  1:4694375/93‑1 (MQ=255)
                                             aaCGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAAcc                                              <  2:2072896/93‑1 (MQ=255)
                                              aCGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCt                                             <  1:4134120/93‑1 (MQ=255)
                                              aCGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCt                                             >  2:77080/1‑93 (MQ=255)
                                                gTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCACGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCg                                           >  1:4797634/1‑93 (MQ=255)
                                                 taaataaaGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGa                                          <  1:234932/93‑1 (MQ=255)
                                                  aaataaaGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGaa                                         <  1:5368242/93‑1 (MQ=255)
                                                     taaaGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCACGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAacac                                      >  1:2916323/1‑93 (MQ=255)
                                                      aaaGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACAcc                                     <  2:3998523/93‑1 (MQ=255)
                                                       aaGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCt                                    >  1:5150497/1‑93 (MQ=255)
                                                       aaGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCt                                    >  1:3681553/1‑93 (MQ=255)
                                                        aGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTg                                   >  2:1077520/1‑93 (MQ=255)
                                                        aGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTg                                   >  2:4121787/1‑93 (MQ=255)
                                                        aGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTg                                   >  1:1545507/1‑93 (MQ=255)
                                                         ggCGTATCAAGCTGCCAGGTACGTTCACGCACATCACGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGa                                  <  1:329096/93‑1 (MQ=255)
                                                          gCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGaa                                 <  2:3249478/93‑1 (MQ=255)
                                                           cGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAg                                <  1:5124795/93‑1 (MQ=255)
                                                            gTATCAAGCTGGCAGGTGCGTTCACGCACATCACGGGGGGCAGCATAGACCCCCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGc                               <  2:3279086/93‑1 (MQ=255)
                                                            gTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGc                               >  1:3895236/1‑93 (MQ=255)
                                                            gTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGc                               <  2:2577928/93‑1 (MQ=255)
                                                             tATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCg                              >  2:5179288/1‑93 (MQ=255)
                                                              aTCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCgg                             <  2:1029812/93‑1 (MQ=255)
                                                              aTCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCgg                             <  2:6342137/93‑1 (MQ=255)
                                                               tCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCggg                            >  2:3299790/1‑93 (MQ=255)
                                                               tCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCggg                            >  2:5895518/1‑93 (MQ=255)
                                                                cAAGCTGCCAGGTACGTTCCCGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGt                           >  1:6450922/1‑93 (MQ=255)
                                                                cAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGt                           <  2:2460165/93‑1 (MQ=255)
                                                                 aaGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTg                          >  2:5929773/1‑93 (MQ=255)
                                                                 aaGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTg                          >  1:575910/1‑93 (MQ=255)
                                                                  aGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGtca                         <  2:6421235/93‑3 (MQ=255)
                                                                  aGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGa                         >  1:1595541/1‑93 (MQ=255)
                                                                  aGCTGCCAGGTACGTTCACGCACATCACGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGa                         >  1:6017976/1‑93 (MQ=255)
                                                                      gCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGAATCa                     >  1:2602437/1‑93 (MQ=255)
                                                                         aGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGACGCGGGCGAATCAAAt                  >  1:630631/1‑93 (MQ=255)
                                                                         aGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGAATCAAAt                  >  1:1704725/1‑93 (MQ=255)
                                                                          ggTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGAATCAAAtt                 >  2:1157667/1‑93 (MQ=255)
                                                                          ggTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGAATCAAAtt                 <  1:3462858/93‑1 (MQ=255)
                                                                           gTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGAATCAAATTg                <  1:3746557/93‑1 (MQ=255)
                                                                            tACGTTCACGCACATCACGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGAATCAAATTGa               <  1:212670/93‑1 (MQ=255)
                                                                              cGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGAATCAAATTGAgg             >  2:2118676/1‑93 (MQ=255)
                                                                                ttCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGAATCAAATTGAGGcc           >  1:5824879/1‑93 (MQ=255)
                                                                                ttCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGAATCAAATTGAGGca           >  2:1416392/1‑92 (MQ=255)
                                                                                gtCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGAATCAAATTGAGGcc           <  2:5547854/92‑1 (MQ=255)
                                                                                 tCACGCACATCGCGGGGGTCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGAATCAAATTGAGGCCa          <  1:3077752/93‑1 (MQ=255)
                                                                                 tCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGAATCAAATTGAGGCCa          <  2:4510603/93‑1 (MQ=255)
                                                                                 tCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGAATCAAATTGAGGCCa          <  1:4007814/93‑1 (MQ=255)
                                                                                  cACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGAATCAAATTGAGGCCAg         <  2:354418/93‑1 (MQ=255)
                                                                                    cGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGAATCAAATTGAGGCCAGGt       <  2:1958779/93‑1 (MQ=255)
                                                                                    cGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGAATCAAATTGAGGCCAGGt       <  2:4933928/93‑1 (MQ=255)
                                                                                     gCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGAATCAAATTGAGGCCAGGtt      >  2:3513379/1‑93 (MQ=255)
                                                                                     gCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGAATCAAATTGAGGCCAGGtt      <  2:3127528/93‑1 (MQ=255)
                                                                                       acaTCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGGGAATCAAATTGAGGCCAGGTTGa    >  1:4557178/1‑93 (MQ=255)
                                                                                       acaTCACGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGAATCAAATTGAGGCCAGGTTGa    >  2:5694816/1‑93 (MQ=255)
                                                                                        caTCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGAATCAAATTGAGGCCAGGTTGaa   <  1:4400595/93‑1 (MQ=255)
                                                                                        caTCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGAATCAAATTGAGGCCAGGGTGaa   >  2:3431223/1‑93 (MQ=255)
                                                                                         aTCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGAATCAAATTGAGGCCAGGTTGAAt  <  2:5204702/93‑1 (MQ=255)
                                                                                         aTCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGAATCAAATTGAGGCCAGGTTGAAt  <  1:6374935/93‑1 (MQ=255)
                                                                                            |                                                                                         
TCAATCCGCACACCGACAATACCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCACGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGAATCAAATTGAGGCCAGGTTGAAT  >  NC_000913/3831956‑3832137

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 28 ≤ 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
CTCAATCCGCACACCGACAATACCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCACGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGAATCAAATTGAGGCCAGGTTGAATCAAC  >  NC_000913/3831955‑3832141
                                                                                             |                                                                                             
CTCAATCCGCACACCGACAATACCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCG                                                                                               >  SRR4302547.4394108/1‑94 (MQ=60)
 TCAATCCGCACACCGACAATACCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGC                                                                                              <  SRR4302547.3626537/94‑1 (MQ=60)
 TCAATCCGCACACCGACAATACCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCAC                                                                                              <  SRR4302547.1251049/94‑1 (MQ=60)
 TCAATCCGCACACCGACAATACCTTCCTGTGGGGAGAAAAAGAGCAACGTAAATAAAGACGTATCAAGCTGCCAGGTACGTTCACGCACATCGC                                                                                              >  SRR4302547.6178048/1‑94 (MQ=60)
  CAATCCGCACACCGACAATACCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCG                                                                                             <  SRR4302547.4016200/94‑1 (MQ=60)
    ATCCGCACACCGACAATACCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGG                                                                                           <  SRR4302547.6190374/94‑1 (MQ=60)
    ATCCGCACACCGACAATACCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGG                                                                                           <  SRR4302547.4194689/94‑1 (MQ=60)
     tccacccaccaagaataccttcatatagtgagaaaacgaGCAACGAAAATAAAGGCATATCAAGCTGCCAGGTACGTTCACGCACATCACGGGG                                                                                          <  SRR4302547.1469424/55‑1 (MQ=60)
     TCCGCACACCGACAATACCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGG                                                                                          <  SRR4302547.6355412/94‑1 (MQ=60)
     TCCGCACACCGACAATACCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGG                                                                                          >  SRR4302547.4277957/1‑94 (MQ=60)
     ACCGCACACCGACAATACCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCACGGGG                                                                                          <  SRR4302547.643855/94‑1 (MQ=60)
      CCGCACACCGACAATACCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGG                                                                                         <  SRR4302547.2143576/94‑1 (MQ=60)
       CGCACACCGACAATACCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGG                                                                                        >  SRR4302547.2868647/1‑94 (MQ=60)
         CACACCGACAATCCCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCA                                                                                      <  SRR4302547.1793520/94‑1 (MQ=60)
         CACACCGACAATACCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCA                                                                                      >  SRR4302547.3957396/1‑94 (MQ=60)
         CACACCGACAATACCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCACGGGGGGCA                                                                                      <  SRR4302547.4195319/94‑1 (MQ=60)
          ACACCGACAATACCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAG                                                                                     <  SRR4302547.4079207/94‑1 (MQ=60)
          ACACCGACAATACCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCACGGGGGGCAG                                                                                     >  SRR4302547.6696005/1‑94 (MQ=60)
          ACACCGACAATACCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCACGGGGGGCAG                                                                                     <  SRR4302547.89/94‑1 (MQ=60)
           CACCGACAATACCTTCCTGTGGGGAGGAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGC                                                                                    >  SRR4302547.857149/1‑94 (MQ=60)
           CACCGACAATACCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGC                                                                                    <  SRR4302547.4901968/94‑1 (MQ=60)
           CACCGACAATACCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGC                                                                                    >  SRR4302547.5340499/1‑94 (MQ=60)
            ACCGACAATACCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCA                                                                                   >  SRR4302547.512054/1‑94 (MQ=60)
            ACCGACAATACCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCACGGGGGGCAGCA                                                                                   >  SRR4302547.6142574/1‑94 (MQ=60)
             CCGACAATACCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCAT                                                                                  <  SRR4302547.3547882/94‑1 (MQ=60)
             CCGACAATACCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCAT                                                                                  >  SRR4302547.6430780/1‑94 (MQ=60)
              CGACAATACCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCACGGGGGGCAGCATA                                                                                 >  SRR4302547.428051/1‑94 (MQ=60)
                ACAATACCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGA                                                                               <  SRR4302547.3306523/94‑1 (MQ=60)
                  AATACCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCCGCATAGACC                                                                             >  SRR4302547.6233524/1‑94 (MQ=60)
                   ATACCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCA                                                                            <  SRR4302547.4035388/94‑1 (MQ=60)
                   ATACCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCA                                                                            <  SRR4302547.4969916/94‑1 (MQ=60)
                   ATACCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCA                                                                            >  SRR4302547.651755/1‑94 (MQ=60)
                   ATACCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCACGGGGGGCAGCATAGACCA                                                                            >  SRR4302547.5255083/1‑94 (MQ=60)
                    TACCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCAC                                                                           >  SRR4302547.6607488/1‑94 (MQ=60)
                     ACCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACC                                                                          <  SRR4302547.3788943/94‑1 (MQ=60)
                     ACCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACC                                                                          >  SRR4302547.6598451/1‑94 (MQ=60)
                       CTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCAT                                                                        >  SRR4302547.635254/1‑94 (MQ=60)
                       CTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCACGGGGGGCAGCATAGACCACCAT                                                                        <  SRR4302547.734915/94‑1 (MQ=60)
                         TCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTT                                                                      <  SRR4302547.548783/94‑1 (MQ=60)
                          CCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTC                                                                     <  SRR4302547.220603/94‑1 (MQ=60)
                            TGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCAT                                                                   >  SRR4302547.660238/1‑94 (MQ=60)
                            TGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCAT                                                                   >  SRR4302547.2927904/1‑94 (MQ=60)
                             GTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATT                                                                  >  SRR4302547.5734044/1‑94 (MQ=60)
                             GTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATT                                                                  <  SRR4302547.1155818/94‑1 (MQ=60)
                              TGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTA                                                                 >  SRR4302547.3087657/1‑94 (MQ=60)
                              TGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTA                                                                 >  SRR4302547.364578/1‑94 (MQ=60)
                              TGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTA                                                                 >  SRR4302547.3628317/1‑94 (MQ=60)
                               GGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTAT                                                                <  SRR4302547.17526/94‑1 (MQ=60)
                               GGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTAT                                                                <  SRR4302547.3822519/94‑1 (MQ=60)
                               GGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTAT                                                                >  SRR4302547.6633734/1‑94 (MQ=60)
                                GGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATC                                                               <  SRR4302547.6558526/94‑1 (MQ=60)
                                 GGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCC                                                              <  SRR4302547.200979/94‑1 (MQ=60)
                                  GAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCT                                                             >  SRR4302547.4237920/1‑94 (MQ=60)
                                   AGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTG                                                            >  SRR4302547.4759208/1‑94 (MQ=60)
                                   AGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTG                                                            <  SRR4302547.1595522/94‑1 (MQ=60)
                                   AGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATACTG                                                            >  SRR4302547.5882068/1‑94 (MQ=60)
                                    GAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGC                                                           <  SRR4302547.2848481/94‑1 (MQ=60)
                                    GAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGC                                                           <  SRR4302547.2182121/94‑1 (MQ=60)
                                    GAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGC                                                           <  SRR4302547.5195894/94‑1 (MQ=60)
                                    GAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCACGGGGGGCAGCATAGACCACCATTTCATTATCCTGC                                                           >  SRR4302547.480341/1‑94 (MQ=60)
                                     AAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCT                                                          <  SRR4302547.637901/94‑1 (MQ=60)
                                     AAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCT                                                          <  SRR4302547.6173610/94‑1 (MQ=60)
                                     AAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCT                                                          <  SRR4302547.5721044/94‑1 (MQ=60)
                                      AAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTG                                                         >  SRR4302547.1843133/1‑94 (MQ=60)
                                      AAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTG                                                         <  SRR4302547.4051792/94‑1 (MQ=60)
                                       AAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGT                                                        >  SRR4302547.1773225/1‑94 (MQ=60)
                                       AAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGT                                                        >  SRR4302547.2198412/1‑94 (MQ=60)
                                       AAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCACGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGT                                                        >  SRR4302547.6242645/1‑94 (MQ=60)
                                        AAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTT                                                       <  SRR4302547.1668042/94‑1 (MQ=60)
                                        AAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTT                                                       >  SRR4302547.1115206/1‑94 (MQ=60)
                                          GCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCA                                                     >  SRR4302547.4595419/1‑94 (MQ=60)
                                           CGGAACGTAAATAAAGTCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAA                                                    <  SRR4302547.1805056/94‑1 (MQ=60)
                                             CAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACC                                                  >  SRR4302547.3137919/1‑94 (MQ=60)
                                             CAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACC                                                  <  SRR4302547.698772/94‑1 (MQ=60)
                                              AACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCT                                                 >  SRR4302547.1838050/1‑94 (MQ=60)
                                              AACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCT                                                 <  SRR4302547.4791602/94‑1 (MQ=60)
                                              AACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCT                                                 >  SRR4302547.5111303/1‑94 (MQ=60)
                                               ACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTC                                                <  SRR4302547.4218233/94‑1 (MQ=60)
                                               ACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTC                                                <  SRR4302547.522861/94‑1 (MQ=60)
                                                CGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCG                                               <  SRR4302547.1537381/94‑1 (MQ=60)
                                                CGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCACGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCG                                               <  SRR4302547.5757951/94‑1 (MQ=60)
                                                CGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCACGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCG                                               >  SRR4302547.4897048/1‑94 (MQ=60)
                                                 TTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCACGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGA                                              <  SRR4302547.3335486/94‑1 (MQ=60)
                                                  TAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAA                                             >  SRR4302547.5395821/1‑94 (MQ=60)
                                                  TAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAA                                             <  SRR4302547.239349/94‑1 (MQ=60)
                                                  TAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAA                                             >  SRR4302547.5054387/1‑94 (MQ=60)
                                                   AAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAAC                                            <  SRR4302547.5479028/94‑1 (MQ=60)
                                                   AAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAAC                                            >  SRR4302547.6371261/1‑94 (MQ=60)
                                                   AAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAAC                                            <  SRR4302547.3864890/94‑1 (MQ=60)
                                                    AATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACA                                           <  SRR4302547.3011040/94‑1 (MQ=60)
                                                     ATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCACGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACAC                                          >  SRR4302547.2974484/1‑94 (MQ=60)
                                                       AAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTTCTGTTTAACCTCGAACACCT                                        <  SRR4302547.6601153/94‑1 (MQ=60)
                                                       AAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCT                                        >  SRR4302547.5256593/1‑94 (MQ=60)
                                                       AAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCT                                        >  SRR4302547.3756712/1‑94 (MQ=60)
                                                        AAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTG                                       <  SRR4302547.5783845/94‑1 (MQ=60)
                                                        AAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTG                                       >  SRR4302547.1576276/1‑94 (MQ=60)
                                                        AAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCACGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTG                                       <  SRR4302547.4088314/94‑1 (MQ=60)
                                                          GGCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAA                                     <  SRR4302547.5228042/94‑1 (MQ=60)
                                                          GGCGTATCAAGCTGCCAGGTACGTTCACGCACATCACGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAA                                     <  SRR4302547.335219/94‑1 (MQ=60)
                                                           GCGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAG                                    <  SRR4302547.2391013/94‑1 (MQ=60)
                                                           GCGTATCAAGCTGCCAGGTACGTTCACGCACATCACGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAG                                    <  SRR4302547.3658604/94‑1 (MQ=60)
                                                            CGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGC                                   >  SRR4302547.3974437/1‑94 (MQ=60)
                                                            CGTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGC                                   <  SRR4302547.5230391/94‑1 (MQ=60)
                                                            CGTATCAAGCTGCCAGGTACGTTCACGCACATCACGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGA                                   <  SRR4302547.4254137/94‑1 (MQ=60)
                                                             GTATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCG                                  <  SRR4302547.6441177/94‑1 (MQ=60)
                                                              TATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGG                                 <  SRR4302547.2961660/94‑1 (MQ=60)
                                                               aaaAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGGATCATAGCCCTCCATTTCATTATCCTGCTGTTCAACCTCGAACTCCTGAAGCGGG                                <  SRR4302547.2229611/91‑1 (MQ=60)
                                                               ATCAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGG                                >  SRR4302547.1583598/1‑94 (MQ=60)
                                                                TCAAGCTGCCAGGTACGTTCCCGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGT                               >  SRR4302547.6585311/1‑94 (MQ=60)
                                                                 CAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTG                              >  SRR4302547.586239/1‑94 (MQ=60)
                                                                 CAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTG                              <  SRR4302547.6090589/94‑1 (MQ=60)
                                                                 CAAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTG                              >  SRR4302547.944413/1‑94 (MQ=60)
                                                                  AAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGA                             >  SRR4302547.2442839/1‑94 (MQ=60)
                                                                  AAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGA                             >  SRR4302547.4898938/1‑94 (MQ=60)
                                                                  AAGCTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGA                             >  SRR4302547.1627214/1‑94 (MQ=60)
                                                                  AAGCTGCCAGGTACGTTCACGCACATCACGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGA                             >  SRR4302547.6142875/1‑94 (MQ=60)
                                                                     CTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGAATC                          >  SRR4302547.3589270/1‑94 (MQ=60)
                                                                     CTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGAATC                          <  SRR4302547.4859639/94‑1 (MQ=60)
                                                                     CTGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGAATC                          >  SRR4302547.622583/1‑94 (MQ=60)
                                                                      TGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGAATCA                         >  SRR4302547.2660183/1‑94 (MQ=60)
                                                                      TGCCAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGAATCA                         >  SRR4302547.2654893/1‑94 (MQ=60)
                                                                         CAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGACGCGGGCGAATCAAAT                      >  SRR4302547.642283/1‑94 (MQ=60)
                                                                         CAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGAATCAAAT                      >  SRR4302547.1738261/1‑94 (MQ=60)
                                                                         CAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGAATCAAAT                      <  SRR4302547.1948763/94‑1 (MQ=60)
                                                                         CAGGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGAATCAAAT                      <  SRR4302547.68875/94‑1 (MQ=60)
                                                                          ATGTACGTTCACGCACATCGCGGGGTGCAGCATAGACCGCCATTTCATTATCCTGCTGTTCAACCTCTAACTCCTGAAGCGGGTGAATCAAATT                     <  SRR4302547.398648/94‑1 (MQ=60)
                                                                           GGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGAATCAAATTG                    <  SRR4302547.3533470/94‑1 (MQ=60)
                                                                           GGTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGAATCAAATTG                    <  SRR4302547.2012760/94‑1 (MQ=60)
                                                                            GTACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGAATCAAATTGA                   <  SRR4302547.3823033/94‑1 (MQ=60)
                                                                             TACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGAATCAAATTGAG                  <  SRR4302547.4586583/94‑1 (MQ=60)
                                                                             TACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGAATCAAATTGAG                  >  SRR4302547.134046/1‑94 (MQ=60)
                                                                             TACGTTCACGCACATCACGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGAATCAAATTGAG                  <  SRR4302547.216682/94‑1 (MQ=60)
                                                                              ACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGAATCAAATTGAGG                 <  SRR4302547.1855074/94‑1 (MQ=60)
                                                                              ACGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGAATCAAATTGAGG                 >  SRR4302547.3433766/1‑94 (MQ=60)
                                                                               CGTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGAATCAAATTGAGGC                >  SRR4302547.4516109/1‑94 (MQ=60)
                                                                                GTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGAATCAAATTGAGGCC               >  SRR4302547.856816/1‑94 (MQ=60)
                                                                                GTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGAATCAAATTGAGGCC               >  SRR4302547.4626121/1‑94 (MQ=60)
                                                                                GTTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGAATCAAATTGAGGCC               >  SRR4302547.5945426/1‑94 (MQ=60)
                                                                                 TTCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGAATCAAATTGAGGCCA              <  SRR4302547.2558464/94‑1 (MQ=60)
                                                                                  TCACGCACATCGCGGGGGTCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGAATCAAATTGAGGCCAG             <  SRR4302547.3138875/94‑1 (MQ=60)
                                                                                  TCACGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGAATCAAATTGAGGCCAG             <  SRR4302547.4089274/94‑1 (MQ=60)
                                                                                     CGCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGGGAATCAAATTGCGGCCAGGTT          >  SRR4302547.3010421/1‑94 (MQ=60)
                                                                                     CGCACATCACGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGAATCAAATTGAGGCCAGGTT          <  SRR4302547.1656405/94‑1 (MQ=60)
                                                                                      GCACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGAATCAAATTGAGGCCAGGTTG         <  SRR4302547.5937841/94‑1 (MQ=60)
                                                                                       CACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGTACACCTGAAGCGGGTGAATCAAATTGAGGCCAGGTTGA        >  SRR4302547.4611955/1‑94 (MQ=60)
                                                                                       CACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGGGAATCAAATTGAGGCCAGGTTGA        >  SRR4302547.4651456/1‑94 (MQ=60)
                                                                                       CACATCGCAGTGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGAATCAAATTGAGGCCAGGTTGA        <  SRR4302547.4407096/94‑1 (MQ=60)
                                                                                        ACATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGAATCAAATTGAGGCCAGGTTGAA       <  SRR4302547.3435935/94‑1 (MQ=60)
                                                                                         CATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGAATCAAATTGAGGCCAGGTTGAAT      <  SRR4302547.4491212/94‑1 (MQ=60)
                                                                                          ATCGCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGAATCAAATTGAGGCCAGGTTGAATC     <  SRR4302547.6507946/94‑1 (MQ=60)
                                                                                             GCGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGAATCAAATTGAGGCCAGGTTGAATCAAC  >  SRR4302547.1435992/1‑94 (MQ=60)
                                                                                             |                                                                                             
CTCAATCCGCACACCGACAATACCTTCCTGTGGGGAGAAAAAGCGCAACGTAAATAAAGGCGTATCAAGCTGCCAGGTACGTTCACGCACATCACGGGGGGCAGCATAGACCACCATTTCATTATCCTGCTGTTCAACCTCGAACACCTGAAGCGGGTGAATCAAATTGAGGCCAGGTTGAATCAAC  >  NC_000913/3831955‑3832141

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 2 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑