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 I1 R1 1548 369.5 20095359 96.9% 19472402 93.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 1,561,521 C→T S754N (AGC→AAC)  b1489 ← hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,561,5210CT99.6% 915.1 / ‑6.0 260S754N (AGC→AAC) b1489hypothetical protein
Reads supporting (aligned to +/- strand):  ref base C (1/0);  new base T (123/135);  total (125/135)
Fisher's exact test for biased strand distribution p-value = 4.79e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.83e-01

Only 100 of 273 total aligned reads displayed.

ATATCCCTGAATAACGCGACAGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGCTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAACTTTTGTCAATTTTGATT  >  NC_000913/1561430‑1561610
                                                                                           |                                                                                         
 tatCCCTGAATAACGCGACAGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGttt                                                                                         <  2:9035635/93‑1 (MQ=255)
 tatCCCTGAATAACGCGACAGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGttt                                                                                         >  2:4201797/1‑93 (MQ=255)
 tatCCCTGAATAACGCGACAGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGttt                                                                                         <  1:6469058/93‑1 (MQ=255)
 tatCCCTGAATAACGCGACAGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGttt                                                                                         <  2:4029194/93‑1 (MQ=255)
 tatCCCTGAATAACGCGACAGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGttt                                                                                         >  1:3658560/1‑93 (MQ=255)
    cccTGAATAACGCGACAGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGc                                                                                      <  2:5453815/93‑1 (MQ=255)
      cTGAATAACGCTACAGCGGATCCTGCGTAGCATCTCAAATTGCTCATTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGccc                                                                                    <  2:917001/93‑1 (MQ=255)
       tGAATAACGCGACAGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCa                                                                                   >  1:1426962/1‑93 (MQ=255)
        gAATAACGCGACAGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCaa                                                                                  <  1:2702449/93‑1 (MQ=255)
        gAATAACGCGACAGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCaa                                                                                  <  2:3962580/93‑1 (MQ=255)
         aaTAACGCGACAGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAAt                                                                                 <  1:3778207/93‑1 (MQ=255)
         aaTAACGCGACAGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAAt                                                                                 <  1:4939715/93‑1 (MQ=255)
         aaTAACGCGACAGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAAt                                                                                 <  1:5269516/93‑1 (MQ=255)
           tAACGCGACAGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATgt                                                                               >  1:3139308/1‑92 (MQ=255)
           tAACGCGACAGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGc                                                                               >  1:6012674/1‑93 (MQ=255)
            aaCGCGACAGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCt                                                                              <  1:7117959/93‑1 (MQ=255)
                  aCAGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAAt                                                                        <  1:6561645/93‑1 (MQ=255)
                  aCAGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAAt                                                                        <  2:9669105/93‑1 (MQ=255)
                  aCAGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAAt                                                                        <  2:6974507/93‑1 (MQ=255)
                   cAGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATg                                                                       <  2:7456318/93‑1 (MQ=255)
                    aGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATgg                                                                      <  2:1190041/93‑1 (MQ=255)
                     gTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGc                                                                     >  1:5779886/1‑93 (MQ=255)
                      tGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCt                                                                    >  1:1528160/1‑93 (MQ=255)
                       ggATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCtt                                                                   >  1:1776387/1‑93 (MQ=255)
                         aTCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCa                                                                 >  2:2189044/1‑93 (MQ=255)
                           cTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAg                                                               <  2:6259231/93‑1 (MQ=255)
                           cTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAg                                                               >  1:2419072/1‑93 (MQ=255)
                           cTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAg                                                               >  1:6233438/1‑93 (MQ=255)
                           cTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAg                                                               <  1:5573623/93‑1 (MQ=255)
                            ttGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGt                                                              >  2:7015893/1‑93 (MQ=255)
                              tcGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTaa                                                            <  1:1165230/92‑1 (MQ=255)
                              gCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTaa                                                            <  2:845477/93‑1 (MQ=255)
                              gCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTaa                                                            <  1:382182/93‑1 (MQ=255)
                                gTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGTGGGTTTGCCCAATGCTGGTAATGGCTGTAAGTAAgg                                                          >  2:8946700/1‑93 (MQ=255)
                                gTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAgg                                                          >  1:288790/1‑93 (MQ=255)
                                gTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAgg                                                          >  1:8820621/1‑93 (MQ=255)
                                 tAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGc                                                         >  2:4230347/1‑93 (MQ=255)
                                 tAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGc                                                         >  1:9524464/1‑93 (MQ=255)
                                 tAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGc                                                         >  1:1729005/1‑93 (MQ=255)
                                 tAGCATCTCAAATTGCCCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGc                                                         <  2:7828473/93‑1 (MQ=255)
                                   gCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCaa                                                       <  1:5529945/93‑1 (MQ=255)
                                   gCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCaa                                                       >  1:2196407/1‑93 (MQ=255)
                                    cATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAg                                                      <  2:3669886/93‑1 (MQ=255)
                                     aTCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAgg                                                     >  1:3391136/1‑93 (MQ=255)
                                      tctcAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGa                                                    >  2:7132468/1‑93 (MQ=255)
                                        tcAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATg                                                  <  2:5726870/93‑1 (MQ=255)
                                          aaaTTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCg                                                <  2:1994812/93‑1 (MQ=255)
                                           aaTTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGt                                               >  2:9283629/1‑93 (MQ=255)
                                           aaTTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGCTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGt                                               >  2:9487654/1‑93 (MQ=255)
                                            aTTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGtt                                              <  2:1582186/93‑1 (MQ=255)
                                              tGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGtttt                                            >  2:8637804/1‑93 (MQ=255)
                                                ttctTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTc                                          <  2:80538/92‑1 (MQ=255)
                                                ctctTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTc                                          <  1:3324346/93‑1 (MQ=255)
                                                  ctTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCgg                                        <  2:5277627/93‑1 (MQ=255)
                                                  ctTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCgg                                        >  1:8074381/1‑93 (MQ=255)
                                                   tttGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGt                                       >  1:8277674/1‑93 (MQ=255)
                                                       gTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGa                                   <  2:2798224/93‑1 (MQ=255)
                                                        tttCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAgcc                                  >  2:1229560/1‑91 (MQ=255)
                                                        tttCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGAc                                  <  1:3449974/93‑1 (MQ=255)
                                                          tCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACaa                                <  2:770079/93‑1 (MQ=255)
                                                           cGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAAc                               <  2:2833266/93‑1 (MQ=255)
                                                           cGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAAc                               <  2:4573262/93‑1 (MQ=255)
                                                            gACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACg                              <  1:1595966/93‑1 (MQ=255)
                                                            gACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACg                              >  2:6400321/1‑93 (MQ=255)
                                                            gACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACg                              <  1:7868595/93‑1 (MQ=255)
                                                              cGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGAt                            <  2:2365853/93‑1 (MQ=255)
                                                              cGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGAt                            <  1:5385241/93‑1 (MQ=255)
                                                              cGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGAt                            <  1:5031066/93‑1 (MQ=255)
                                                              cGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGAt                            >  2:3270278/1‑93 (MQ=255)
                                                              cGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGAt                            <  2:3565403/93‑1 (MQ=255)
                                                                 ctgccGCCACGACGGTTAAATTGACGTGTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGAATGCGTTTTGCGGGCAGACAACGATCGa                         <  2:7008840/90‑1 (MQ=255)
                                                                  ttCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGAc                        >  1:9554855/1‑93 (MQ=255)
                                                                   tCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACa                       >  2:5854947/1‑93 (MQ=255)
                                                                    ccGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACaa                      <  2:3133674/93‑1 (MQ=255)
                                                                     cGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACaaa                     >  1:1963313/1‑93 (MQ=255)
                                                                      gCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACaaaa                    <  1:6877843/93‑1 (MQ=255)
                                                                       ccACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAAc                   >  2:294718/1‑93 (MQ=255)
                                                                       ccACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAAc                   >  1:2516421/1‑93 (MQ=255)
                                                                       ccACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAAc                   >  2:6664265/1‑93 (MQ=255)
                                                                        cACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAACt                  >  2:3313300/1‑93 (MQ=255)
                                                                        cACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAACt                  <  1:4042927/93‑1 (MQ=255)
                                                                         ccgacgGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAACtt                 <  2:7550259/92‑1 (MQ=255)
                                                                         acgacgGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAACtt                 >  2:5585961/1‑93 (MQ=255)
                                                                          cgacgGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAACttt                >  1:4458958/1‑93 (MQ=255)
                                                                          cgacgGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAACttt                <  2:7726167/93‑1 (MQ=255)
                                                                           gacgGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAACtttt               >  1:1270078/1‑93 (MQ=255)
                                                                           gacgGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAACtttt               <  2:5930504/93‑1 (MQ=255)
                                                                           gacgGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAACtttt               >  2:1777528/1‑93 (MQ=255)
                                                                             cgGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAACTTTTGt             >  2:6109597/1‑93 (MQ=255)
                                                                             cgGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAACTTTTGt             <  1:9085253/93‑1 (MQ=255)
                                                                              ggTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAACTTTTGTc            >  1:5210941/1‑93 (MQ=255)
                                                                              ggTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAACTTTTGTc            >  2:6779401/1‑93 (MQ=255)
                                                                              ggTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAACTTTTGTc            >  1:8586724/1‑93 (MQ=255)
                                                                              ggTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAACTTTTGTc            >  2:37207/1‑93 (MQ=255)
                                                                               gTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAACTTTTGTCa           >  2:8301102/1‑93 (MQ=255)
                                                                                  aaaTTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAACTTTTGTCAAtt        <  1:6674633/93‑1 (MQ=255)
                                                                                  aaaTTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAACTTTTGTCAAtt        >  2:4297201/1‑93 (MQ=255)
                                                                                   aaTTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAACTTTTGTCAAttt       >  2:131825/1‑93 (MQ=255)
                                                                                      tGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAACTTTTGTCAATTTTGa    <  1:7567420/93‑1 (MQ=255)
                                                                                        aGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAACTTTTGTCAATTTTGAtt  <  1:4887673/93‑1 (MQ=255)
                                                                                           |                                                                                         
ATATCCCTGAATAACGCGACAGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGCTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAACTTTTGTCAATTTTGATT  >  NC_000913/1561430‑1561610

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 30 ≤ 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
AAATATCCCTGAATAACGCGACAGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGCTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAACTTTTGTCAATTTTGATTTCCG  >  NC_000913/1561428‑1561614
                                                                                             |                                                                                             
AAATATCCCTGAATAACGCGACAGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGT                                                                                               <  SRR4302540.5857906/94‑1 (MQ=60)
AAATATCCCTGAATAACGCGACAGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGT                                                                                               >  SRR4302540.1934194/1‑94 (MQ=60)
 AATATGCCTGAATAACGCGACAGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGCT                                                                                              >  SRR4302540.5617914/1‑94 (MQ=60)
 AATATCCCTGAATAACGCGACAGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTT                                                                                              <  SRR4302540.5235071/94‑1 (MQ=60)
  ATATCCCTGAATAACGCGACAGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTT                                                                                             >  SRR4302540.9758521/1‑94 (MQ=60)
  ATATCCCTGAATAACGCGACAGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTT                                                                                             >  SRR4302540.3698615/1‑94 (MQ=60)
  ATATCCCTGAATAACGCGACAGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTT                                                                                             <  SRR4302540.5067269/94‑1 (MQ=60)
  ATATCCCTGAATAACGCGACAGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTT                                                                                             <  SRR4302540.6170114/94‑1 (MQ=60)
   actcaCTGAATCACGCGACAGTGGAGCTGGCGTAGCAGCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCGCGACGGTTAAATTGAGGTTTT                                                                                            <  SRR4302540.6541034/89‑1 (MQ=60)
   TATCCCTGAATAACGCGACAGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTT                                                                                            <  SRR4302540.6541036/94‑1 (MQ=60)
      CCCTGAATAACGCGACAGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCC                                                                                         >  SRR4302540.2293394/1‑94 (MQ=60)
        CTGAATAACGCGACAGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCA                                                                                       >  SRR4302540.2721412/1‑94 (MQ=60)
        CTGAATAACGCGACAGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCA                                                                                       >  SRR4302540.1442409/1‑94 (MQ=60)
          GAATAACGCGACAGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAAT                                                                                     <  SRR4302540.4395367/94‑1 (MQ=60)
          GAATAACGCGACAGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAAT                                                                                     <  SRR4302540.2731607/94‑1 (MQ=60)
           acgaacggggCAGTGGATCTTGCTTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATG                                                                                    <  SRR4302540.3320268/84‑1 (MQ=60)
           AATAACGCGACAGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATG                                                                                    >  SRR4302540.3740673/1‑94 (MQ=60)
           AATAACGCGACAGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATG                                                                                    <  SRR4302540.5327035/94‑1 (MQ=60)
           AATAACGCGACAGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATG                                                                                    <  SRR4302540.3819422/94‑1 (MQ=60)
           AATAACGCGACAGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATG                                                                                    <  SRR4302540.1772061/94‑1 (MQ=60)
           AATAACGCGACAGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATG                                                                                    <  SRR4302540.4993019/94‑1 (MQ=60)
           AATAACGCGACAGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATG                                                                                    >  SRR4302540.5647730/1‑94 (MQ=60)
           AATAACGCGACAGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGACCAATG                                                                                    >  SRR4302540.3358649/1‑94 (MQ=60)
            ATAACGCGACAGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGT                                                                                   >  SRR4302540.3173544/1‑94 (MQ=60)
            ATAACGCGACAGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGC                                                                                   >  SRR4302540.6079349/1‑94 (MQ=60)
             TAACGCGACAGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCCCCACGACGGTTAAATTGAGGTTTTGCCCAATGCT                                                                                  >  SRR4302540.8112620/1‑94 (MQ=60)
              AACGCGACAGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTG                                                                                 <  SRR4302540.7197200/94‑1 (MQ=60)
                 GCGACAGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTA                                                                              <  SRR4302540.6586611/94‑1 (MQ=60)
                 GCGACAGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTA                                                                              >  SRR4302540.2445747/1‑94 (MQ=60)
                  TGACAGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAA                                                                             >  SRR4302540.6780024/1‑94 (MQ=60)
                   GACAGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAAT                                                                            <  SRR4302540.8259994/94‑1 (MQ=60)
                   GACAGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAAT                                                                            <  SRR4302540.3795319/94‑1 (MQ=60)
                   GACAGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAAT                                                                            <  SRR4302540.1590465/94‑1 (MQ=60)
                    CCAGTGGATCTTGCGTTGCATCTAAAATTGCTTTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATG                                                                           <  SRR4302540.5926488/94‑1 (MQ=60)
                    ACAGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATG                                                                           <  SRR4302540.2634617/94‑1 (MQ=60)
                    ACAGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATG                                                                           <  SRR4302540.6634382/94‑1 (MQ=60)
                      AGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGC                                                                         >  SRR4302540.5843736/1‑94 (MQ=60)
                      AGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGC                                                                         >  SRR4302540.5490387/1‑94 (MQ=60)
                       GTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGGCCAATGCTGGTAATGGCT                                                                        >  SRR4302540.6677677/1‑94 (MQ=60)
                       GTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCT                                                                        >  SRR4302540.1545083/1‑94 (MQ=60)
                        TGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTT                                                                       >  SRR4302540.1795672/1‑94 (MQ=60)
                        TGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTT                                                                       >  SRR4302540.1795670/1‑94 (MQ=60)
                        TGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTT                                                                       <  SRR4302540.1744563/94‑1 (MQ=60)
                          GATCTTGCGTAGCATCTCAAATTTCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCA                                                                     <  SRR4302540.8744559/94‑1 (MQ=60)
                          GATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCA                                                                     <  SRR4302540.8744560/94‑1 (MQ=60)
                           ATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAA                                                                    <  SRR4302540.5892354/94‑1 (MQ=60)
                           ATCTTGCGTACCATCTCAAATTGCTCTGTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAA                                                                    <  SRR4302540.38463/94‑1 (MQ=60)
                            TCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGGCGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAG                                                                   <  SRR4302540.3469986/94‑1 (MQ=60)
                            TCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAG                                                                   >  SRR4302540.6302762/1‑94 (MQ=60)
                            TCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAG                                                                   >  SRR4302540.2445147/1‑94 (MQ=60)
                            TCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAG                                                                   <  SRR4302540.6201981/94‑1 (MQ=60)
                            TCTTGCGTAGCATCTCAAATTGCTCTTTGGGTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTGCAAG                                                                   >  SRR4302540.2445145/1‑94 (MQ=60)
                             CTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGT                                                                  <  SRR4302540.5634988/94‑1 (MQ=60)
                             CTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGT                                                                  >  SRR4302540.6958536/1‑94 (MQ=60)
                             CTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGT                                                                  >  SRR4302540.4098166/1‑94 (MQ=60)
                               TGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAA                                                                <  SRR4302540.3384666/94‑1 (MQ=60)
                               TGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAA                                                                >  SRR4302540.3097214/1‑94 (MQ=60)
                                TCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAG                                                               <  SRR4302540.1177318/94‑1 (MQ=60)
                                GCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAG                                                               <  SRR4302540.386133/94‑1 (MQ=60)
                                 CGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGG                                                              <  SRR4302540.3932771/94‑1 (MQ=60)
                                 CGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGG                                                              >  SRR4302540.291641/1‑94 (MQ=60)
                                 CGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGG                                                              >  SRR4302540.8922613/1‑94 (MQ=60)
                                  GTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGC                                                             >  SRR4302540.9637238/1‑94 (MQ=60)
                                  GTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGC                                                             >  SRR4302540.9182427/1‑94 (MQ=60)
                                  GTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGC                                                             >  SRR4302540.1747666/1‑94 (MQ=60)
                                    AGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAA                                                           >  SRR4302540.2220127/1‑94 (MQ=60)
                                    AGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAA                                                           <  SRR4302540.6367234/94‑1 (MQ=60)
                                     GCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAG                                                          <  SRR4302540.559800/94‑1 (MQ=60)
                                     GCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAG                                                          <  SRR4302540.5590849/94‑1 (MQ=60)
                                     GCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAG                                                          <  SRR4302540.3946168/94‑1 (MQ=60)
                                     GCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAG                                                          <  SRR4302540.7260304/94‑1 (MQ=60)
                                      CATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGG                                                         >  SRR4302540.3428133/1‑94 (MQ=60)
                                      CATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGG                                                         <  SRR4302540.6861370/94‑1 (MQ=60)
                                      CATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGG                                                         <  SRR4302540.858145/94‑1 (MQ=60)
                                        TCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGAT                                                       <  SRR4302540.5352528/94‑1 (MQ=60)
                                        TCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGAG                                                       >  SRR4302540.8594811/1‑94 (MQ=60)
                                          TCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGC                                                     <  SRR4302540.6107563/94‑1 (MQ=60)
                                           CAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCG                                                    <  SRR4302540.5143555/94‑1 (MQ=60)
                                           CAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCG                                                    >  SRR4302540.3621841/1‑94 (MQ=60)
                                           CAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCG                                                    <  SRR4302540.1940765/94‑1 (MQ=60)
                                              ATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTT                                                 <  SRR4302540.5295683/94‑1 (MQ=60)
                                                 GCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTC                                              >  SRR4302540.4956996/1‑94 (MQ=60)
                                                 GCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTC                                              <  SRR4302540.4655161/94‑1 (MQ=60)
                                                  CTCTTTGGTTTCGACGCCTTCCTCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCG                                             <  SRR4302540.1459404/94‑1 (MQ=60)
                                                  CTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCG                                             <  SRR4302540.3360816/94‑1 (MQ=60)
                                                  CTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCG                                             >  SRR4302540.2489641/1‑94 (MQ=60)
                                                   TCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGG                                            >  SRR4302540.8168078/1‑94 (MQ=60)
                                                    CTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGT                                           >  SRR4302540.2039335/1‑94 (MQ=60)
                                                    CTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGT                                           <  SRR4302540.552590/94‑1 (MQ=60)
                                                    CTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGT                                           >  SRR4302540.8373824/1‑94 (MQ=60)
                                                     TTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTC                                          <  SRR4302540.5062305/94‑1 (MQ=60)
                                                      TTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCA                                         <  SRR4302540.539344/94‑1 (MQ=60)
                                                      TTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCA                                         <  SRR4302540.4683063/94‑1 (MQ=60)
                                                       TGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAG                                        <  SRR4302540.9257324/94‑1 (MQ=60)
                                                       TGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAG                                        <  SRR4302540.5034521/94‑1 (MQ=60)
                                                          TTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACA                                     <  SRR4302540.3487503/94‑1 (MQ=60)
                                                            TCGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAAC                                   <  SRR4302540.9143552/94‑1 (MQ=60)
                                                             CGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACG                                  <  SRR4302540.3445262/94‑1 (MQ=60)
                                                             CGACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACG                                  <  SRR4302540.1523914/94‑1 (MQ=60)
                                                              GACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGA                                 <  SRR4302540.7960522/94‑1 (MQ=60)
                                                              GACGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGA                                 <  SRR4302540.1613404/94‑1 (MQ=60)
                                                               ACGCCTTCCGCCACGACGGTTTAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGAT                                <  SRR4302540.2991373/94‑1 (MQ=60)
                                                                CGCCTTCCGCCACGACGGTTAAATTTAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATC                               <  SRR4302540.809622/94‑1 (MQ=60)
                                                                CGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATC                               <  SRR4302540.5085508/94‑1 (MQ=60)
                                                                CGCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATC                               <  SRR4302540.5444472/94‑1 (MQ=60)
                                                                 GCCTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCG                              <  SRR4302540.9662016/94‑1 (MQ=60)
                                                                   CTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGAC                            <  SRR4302540.7139744/94‑1 (MQ=60)
                                                                   CTTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGAC                            >  SRR4302540.9667853/1‑94 (MQ=60)
                                                                    TTCCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACA                           >  SRR4302540.9653456/1‑94 (MQ=60)
                                                                      CCGCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAA                         >  SRR4302540.1984640/1‑94 (MQ=60)
                                                                        GCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAAC                       >  SRR4302540.2543603/1‑94 (MQ=60)
                                                                        GCCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAAC                       <  SRR4302540.6954078/94‑1 (MQ=60)
                                                                         CCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAACT                      >  SRR4302540.1389608/1‑94 (MQ=60)
                                                                         CCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAACT                      >  SRR4302540.773997/1‑94 (MQ=60)
                                                                         CCACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAACT                      <  SRR4302540.3589247/94‑1 (MQ=60)
                                                                          CACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAACTT                     >  SRR4302540.1234692/1‑94 (MQ=60)
                                                                          CACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAACTT                     <  SRR4302540.4086511/94‑1 (MQ=60)
                                                                           ACGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAACTTT                    >  SRR4302540.4507293/1‑94 (MQ=60)
                                                                            CGACGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAACTTTT                   >  SRR4302540.1283149/1‑94 (MQ=60)
                                                                               CGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAACTTTTGTC                >  SRR4302540.5267719/1‑94 (MQ=60)
                                                                               CGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAACTTTTGTC                >  SRR4302540.513506/1‑94 (MQ=60)
                                                                               CGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAACTTTTGTC                <  SRR4302540.9194407/94‑1 (MQ=60)
                                                                               CGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAACTTTTGTC                >  SRR4302540.8686543/1‑94 (MQ=60)
                                                                               CGGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAACTTTTGTC                >  SRR4302540.1838296/1‑94 (MQ=60)
                                                                                GGTTAAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAACTTTTGTCA               <  SRR4302540.1634858/94‑1 (MQ=60)
                                                                                    AAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAACTTTTGTCAATTT           <  SRR4302540.6748374/94‑1 (MQ=60)
                                                                                    AAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAACTTTTGTCAATTT           >  SRR4302540.1441240/1‑94 (MQ=60)
                                                                                    AAATTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAACTTTTGTCAATTT           <  SRR4302540.782528/94‑1 (MQ=60)
                                                                                       TTGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAACTTTTGTCAATTTTGT        >  SRR4302540.2764657/1‑94 (MQ=60)
                                                                                        TGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAACTTTTGTCAATTTTGAT       >  SRR4302540.645035/1‑94 (MQ=60)
                                                                                        TGAGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAACTTTTGTCAATTTTGAT       <  SRR4302540.7652311/94‑1 (MQ=60)
                                                                                          AGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAACTTTTGTCAATTTTGATTT     >  SRR4302540.429835/1‑94 (MQ=60)
                                                                                          AGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAACTTTTGTCAATTTTGATTT     <  SRR4302540.6699051/94‑1 (MQ=60)
                                                                                          AGGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAACTTTTGTCAATTTTGATTT     <  SRR4302540.4940193/94‑1 (MQ=60)
                                                                                           GGTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACTATCGACAAAACTTTTGTCAATTTTGATTTC    <  SRR4302540.2758578/94‑1 (MQ=60)
                                                                                            GTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAACTTTTGTCAATTTTGATTTCC   >  SRR4302540.1633850/1‑94 (MQ=60)
                                                                                            GTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAACTTTTGTCAATTTTGATTTCC   <  SRR4302540.3898369/94‑1 (MQ=60)
                                                                                            GTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAACTTTTGTCAATTTTGATTTCC   >  SRR4302540.1545737/1‑94 (MQ=60)
                                                                                            GTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAACTTTTGTCAATTTTGATTTCC   >  SRR4302540.1545736/1‑94 (MQ=60)
                                                                                            GTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAACTTTTGTCAATTTTGATTTCC   <  SRR4302540.5644996/94‑1 (MQ=60)
                                                                                            GTTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAACTTTTGTCAATTTTGATTTCC   <  SRR4302540.9378650/94‑1 (MQ=60)
                                                                                            GTTTTGCCCAATGCTGGTAATGGCATCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAACTTTTGTCAATTTTGATTTCC   <  SRR4302540.6997164/94‑1 (MQ=60)
                                                                                             TTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAACTTTTGTCAATTTTGATTTCCG  >  SRR4302540.4651597/1‑94 (MQ=60)
                                                                                             |                                                                                             
AAATATCCCTGAATAACGCGACAGTGGATCTTGCGTAGCATCTCAAATTGCTCTTTGGTTTCGACGCCTTCCGCCACGACGGTTAAATTGAGGCTTTGCCCAATGCTGGTAATGGCTTCAAGTAAGGCAAGGATGCGTTTTTCGGTCAGACAACGATCGACAAAACTTTTGTCAATTTTGATTTCCG  >  NC_000913/1561428‑1561614

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 2 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑