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 1,962,105 C→T A324T (GCC→ACC)  flhA ← FlhA

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,962,1050CT99.6% 871.3 / ‑5.4 248A324T (GCC→ACC) flhAFlhA
Reads supporting (aligned to +/- strand):  ref base C (1/0);  new base T (99/147);  total (101/147)
Fisher's exact test for biased strand distribution p-value = 4.05e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.93e-01

Only 100 of 261 total aligned reads displayed.

ACGTCGCTTCGACAACGGTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCAGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGCCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGCCGAGTAAACCGAGCACGGCGGCGCTTA  >  NC_000913/1962015‑1962194
                                                                                          |                                                                                         
aCGTCGCTTCGACAACGGTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCa                                                                                         >  2:5722316/1‑93 (MQ=255)
 cGTCGCTTCGACAACGGTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAg                                                                                        >  1:8862294/1‑93 (MQ=255)
 cGTCGCTTCGACAACGGTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAg                                                                                        >  2:1322506/1‑93 (MQ=255)
   tCGCTTCGACAACGGTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTTTTCGCGTCCGCGTATCCACCAGGTCAGcc                                                                                      >  1:7274418/1‑93 (MQ=255)
   tCGCTTCGACAACGGTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGcc                                                                                      >  1:8185755/1‑93 (MQ=255)
   tCGCTTCGACAACGGTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGcc                                                                                      >  2:4232235/1‑93 (MQ=255)
   tCGCTTCGACAACGGTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGcc                                                                                      >  2:9096148/1‑93 (MQ=255)
     gCTTCGACAACGGTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCg                                                                                    <  1:5535899/93‑1 (MQ=255)
     gCTTCGACAACGGTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCg                                                                                    >  2:8474836/1‑93 (MQ=255)
          gACAACGGTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCaa                                                                               <  1:1332339/93‑1 (MQ=255)
          gACAACGGTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCaa                                                                               >  2:4894805/1‑93 (MQ=255)
           aCAACGGTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAAt                                                                              >  1:5783320/1‑93 (MQ=255)
            cAACGGTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATc                                                                             <  2:7453715/93‑1 (MQ=255)
            cAACGGTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATc                                                                             <  2:2080549/93‑1 (MQ=255)
            cAACGGTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATc                                                                             >  1:5116604/1‑93 (MQ=255)
            cAACGGTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATc                                                                             >  2:5803466/1‑93 (MQ=255)
            cAACGGTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATc                                                                             <  2:3000222/93‑1 (MQ=255)
            cAACGGTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATc                                                                             <  2:3113072/93‑1 (MQ=255)
            cAACGGTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATc                                                                             >  2:5084770/1‑93 (MQ=255)
             aaCGGTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAGTcc                                                                            <  1:3203504/93‑1 (MQ=255)
             aaCGGTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATcc                                                                            <  1:4947346/93‑1 (MQ=255)
              aCGGTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCg                                                                           <  1:4332226/93‑1 (MQ=255)
              aCGGTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCg                                                                           <  2:9542860/93‑1 (MQ=255)
              aCGGTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCg                                                                           >  1:5418172/1‑93 (MQ=255)
                 gTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCa                                                                        <  1:6046718/93‑1 (MQ=255)
                  tattatTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAg                                                                       <  2:1801658/93‑1 (MQ=255)
                   attattCTCTGCCATTTTTACCGGTTTTGGTTCGGCTGGCGGTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGTCCCAGCCCTACGGCAGt                                                                      >  2:6192596/1‑93 (MQ=255)
                    ttattCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCGGGTCAGCCCGAGCAATCCGGCAGTg                                                                     >  1:3536479/1‑93 (MQ=255)
                    ttattCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTg                                                                     <  1:7146944/93‑1 (MQ=255)
                    ttattCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTg                                                                     <  1:7518860/93‑1 (MQ=255)
                      attCTCTTCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGaa                                                                   <  1:3755174/93‑1 (MQ=255)
                      attCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGaa                                                                   <  2:8306783/93‑1 (MQ=255)
                      attCCCTGCCATTTTTTCCGGTTTGGGTTCCGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGaa                                                                   <  2:2209426/93‑1 (MQ=255)
                       ttCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAAc                                                                  <  2:6053926/93‑1 (MQ=255)
                       ttCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAAc                                                                  <  2:4773086/93‑1 (MQ=255)
                        tctcTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACa                                                                 <  2:3496875/93‑1 (MQ=255)
                        tctcTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACa                                                                 >  1:4131022/1‑93 (MQ=255)
                        tctcTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGCCAGCCCGAGCAATCCGGCAGGGAACa                                                                 >  1:5215542/1‑93 (MQ=255)
                        tcgctGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACa                                                                 <  1:3236070/90‑1 (MQ=255)
                          tctGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGc                                                               >  2:1124778/1‑93 (MQ=255)
                               cATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCaaaaa                                                          <  2:6440937/93‑1 (MQ=255)
                                aTTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAAt                                                         >  1:2304988/1‑93 (MQ=255)
                                 tttttACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATa                                                        >  1:5837178/1‑93 (MQ=255)
                                 tttttACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATa                                                        >  2:8384358/1‑93 (MQ=255)
                                   tttACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATAcc                                                      <  2:1823681/93‑1 (MQ=255)
                                    ttACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCa                                                     <  1:2148092/93‑1 (MQ=255)
                                     tACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAg                                                    >  2:5394590/1‑93 (MQ=255)
                                     tACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAg                                                    <  1:5599675/93‑1 (MQ=255)
                                        cGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGtt                                                 <  2:8822040/93‑1 (MQ=255)
                                        cGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGtt                                                 <  2:4089040/93‑1 (MQ=255)
                                         ggTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTc                                                >  2:591575/1‑93 (MQ=255)
                                         ggTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTc                                                <  1:364418/93‑1 (MQ=255)
                                          gTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCg                                               >  2:384797/1‑93 (MQ=255)
                                           tttGGGTTCGGCTTGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCgg                                              >  1:9819540/1‑93 (MQ=255)
                                           tttGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCgg                                              <  1:6833384/93‑1 (MQ=255)
                                            ttGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGc                                             >  2:4367064/1‑93 (MQ=255)
                                             tGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCa                                            >  1:1733523/1‑93 (MQ=255)
                                             tGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCa                                            <  1:3890212/93‑1 (MQ=255)
                                             tGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTACCCACCAGGACAGCCCGAGCAATCCGTCAGTGACCAGCAAAAATACCAGGCTCGGCa                                            <  2:6880433/93‑1 (MQ=255)
                                              gggTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCAt                                           <  1:5721876/93‑1 (MQ=255)
                                              gggTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCAt                                           >  1:5004505/1‑93 (MQ=255)
                                               ggTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCAtt                                          <  1:3104548/93‑1 (MQ=255)
                                                gTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTc                                         <  1:9994175/93‑1 (MQ=255)
                                                 ttCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTcc                                        >  1:8115515/1‑93 (MQ=255)
                                                  tCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCa                                       <  1:6091802/93‑1 (MQ=255)
                                                  gcGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCa                                       <  1:7581158/92‑1 (MQ=255)
                                                   cGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAg                                      <  1:8023616/93‑1 (MQ=255)
                                                   cGGCTGACGCTTTTTAAACACGTCCGCGAATCCACAAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAg                                      <  2:8958166/93‑1 (MQ=255)
                                                    ggCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAgg                                     <  2:1638210/93‑1 (MQ=255)
                                                     gctggCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGc                                    >  2:754449/4‑93 (MQ=255)
                                                     gctggCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGc                                    <  1:7645895/90‑1 (MQ=255)
                                                     gctggCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGc                                    <  1:1011365/90‑1 (MQ=255)
                                                       tggCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCAc                                  >  1:7913765/2‑93 (MQ=255)
                                                        ggCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCAcc                                 >  2:9639444/1‑93 (MQ=255)
                                                        ggCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCAcc                                 >  1:1171118/1‑93 (MQ=255)
                                                         gcgcTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCa                                <  1:9526396/93‑1 (MQ=255)
                                                            cTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGc                             >  1:6352573/1‑93 (MQ=255)
                                                            cTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGc                             <  2:6663457/93‑1 (MQ=255)
                                                            cTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGc                             <  1:9049819/93‑1 (MQ=255)
                                                             tttttGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGcc                            >  1:283761/1‑93 (MQ=255)
                                                                  gTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGCCGAGTa                       >  2:1504693/1‑93 (MQ=255)
                                                                   ttCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGCCGAGTaa                      >  1:8544257/1‑93 (MQ=255)
                                                                    tCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGCCGAGTaaa                     <  2:2758916/93‑1 (MQ=255)
                                                                     cgcgTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGCCGAGTAAAc                    <  1:7807972/93‑1 (MQ=255)
                                                                     cgcgTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGCCGAGTAAAc                    <  2:9190944/93‑1 (MQ=255)
                                                                     cgcgTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGCCGAGTAAAc                    <  2:7746931/93‑1 (MQ=255)
                                                                     cgcgTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGCCGAGTAAAc                    <  1:9396134/93‑1 (MQ=255)
                                                                     cgcgTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGCCGAGTAAAc                    >  2:2548080/1‑93 (MQ=255)
                                                                       cgTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGCCGAGTAAACCg                  <  2:5338718/93‑1 (MQ=255)
                                                                       cgTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGCCGAGTAAACCg                  >  1:6487201/1‑93 (MQ=255)
                                                                         tCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGCCGAGTAAACCGAg                >  1:2406403/1‑93 (MQ=255)
                                                                              gTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGCCGAGTAAACCGAGCAcgg           <  2:2365322/93‑1 (MQ=255)
                                                                               tATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGCCGAGTAAACCGAGCAcggc          <  2:8561924/93‑1 (MQ=255)
                                                                               tATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGCCGAGTAAACCGAGCAcggc          <  1:2583525/93‑1 (MQ=255)
                                                                                aTCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGCCGAGTAAACCGAGCAcggcg         <  1:1577628/93‑1 (MQ=255)
                                                                                aTCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGCCGAGTAAACCGAGCAcggcg         >  2:3180261/1‑93 (MQ=255)
                                                                                    accaGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCATGCACCAGGCCGAGGAAACCGAGCACGGCGgcgc     >  2:9305066/1‑93 (MQ=255)
                                                                                    accaGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGCCGAGTAAACCGAGCACGgcggcgt     >  1:2960184/1‑92 (MQ=255)
                                                                                    accaGGTCAGCACGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGCCGAGTAAACCGAGCACGGCGgcgc     <  2:5897227/93‑1 (MQ=255)
                                                                                       aGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGCCGAGTAAACCGAGCACGGCGGCGCTTa  <  2:568906/93‑1 (MQ=255)
                                                                                          |                                                                                         
ACGTCGCTTCGACAACGGTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCAGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGCCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGCCGAGTAAACCGAGCACGGCGGCGCTTA  >  NC_000913/1962015‑1962194

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

BRESEQ :: bam2aln output
TCCACGTCGCTTCGACAACGGTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCAGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGCCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGCCGAGTAAACCGAGCACGGCGGCGCTTAACA  >  NC_000913/1962012‑1962197
                                                                                             |                                                                                            
TCCACGTCGCTTCGACAACGGTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGT                                                                                              <  SRR4302540.6229398/94‑1 (MQ=60)
 CCACGTCGCTTCGACAACGGTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTC                                                                                             >  SRR4302540.2797192/1‑94 (MQ=60)
   ACGTCGCTTCGACAACGGTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAG                                                                                           >  SRR4302540.8964846/1‑94 (MQ=60)
     GTCGCTTCGACAACGGTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTTTTCGCGTCCGCGTATCCACCAGGTCAGCC                                                                                         >  SRR4302540.7355590/1‑94 (MQ=60)
     GTCGCTTCGACAACGGTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCC                                                                                         >  SRR4302540.8280848/1‑94 (MQ=60)
      TCGCTTCGACAACGGTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCC                                                                                        <  SRR4302540.10035238/94‑1 (MQ=60)
      TCGCTTCGACAACGGTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCC                                                                                        <  SRR4302540.261671/94‑1 (MQ=60)
       CGCTTCGAAAAGGGTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCGCCAGGTCAGCCCG                                                                                       <  SRR4302540.2293052/94‑1 (MQ=60)
        GCTTCGACAACGGTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGA                                                                                      >  SRR4302540.7179610/1‑94 (MQ=60)
        GCTTCGACAACGGTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGA                                                                                      <  SRR4302540.5596871/94‑1 (MQ=60)
           TCGACAACGGTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCA                                                                                   <  SRR4302540.8252425/94‑1 (MQ=60)
           TCGACAACGGTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCA                                                                                   <  SRR4302540.5722701/94‑1 (MQ=60)
            CGACAACGGTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCCGGTCACCCCGAGCAA                                                                                  >  SRR4302540.7235024/1‑94 (MQ=60)
            CGACAACGGTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCACGTCAGCCCGAGCAA                                                                                  >  SRR4302540.8932029/1‑94 (MQ=60)
             tgagACGGTATTATTCTCTGCCATTTATAACGGTTTGGGTGCGGCTGGCGCTTGTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAAT                                                                                 <  SRR4302540.1345961/90‑1 (MQ=60)
             GACAACGGTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAAT                                                                                 <  SRR4302540.1346271/94‑1 (MQ=60)
             GACAACGGTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAAT                                                                                 >  SRR4302540.1344777/1‑94 (MQ=60)
             GACAACGGTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAAT                                                                                 >  SRR4302540.5847203/1‑94 (MQ=60)
              ACAACGGTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATC                                                                                >  SRR4302540.5171995/1‑94 (MQ=60)
               CAACGGTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCC                                                                               <  SRR4302540.818317/94‑1 (MQ=60)
               CAACGGTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCC                                                                               >  SRR4302540.3637494/1‑94 (MQ=60)
               CAACGGTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCC                                                                               <  SRR4302540.9946658/94‑1 (MQ=60)
                AACGGTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAGTCCG                                                                              <  SRR4302540.3238296/94‑1 (MQ=60)
                AACGGTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCG                                                                              <  SRR4302540.5000770/94‑1 (MQ=60)
                AACGGTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCG                                                                              >  SRR4302540.5477748/1‑94 (MQ=60)
                 ACGGTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGG                                                                             <  SRR4302540.4379386/94‑1 (MQ=60)
                   GGTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCA                                                                           <  SRR4302540.5096565/94‑1 (MQ=60)
                   GGTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCA                                                                           <  SRR4302540.2930984/94‑1 (MQ=60)
                   GGTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCA                                                                           <  SRR4302540.3932818/94‑1 (MQ=60)
                   GGTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGATCAGCCCGAGCAATCCGGCA                                                                           <  SRR4302540.9525180/94‑1 (MQ=60)
                    GTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAG                                                                          <  SRR4302540.7694351/94‑1 (MQ=60)
                    GTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAG                                                                          <  SRR4302540.3011909/94‑1 (MQ=60)
                    GTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAG                                                                          <  SRR4302540.6113894/94‑1 (MQ=60)
                      ATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCGGGTCAGCCCGAGCAATCCGGCAGTG                                                                        >  SRR4302540.3575092/1‑94 (MQ=60)
                      ATTATTCTCTGCCATTGTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTG                                                                        <  SRR4302540.2361455/94‑1 (MQ=60)
                       TTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGA                                                                       <  SRR4302540.7582899/94‑1 (MQ=60)
                       TTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGA                                                                       <  SRR4302540.7602938/94‑1 (MQ=60)
                       TTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGA                                                                       <  SRR4302540.7226584/94‑1 (MQ=60)
                        TATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCCGTGCA                                                                      >  SRR4302540.8986668/1‑94 (MQ=60)
                         ATTCTCTTCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAAC                                                                     <  SRR4302540.3796141/94‑1 (MQ=60)
                         ATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAAC                                                                     >  SRR4302540.7985624/1‑94 (MQ=60)
                         ATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAAC                                                                     >  SRR4302540.5441065/1‑94 (MQ=60)
                         ATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAAC                                                                     >  SRR4302540.4995102/1‑94 (MQ=60)
                          TTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACA                                                                    <  SRR4302540.3788284/94‑1 (MQ=60)
                          TTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACA                                                                    >  SRR4302540.5628120/1‑94 (MQ=60)
                          TTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACA                                                                    <  SRR4302540.1705734/94‑1 (MQ=60)
                          TTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACA                                                                    >  SRR4302540.4175693/1‑94 (MQ=60)
                          TTCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGCCAGCCCGAGCAATCCGGCAGGGAACA                                                                    >  SRR4302540.5272385/1‑94 (MQ=60)
                           TCTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAG                                                                   >  SRR4302540.1519987/1‑94 (MQ=60)
                           TCGCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAG                                                                   <  SRR4302540.3271267/94‑1 (MQ=60)
                           TCCCTGCCATTTTTACCGGTTTGGGCTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAG                                                                   <  SRR4302540.3271266/94‑1 (MQ=60)
                            CTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGC                                                                  >  SRR4302540.3140474/1‑94 (MQ=60)
                            CTCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGC                                                                  >  SRR4302540.3440407/1‑94 (MQ=60)
                             TCTGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCA                                                                 <  SRR4302540.114331/94‑1 (MQ=60)
                               TGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCCCCAGGTCAGCCCGCGCAATACGGCAGCGAACAGCAAA                                                               >  SRR4302540.3889418/1‑94 (MQ=60)
                               TGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCCGGGCAGCCCGAGCAATGCGGCAGTGAACAGGAAA                                                               >  SRR4302540.3889419/1‑94 (MQ=60)
                               TGCCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAA                                                               <  SRR4302540.4839330/94‑1 (MQ=60)
                                 CCATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGAAAAAA                                                             >  SRR4302540.2383276/1‑94 (MQ=60)
                                 CCATTTTTACCGGTTGGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAA                                                             <  SRR4302540.2544900/94‑1 (MQ=60)
                                  CATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAAT                                                            >  SRR4302540.2329790/1‑94 (MQ=60)
                                  CATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAAT                                                            <  SRR4302540.7956008/94‑1 (MQ=60)
                                   ATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATA                                                           >  SRR4302540.5901719/1‑94 (MQ=60)
                                   ATTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATA                                                           <  SRR4302540.8168891/94‑1 (MQ=60)
                                    TTTTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATAC                                                          >  SRR4302540.5002134/1‑94 (MQ=60)
                                      TTTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCA                                                        <  SRR4302540.8399322/94‑1 (MQ=60)
                                       TTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAG                                                       <  SRR4302540.2171189/94‑1 (MQ=60)
                                       TTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAG                                                       >  SRR4302540.684058/1‑94 (MQ=60)
                                       TTACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAG                                                       <  SRR4302540.3579752/94‑1 (MQ=60)
                                        TACCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGG                                                      <  SRR4302540.5661282/94‑1 (MQ=60)
                                          CCGGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTT                                                    <  SRR4302540.2936393/94‑1 (MQ=60)
                                            GGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCG                                                  <  SRR4302540.368165/94‑1 (MQ=60)
                                            GGTTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCG                                                  >  SRR4302540.5894748/1‑94 (MQ=60)
                                             GTTTGGGTTCGGCTTGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGG                                                 >  SRR4302540.9934435/1‑94 (MQ=60)
                                              TTTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGC                                                <  SRR4302540.6909066/94‑1 (MQ=60)
                                               TTGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCA                                               >  SRR4302540.1752232/1‑94 (MQ=60)
                                                TGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCAT                                              <  SRR4302540.3932451/94‑1 (MQ=60)
                                                TGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCAT                                              <  SRR4302540.5260205/94‑1 (MQ=60)
                                                TGGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCAT                                              >  SRR4302540.5058707/1‑94 (MQ=60)
                                                 GGGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATT                                             <  SRR4302540.5784861/94‑1 (MQ=60)
                                                  GGTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTC                                            <  SRR4302540.3138540/94‑1 (MQ=60)
                                                   GTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCC                                           >  SRR4302540.8209702/1‑94 (MQ=60)
                                                   GTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCC                                           >  SRR4302540.8709497/1‑94 (MQ=60)
                                                   GTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCC                                           <  SRR4302540.10110643/94‑1 (MQ=60)
                                                   GTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCC                                           <  SRR4302540.5557275/94‑1 (MQ=60)
                                                   GTTCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCC                                           <  SRR4302540.2730479/94‑1 (MQ=60)
                                                     TCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAG                                         <  SRR4302540.6159603/94‑1 (MQ=60)
                                                     TCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAG                                         <  SRR4302540.6159602/94‑1 (MQ=60)
                                                     TCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAG                                         <  SRR4302540.7666255/94‑1 (MQ=60)
                                                     TCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAG                                         <  SRR4302540.5819821/94‑1 (MQ=60)
                                                     GCGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAG                                         <  SRR4302540.7666256/94‑1 (MQ=60)
                                                      CGGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGG                                        <  SRR4302540.8116929/94‑1 (MQ=60)
                                                       GGCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGC                                       >  SRR4302540.5726490/1‑94 (MQ=60)
                                                        GCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCA                                      <  SRR4302540.7731956/94‑1 (MQ=60)
                                                        GCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCA                                      <  SRR4302540.1021620/94‑1 (MQ=60)
                                                        GCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCA                                      <  SRR4302540.8440160/94‑1 (MQ=60)
                                                        GCTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCA                                      <  SRR4302540.5811586/94‑1 (MQ=60)
                                                         CTGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCAC                                     >  SRR4302540.8006033/1‑94 (MQ=60)
                                                          ctGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACC                                    <  SRR4302540.3212184/92‑1 (MQ=60)
                                                          TGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACC                                    >  SRR4302540.1183241/1‑94 (MQ=60)
                                                          TGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACC                                    >  SRR4302540.553521/1‑94 (MQ=60)
                                                           GGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCA                                   <  SRR4302540.5173478/94‑1 (MQ=60)
                                                            GCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAG                                  <  SRR4302540.8036980/94‑1 (MQ=60)
                                                            GCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAG                                  <  SRR4302540.9639190/94‑1 (MQ=60)
                                                             CGCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGG                                 <  SRR4302540.5903665/94‑1 (MQ=60)
                                                              GCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGC                                >  SRR4302540.6358989/1‑94 (MQ=60)
                                                              GCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGC                                >  SRR4302540.6358990/1‑94 (MQ=60)
                                                              GCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGC                                >  SRR4302540.6423319/1‑94 (MQ=60)
                                                              GCTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGC                                >  SRR4302540.6423606/1‑94 (MQ=60)
                                                               CTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGCC                               <  SRR4302540.9158455/94‑1 (MQ=60)
                                                               CTTTTTGTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGCC                               >  SRR4302540.286556/1‑94 (MQ=60)
                                                                     GTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGCCGAGTAA                         >  SRR4302540.8643526/1‑94 (MQ=60)
                                                                     GTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGCCGAGTAA                         >  SRR4302540.9701270/1‑94 (MQ=60)
                                                                     GTTCGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGCCGAGCAA                         >  SRR4302540.1628764/1‑94 (MQ=60)
                                                                        CGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGCCGAGTAAACC                      <  SRR4302540.9507941/94‑1 (MQ=60)
                                                                        CGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGCCGAGTAAACC                      <  SRR4302540.4289707/94‑1 (MQ=60)
                                                                        CGCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGCCGAGTAAACC                      <  SRR4302540.7899212/94‑1 (MQ=60)
                                                                         GCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGCCGAGTAAACCG                     <  SRR4302540.1966907/94‑1 (MQ=60)
                                                                         GCGTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGCCGAGTAAACCG                     >  SRR4302540.6559345/1‑94 (MQ=60)
                                                                           GTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGCCGAGTAAACCGAG                   >  SRR4302540.2432349/1‑94 (MQ=60)
                                                                           GTCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGCCGAGTAAACCGAG                   >  SRR4302540.9438865/1‑94 (MQ=60)
                                                                            TCCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGCCGAGTAAACCGAGC                  >  SRR4302540.9797865/1‑94 (MQ=60)
                                                                             CCGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGCCGAGTAAACCGAGCA                 >  SRR4302540.7021325/1‑94 (MQ=60)
                                                                              CGCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGCCGAGTAAACCGAGCAC                <  SRR4302540.429656/94‑1 (MQ=60)
                                                                               GCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGACCAGCAAAAATACCAGGTTCGGCATTCCCGGCACCCGGCCGAGTAAACCGACCACG               >  SRR4302540.9290636/1‑94 (MQ=60)
                                                                               GCGTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGCCGAGTAAACCGGGCACG               <  SRR4302540.7895869/94‑1 (MQ=60)
                                                                                 GTATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGCCGAGTAAACCGAGCACGGC             >  SRR4302540.7559065/1‑94 (MQ=60)
                                                                                  TATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGCCGAGTAAACCGAGCACGGCG            <  SRR4302540.2611371/94‑1 (MQ=60)
                                                                                   ATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGCCGAGTAAACCGAGCACtgcgc           >  SRR4302540.6522828/1‑89 (MQ=60)
                                                                                   ATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGCCGAGTAAACCGAGCACGGCGG           <  SRR4302540.3312108/94‑1 (MQ=60)
                                                                                   ATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGCCGAGTAAACCGAGCACGGCGG           <  SRR4302540.1594883/94‑1 (MQ=60)
                                                                                   ATCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGCCGAGTAAACCGAGCACGGCGG           >  SRR4302540.5972338/1‑94 (MQ=60)
                                                                                    TCCACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGCCGAGTAAACCGAGCACGGCGGC          <  SRR4302540.7742958/94‑1 (MQ=60)
                                                                                      CACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGCCGAGTAAACCGAGCACGGCGGCGT        >  SRR4302540.2992817/1‑94 (MQ=60)
                                                                                      CACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGCCGAGTAAACCGAGCACGGCGGCGC        >  SRR4302540.5058779/1‑94 (MQ=60)
                                                                                       ACCAGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGCCGAGTAAACCGAGCACGGCGGCGCT       <  SRR4302540.1826749/94‑1 (MQ=60)
                                                                                          AGGTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGCCGAGTAAACCGAGCACGGCGGCGCTTAA    <  SRR4302540.7628445/94‑1 (MQ=60)
                                                                                            GTCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGCCGAGTAAACCGAGCACGGCGGCGCTTAACA  <  SRR4302540.947670/94‑1 (MQ=60)
                                                                                             |                                                                                            
TCCACGTCGCTTCGACAACGGTATTATTCTCTGCCATTTTTACCGGTTTGGGTTCGGCAGGCGCTTTTTGTTCGCGTCCGCGTATCCACCAGGCCAGCCCGAGCAATCCGGCAGTGAACAGCAAAAATACCAGGTTCGGCATTCCAGGCACCAGGCCGAGTAAACCGAGCACGGCGGCGCTTAACA  >  NC_000913/1962012‑1962197

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 2 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑