Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.
ALE, Flask, Isolate Predicted Mutations Mean Coverage Total Reads Percent Mapped Mapped Reads Average Read Length
A1 F1 I2 R1 593 264.2 13311096 97.8% 13018251 93.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,958,877 2 bp→CG coding (586‑587/2022 nt) rep → rep helicase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,958,8770GC100.0% 1020.6 / NA 274A196R (GCC→CGC) reprep helicase
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base C (115/159);  total (115/159)
*NC_0009133,958,8780CG100.0% 1014.8 / NA 273A196R (GCC→CGC) reprep helicase
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base G (114/159);  total (114/159)

Only 100 of 278 total aligned reads displayed.

TGTTATGGGCTGTATGATGCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAAGCCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGACACCAACACCAGCCAGTATG  >  NC_000913/3958790‑3958964
                                                                                       ||                                                                                      
 gTTATGGGCTGTATGATGCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAAta                                                                                   >  2:1856173/1‑92 (MQ=255)
 gTTATGGGCTGTATGATGCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATg                                                                                   >  2:3441361/1‑93 (MQ=255)
  ttATGGGCTGTATGATGCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATga                                                                                  >  1:4894435/1‑93 (MQ=255)
  ttATGGGCTGTATGATGCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATga                                                                                  <  1:4622651/93‑1 (MQ=255)
   tATGGGCTGTATGATGCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATgaa                                                                                 <  1:3589252/93‑1 (MQ=255)
    aTGGGCTGTATGATGCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATgaag                                                                                <  2:3027593/93‑1 (MQ=255)
    aTGGGCTGTATGATGCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATgaag                                                                                <  2:3571729/93‑1 (MQ=255)
     tGGGCTGTATGATGCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATgaaga                                                                               >  1:2412803/1‑93 (MQ=255)
     tGGGCTGTATGATGCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATgaaga                                                                               <  2:5437056/93‑1 (MQ=255)
      gggCTGTATGATGCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATgaagaa                                                                              >  2:4164723/1‑93 (MQ=255)
      gggCTGTATGATGCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGCTGCTGCTGCAACCCTATgaagaa                                                                              >  1:6461550/1‑93 (MQ=255)
         cTGTATGATGCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTc                                                                           <  1:1995940/93‑1 (MQ=255)
          tGTATGATGCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGCAGAAGTcc                                                                          >  2:3164172/1‑93 (MQ=255)
          tGTATGATGCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTcc                                                                          >  1:3379717/1‑93 (MQ=255)
              tgatgCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCaa                                                                      <  1:4182714/93‑1 (MQ=255)
              tgatgCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCaa                                                                      >  1:5781729/1‑93 (MQ=255)
               gatgCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAg                                                                     >  1:1120799/1‑93 (MQ=255)
                 tgCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAgcg                                                                   >  1:5630360/1‑93 (MQ=255)
                 tgCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAgcg                                                                   >  1:5252698/1‑93 (MQ=255)
                 tgCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAgcg                                                                   >  1:935125/1‑93 (MQ=255)
                  gCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAgcgc                                                                  <  2:4403556/93‑1 (MQ=255)
                  gCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAgcgc                                                                  <  2:6396374/93‑1 (MQ=255)
                   cacaCCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCt                                                                 <  1:4741991/93‑1 (MQ=255)
                   cacaCCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCt                                                                 <  2:271595/93‑1 (MQ=255)
                   cacaCCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCt                                                                 <  2:6485993/93‑1 (MQ=255)
                    ccacCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTg                                                                <  1:3547003/92‑1 (MQ=255)
                    acacCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTg                                                                <  2:4136829/93‑1 (MQ=255)
                     cacCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTgg                                                               >  1:5288540/1‑93 (MQ=255)
                     cacCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTgg                                                               >  2:6222903/1‑93 (MQ=255)
                        cTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAg                                                            <  1:4276312/93‑1 (MQ=255)
                          gAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGaa                                                          >  2:1143793/1‑93 (MQ=255)
                          gAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGaa                                                          <  2:2598357/93‑1 (MQ=255)
                          gAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGaa                                                          >  1:5571647/1‑93 (MQ=255)
                             aGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACaa                                                       >  1:2068402/1‑93 (MQ=255)
                              gCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGAGCTGGCAGAACaaa                                                      >  1:2135013/1‑93 (MQ=255)
                               ccTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACaaaa                                                     >  1:3301064/1‑93 (MQ=255)
                               ccTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACaaaa                                                     >  1:1001154/1‑93 (MQ=255)
                                cTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAAt                                                    >  1:3385636/1‑93 (MQ=255)
                                  gTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTc                                                  <  1:4983309/93‑1 (MQ=255)
                                     aCGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGCACAAAATTCGCt                                               >  1:434019/1‑93 (MQ=255)
                                     aCGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCt                                               >  2:2461830/1‑93 (MQ=255)
                                      cGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTa                                              <  1:1351171/93‑1 (MQ=255)
                                      cGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTa                                              <  2:2061928/93‑1 (MQ=255)
                                      cGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTa                                              >  2:6258150/1‑93 (MQ=255)
                                       gTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTAt                                             <  2:170120/93‑1 (MQ=255)
                                       gTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTAt                                             <  1:670638/93‑1 (MQ=255)
                                        ttCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATc                                            <  1:2460664/93‑1 (MQ=255)
                                           tcGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATctgc                                         <  2:6007736/93‑1 (MQ=255)
                                             gACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATctgctg                                       <  2:5679720/93‑1 (MQ=255)
                                             gACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATctgctg                                       <  1:3346308/93‑1 (MQ=255)
                                               cTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCtggt                                     <  2:5744136/93‑1 (MQ=255)
                                                ttCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCtggtg                                    <  1:3985185/93‑1 (MQ=255)
                                                 tCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCtggtgg                                   <  1:3044824/93‑1 (MQ=255)
                                                  cGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGa                                  <  2:5041049/93‑1 (MQ=255)
                                                   gatgatCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGAt                                 >  1:1531654/1‑93 (MQ=255)
                                                    atgatCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATg                                <  2:4503475/93‑1 (MQ=255)
                                                    atgatCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATg                                >  1:1590331/1‑93 (MQ=255)
                                                     tgatCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGa                               <  1:88582/93‑1 (MQ=255)
                                                     tgatCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGa                               <  1:490283/93‑1 (MQ=255)
                                                      gatCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTTGCTATCTGCTGGTGGATGAg                              >  1:5770226/1‑93 (MQ=255)
                                                       atCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGt                             >  2:1371644/1‑93 (MQ=255)
                                                       atCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGt                             <  1:386848/93‑1 (MQ=255)
                                                       atCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGt                             >  1:2665837/1‑93 (MQ=255)
                                                        tCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTa                            >  1:364404/1‑93 (MQ=255)
                                                        tCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTa                            <  2:2919625/93‑1 (MQ=255)
                                                           taTTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCa                         <  2:5277740/92‑1 (MQ=255)
                                                           gATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCa                         <  2:3431152/93‑1 (MQ=255)
                                                           gATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCa                         <  1:1632410/93‑1 (MQ=255)
                                                              tttATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGa                      <  2:3905366/93‑1 (MQ=255)
                                                               ttATTGCCGACGTTGCTGCTGCAACGCATTGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGac                     <  1:5137781/93‑1 (MQ=255)
                                                               ttATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGac                     <  2:3775375/93‑1 (MQ=255)
                                                                tATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGaca                    >  1:29550/1‑93 (MQ=255)
                                                                 aTTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGacac                   <  2:6586446/93‑1 (MQ=255)
                                                                 aTTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGacac                   <  2:670692/93‑1 (MQ=255)
                                                                 aTTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGacac                   >  2:5835080/1‑93 (MQ=255)
                                                                 aTTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGacac                   <  2:801620/93‑1 (MQ=255)
                                                                 aTTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGacac                   <  2:1937005/93‑1 (MQ=255)
                                                                  ttGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGacacc                  <  1:120506/93‑1 (MQ=255)
                                                                  ttGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGacacc                  >  2:6150356/1‑93 (MQ=255)
                                                                   tGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGacacca                 >  1:6290597/1‑93 (MQ=255)
                                                                     ccGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGacaccaac               <  2:2494950/93‑1 (MQ=255)
                                                                      cGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGacaccaaca              <  1:3809958/93‑1 (MQ=255)
                                                                        aCGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGacaccaacacc            >  2:2288898/1‑93 (MQ=255)
                                                                        aCGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGacaccaacacc            <  2:483539/93‑1 (MQ=255)
                                                                        aCGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGacaccaacaca            >  1:1817768/1‑92 (MQ=255)
                                                                          gTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGACACCAACAccag          >  1:1428036/1‑93 (MQ=255)
                                                                          gTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGACACCAACAccag          <  2:1060459/93‑1 (MQ=255)
                                                                           ttGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGACACTAACAccagc         >  1:5316288/1‑93 (MQ=255)
                                                                            tgctgctgcAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGACACCAACAccagcc        <  2:187922/93‑1 (MQ=255)
                                                                            tgctgctgcAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGACACCAACAccagcc        <  1:3748895/93‑1 (MQ=255)
                                                                            tgctgctgcAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGACACCAACAccagcc        >  1:2866322/1‑93 (MQ=255)
                                                                             gctgctgcAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGACACCAACAccagcca       <  1:5896874/93‑1 (MQ=255)
                                                                              ctgctgcAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGACACCAACAccagccag      >  2:2186764/1‑93 (MQ=255)
                                                                               tgctgcAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGACACCAACACCAGCCAGt     >  2:4589843/1‑93 (MQ=255)
                                                                               tgctgcAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGACACCAACACCAGACAGt     >  1:1454852/1‑93 (MQ=255)
                                                                                gctgcAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGACACCAACACCAGCCAGTa    <  1:6579221/93‑1 (MQ=255)
                                                                                  tgcAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGACACCAACACCAGCCAGTATg  <  2:6017291/93‑1 (MQ=255)
                                                                                  tgcAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGACACCAACACCAGCCAGTATg  <  1:3057383/93‑1 (MQ=255)
                                                                                  tgcAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGACACCAACACCAGCCAGTATg  <  2:5596687/93‑1 (MQ=255)
                                                                                  tgcAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGACACCAACACCAGCCAGTATg  <  2:103490/93‑1 (MQ=255)
                                                                                       ||                                                                                      
TGTTATGGGCTGTATGATGCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAAGCCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGACACCAACACCAGCCAGTATG  >  NC_000913/3958790‑3958964

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
GCCCATTGTTATGGGCTGTATGATGCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAAGCCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGACACCAACACCAGCCAGTATGA  >  NC_000913/3958784‑3958965
                                                                                             |                                                                                        
GCCCATTGTTATGGGCTGTATGATGCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAAC                                                                                          >  SRR4302547.6659214/1‑94 (MQ=60)
     TTGTTATGAGCTTTATGATTTACTCCTGAAAGCCTGTAACGTTCTCGTCTTCTATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAAT                                                                                     <  SRR4302547.4498906/94‑1 (MQ=60)
      TGTTATGGGCTGTATGATGCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATG                                                                                    <  SRR4302547.2222587/94‑1 (MQ=60)
      TGTTATGGGCTGTATGATGCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATG                                                                                    >  SRR4302547.5082469/1‑94 (MQ=60)
      TGTTATGGGCTGTATGATGCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATG                                                                                    <  SRR4302547.5069658/94‑1 (MQ=60)
       GTTATGGGCTGTATGATGCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGA                                                                                   >  SRR4302547.4995807/1‑94 (MQ=60)
        TTATGGGCTGTATGATGCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAA                                                                                  <  SRR4302547.4718376/94‑1 (MQ=60)
        TTATGGGCTGTATGATGCACACCTGAAAGCCCGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAA                                                                                  <  SRR4302547.2174700/94‑1 (MQ=60)
         TATGGGCTGTATGATGCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAG                                                                                 <  SRR4302547.3662473/94‑1 (MQ=60)
          ATGGGCTGTATGATGCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGA                                                                                <  SRR4302547.3805867/94‑1 (MQ=60)
          ATGGGCTGTATGATGCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGA                                                                                >  SRR4302547.2461651/1‑94 (MQ=60)
           TGGGCTGTATGATGCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAA                                                                               <  SRR4302547.1352125/94‑1 (MQ=60)
           TGGGCTGTATGATGCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGCTGCTGCTGCAACCCTATGAAGAA                                                                               >  SRR4302547.6596114/1‑94 (MQ=60)
            GGGCTGTATGATGCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAG                                                                              <  SRR4302547.5403635/94‑1 (MQ=60)
              GCTGTATGATGCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTC                                                                            >  SRR4302547.3081468/1‑94 (MQ=60)
               CTGTATGATGCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCC                                                                           <  SRR4302547.2614400/94‑1 (MQ=60)
               CTGTATGATGCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCC                                                                           >  SRR4302547.6672626/1‑94 (MQ=60)
               CTGTATGATGCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCC                                                                           >  SRR4302547.3448398/1‑94 (MQ=60)
               CTGTATGATGCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCC                                                                           <  SRR4302547.2035645/94‑1 (MQ=60)
                TGTATGATGCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCG                                                                          >  SRR4302547.805682/1‑94 (MQ=60)
                TGTATGATGCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCG                                                                          >  SRR4302547.5722635/1‑94 (MQ=60)
                TGTATGATGCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCG                                                                          <  SRR4302547.5130877/94‑1 (MQ=60)
                 GTATGATGCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGC                                                                         <  SRR4302547.1296963/94‑1 (MQ=60)
                 GTATGATGCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGC                                                                         >  SRR4302547.585621/1‑94 (MQ=60)
                   ATGATGCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAA                                                                       >  SRR4302547.5901314/1‑94 (MQ=60)
                    TGATGCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAG                                                                      <  SRR4302547.1481250/94‑1 (MQ=60)
                    TGATGCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAG                                                                      >  SRR4302547.1143400/1‑94 (MQ=60)
                    TGATGCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAG                                                                      >  SRR4302547.1448098/1‑94 (MQ=60)
                    TGATGCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAG                                                                      <  SRR4302547.4267957/94‑1 (MQ=60)
                      ATGCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCG                                                                    >  SRR4302547.4398278/1‑94 (MQ=60)
                      ATGCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCG                                                                    <  SRR4302547.96657/94‑1 (MQ=60)
                      ATGCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCG                                                                    >  SRR4302547.953223/1‑94 (MQ=60)
                      ATGCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCG                                                                    >  SRR4302547.5746558/1‑94 (MQ=60)
                      ATGCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCG                                                                    >  SRR4302547.5360855/1‑94 (MQ=60)
                        GCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCT                                                                  <  SRR4302547.3713804/94‑1 (MQ=60)
                        GCACACATGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCT                                                                  <  SRR4302547.2207248/94‑1 (MQ=60)
                         CACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTG                                                                 <  SRR4302547.4840262/94‑1 (MQ=60)
                         CACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTG                                                                 <  SRR4302547.3170622/94‑1 (MQ=60)
                          CCACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGG                                                                <  SRR4302547.3619393/94‑1 (MQ=60)
                          ACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGG                                                                >  SRR4302547.5397637/1‑94 (MQ=60)
                             CCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGCCGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAG                                                             <  SRR4302547.1381102/94‑1 (MQ=60)
                             CCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAG                                                             <  SRR4302547.5815754/94‑1 (MQ=60)
                             CCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAG                                                             <  SRR4302547.1519252/94‑1 (MQ=60)
                              CTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGA                                                            <  SRR4302547.4364135/94‑1 (MQ=60)
                               TGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAA                                                           >  SRR4302547.5686537/1‑94 (MQ=60)
                                GAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAAC                                                          >  SRR4302547.2553607/1‑94 (MQ=60)
                                  AAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAA                                                        >  SRR4302547.2109682/1‑94 (MQ=60)
                                   AGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAA                                                       <  SRR4302547.4064872/94‑1 (MQ=60)
                                   AGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGAGCTGGCAGAACAAA                                                       >  SRR4302547.2177539/1‑94 (MQ=60)
                                    GCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAA                                                      <  SRR4302547.4152571/94‑1 (MQ=60)
                                    GCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAA                                                      >  SRR4302547.1020674/1‑94 (MQ=60)
                                    GCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAA                                                      >  SRR4302547.3367508/1‑94 (MQ=60)
                                     CCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAAT                                                     >  SRR4302547.3454494/1‑94 (MQ=60)
                                     CCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAAT                                                     >  SRR4302547.6067955/1‑94 (MQ=60)
                                       TGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTC                                                   >  SRR4302547.2968869/1‑94 (MQ=60)
                                       TGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTC                                                   >  SRR4302547.908391/1‑94 (MQ=60)
                                        GTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCG                                                  <  SRR4302547.5086367/94‑1 (MQ=60)
                                          AACGTTGTCGACTTCGATGATCTGATTTTATGACCGACTTTGCTGCTGCAACGCAATGAGGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCT                                                <  SRR4302547.6739176/94‑1 (MQ=60)
                                          AACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGCACAAAATTCGCT                                                >  SRR4302547.442057/1‑94 (MQ=60)
                                          AACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCT                                                <  SRR4302547.925842/94‑1 (MQ=60)
                                          AACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCT                                                >  SRR4302547.963158/1‑94 (MQ=60)
                                           ACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTA                                               <  SRR4302547.3418603/94‑1 (MQ=60)
                                           ACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTA                                               >  SRR4302547.208388/1‑94 (MQ=60)
                                            CGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTAT                                              <  SRR4302547.1378306/94‑1 (MQ=60)
                                            CGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTAT                                              >  SRR4302547.184247/1‑94 (MQ=60)
                                            CGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTAT                                              <  SRR4302547.1623364/94‑1 (MQ=60)
                                            CGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTAGCTAT                                              >  SRR4302547.2413274/1‑94 (MQ=60)
                                             GTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATC                                             >  SRR4302547.3728976/1‑94 (MQ=60)
                                             GTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATC                                             <  SRR4302547.682977/94‑1 (MQ=60)
                                             GTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATC                                             >  SRR4302547.5432566/1‑94 (MQ=60)
                                             GTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATC                                             >  SRR4302547.1703953/1‑94 (MQ=60)
                                             GTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATC                                             <  SRR4302547.3392759/94‑1 (MQ=60)
                                              gtctgatatgCGATGATCTGATTTTATGGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCT                                            <  SRR4302547.6007912/84‑1 (MQ=60)
                                              TTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCT                                            <  SRR4302547.359025/94‑1 (MQ=60)
                                              TTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCT                                            <  SRR4302547.3112282/94‑1 (MQ=60)
                                              TTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCT                                            <  SRR4302547.2510398/94‑1 (MQ=60)
                                                 TCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCT                                         <  SRR4302547.4541250/94‑1 (MQ=60)
                                                 TCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCT                                         <  SRR4302547.1970452/94‑1 (MQ=60)
                                                   GACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGG                                       <  SRR4302547.1089872/94‑1 (MQ=60)
                                                   GACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGG                                       <  SRR4302547.3414101/94‑1 (MQ=60)
                                                   GACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGG                                       <  SRR4302547.3657360/94‑1 (MQ=60)
                                                    ACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGT                                      <  SRR4302547.4994174/94‑1 (MQ=60)
                                                    ACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGT                                      <  SRR4302547.4999778/94‑1 (MQ=60)
                                                    ACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGT                                      <  SRR4302547.6257254/94‑1 (MQ=60)
                                                     CTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTG                                     <  SRR4302547.2858433/94‑1 (MQ=60)
                                                      TTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGG                                    <  SRR4302547.4066218/94‑1 (MQ=60)
                                                       TCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGA                                   <  SRR4302547.5397010/94‑1 (MQ=60)
                                                       TCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGA                                   <  SRR4302547.3105415/94‑1 (MQ=60)
                                                        TGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGAT                                  >  SRR4302547.477033/1‑94 (MQ=60)
                                                        TGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGAT                                  >  SRR4302547.1562144/1‑94 (MQ=60)
                                                        CGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGAT                                  <  SRR4302547.4731544/94‑1 (MQ=60)
                                                        CGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGAT                                  >  SRR4302547.4102789/1‑94 (MQ=60)
                                                        CGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGAGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGAT                                  >  SRR4302547.3304088/1‑94 (MQ=60)
                                                         GATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATG                                 <  SRR4302547.166079/94‑1 (MQ=60)
                                                         GATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATG                                 <  SRR4302547.2155192/94‑1 (MQ=60)
                                                         GATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATG                                 >  SRR4302547.1621924/1‑94 (MQ=60)
                                                         GATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATG                                 <  SRR4302547.3442968/94‑1 (MQ=60)
                                                          ATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGA                                <  SRR4302547.5293179/94‑1 (MQ=60)
                                                          ATGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGA                                <  SRR4302547.3077281/94‑1 (MQ=60)
                                                           TGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTTGCTATCTGCTGGTGGATGAG                               >  SRR4302547.5889569/1‑94 (MQ=60)
                                                           TGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAG                               <  SRR4302547.2947902/94‑1 (MQ=60)
                                                           TGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAG                               <  SRR4302547.5679189/94‑1 (MQ=60)
                                                           TGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAG                               >  SRR4302547.4657029/1‑94 (MQ=60)
                                                           TGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAG                               <  SRR4302547.499238/94‑1 (MQ=60)
                                                           TGATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAG                               <  SRR4302547.90233/94‑1 (MQ=60)
                                                            GATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGT                              >  SRR4302547.494952/1‑94 (MQ=60)
                                                            GATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGT                              >  SRR4302547.2719400/1‑94 (MQ=60)
                                                             ATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTA                             >  SRR4302547.371172/1‑94 (MQ=60)
                                                             ATCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTA                             <  SRR4302547.394022/94‑1 (MQ=60)
                                                              TCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTAT                            >  SRR4302547.2489851/1‑94 (MQ=60)
                                                              TCTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTAT                            <  SRR4302547.5945696/94‑1 (MQ=60)
                                                               CTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATC                           <  SRR4302547.1202695/94‑1 (MQ=60)
                                                               CTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATC                           <  SRR4302547.1209891/94‑1 (MQ=60)
                                                               CTGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATC                           >  SRR4302547.4389296/1‑94 (MQ=60)
                                                                TGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCA                          <  SRR4302547.2050231/94‑1 (MQ=60)
                                                                TGATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCA                          >  SRR4302547.3454011/1‑94 (MQ=60)
                                                                 GATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAG                         <  SRR4302547.1664715/94‑1 (MQ=60)
                                                                  ATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGG                        >  SRR4302547.6542204/1‑94 (MQ=60)
                                                                  ATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGG                        >  SRR4302547.3889091/1‑94 (MQ=60)
                                                                  ATTTTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGG                        <  SRR4302547.5895906/94‑1 (MQ=60)
                                                                     TTATTGCCGACGTTGCTGCTGCAACGCATTGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGACA                     <  SRR4302547.5243629/94‑1 (MQ=60)
                                                                     TTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGACA                     >  SRR4302547.568617/1‑94 (MQ=60)
                                                                     TTATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGACA                     >  SRR4302547.30087/1‑94 (MQ=60)
                                                                      TATTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGACAC                    <  SRR4302547.836602/94‑1 (MQ=60)
                                                                       attgcgtcCGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGACACC                   <  SRR4302547.5340339/86‑1 (MQ=60)
                                                                        TTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGACACCA                  <  SRR4302547.1618963/94‑1 (MQ=60)
                                                                        TTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGACACCA                  <  SRR4302547.122703/94‑1 (MQ=60)
                                                                        TTGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGACACCA                  >  SRR4302547.6421322/1‑94 (MQ=60)
                                                                         TGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGACACCAA                 >  SRR4302547.1590458/1‑94 (MQ=60)
                                                                         TGCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGACACCAA                 >  SRR4302547.3515836/1‑94 (MQ=60)
                                                                          GCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGACACCAAC                <  SRR4302547.1544758/94‑1 (MQ=60)
                                                                          GCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGACACCAAC                <  SRR4302547.3972532/94‑1 (MQ=60)
                                                                          GCCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGACACCAAC                <  SRR4302547.5342683/94‑1 (MQ=60)
                                                                           CCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGACACCAACA               <  SRR4302547.3856872/94‑1 (MQ=60)
                                                                           CCGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGACACCAACA               <  SRR4302547.5400378/94‑1 (MQ=60)
                                                                            CGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGACACCAACAC              <  SRR4302547.3887609/94‑1 (MQ=60)
                                                                            CGACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGACACCAACAC              <  SRR4302547.285237/94‑1 (MQ=60)
                                                                             GACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGACACCAACACA             >  SRR4302547.1853690/1‑94 (MQ=60)
                                                                              ACGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGACACCAACACCA            >  SRR4302547.3933081/1‑94 (MQ=60)
                                                                               CGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGACACCAACACGAG           <  SRR4302547.4273024/94‑1 (MQ=60)
                                                                               CGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGACACCAACACCAG           <  SRR4302547.3660192/94‑1 (MQ=60)
                                                                               CGTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGACACCAACACCAG           >  SRR4302547.1456601/1‑94 (MQ=60)
                                                                                GTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGACACTAACACCAGC          >  SRR4302547.5425914/1‑94 (MQ=60)
                                                                                GTTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGACACCAACACCAGC          >  SRR4302547.3687975/1‑94 (MQ=60)
                                                                                 TTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGACACCAACACCAGCC         <  SRR4302547.6431673/94‑1 (MQ=60)
                                                                                 TTGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGACACCAACACCAGCC         >  SRR4302547.2923578/1‑94 (MQ=60)
                                                                                  TGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGACACCAACACCAGCCA        <  SRR4302547.3825418/94‑1 (MQ=60)
                                                                                  TGCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGACACCAACACCAGCCA        <  SRR4302547.3368415/94‑1 (MQ=60)
                                                                                   GCTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGACACCAACACCAGCCAG       <  SRR4302547.6018987/94‑1 (MQ=60)
                                                                                    CTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGACACCAACACCAGCCAGT      >  SRR4302547.6016857/1‑94 (MQ=60)
                                                                                    CTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGACACCAACACCAGCCAGT      >  SRR4302547.5127286/1‑94 (MQ=60)
                                                                                    CTGCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGACACCAACACCAGACAGT      >  SRR4302547.1483936/1‑94 (MQ=60)
                                                                                      GCTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGACACCAACACCAGCCAGTAT    <  SRR4302547.6716225/94‑1 (MQ=60)
                                                                                       CTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGACACCAACACCAGCCAGTATG   >  SRR4302547.663255/1‑94 (MQ=60)
                                                                                       CTGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGACACCAACACCAGCCAGTATG   >  SRR4302547.5369453/1‑94 (MQ=60)
                                                                                        TGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGACACCAACACCAGCCAGTATGA  <  SRR4302547.3118225/94‑1 (MQ=60)
                                                                                        TGCAACGCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGACACCAACACCAGCCAGTATGA  >  SRR4302547.2349033/1‑94 (MQ=60)
                                                                                             |                                                                                        
GCCCATTGTTATGGGCTGTATGATGCACACCTGAAAGCCTGTAACGTTCTCGACTTCGATGATCTGATTTTATTGCCGACGTTGCTGCTGCAAGCCAATGAAGAAGTCCGCAAGCGCTGGCAGAACAAAATTCGCTATCTGCTGGTGGATGAGTATCAGGACACCAACACCAGCCAGTATGA  >  NC_000913/3958784‑3958965

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 17 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑