Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.
ALE, Flask, Isolate Predicted Mutations Mean Coverage Total Reads Percent Mapped Mapped Reads Average Read Length
A1 F1 I2 R1 882 254.4 12957588 98.0% 12698436 93.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 4,008,491 2 bp→CG intergenic (+58/‑174) b4555 → / → yigM hypothetical protein/hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009134,008,4910GC98.7% 547.7 / ‑3.2 159intergenic (+58/‑175)b4555/yigMhypothetical protein/hypothetical protein
Reads supporting (aligned to +/- strand):  ref base G (0/0);  major base C (72/85);  minor base A (0/2);  total (72/87)
Fisher's exact test for biased strand distribution p-value = 5.01e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.07e-01
*NC_0009134,008,4920CG100.0% 548.8 / NA 159intergenic (+59/‑174)b4555/yigMhypothetical protein/hypothetical protein
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base G (71/88);  total (71/88)

Only 100 of 165 total aligned reads displayed.

AGCTGAAGGATTG‑ATTGCGTT‑‑GTGACGGGATGAACGACGCCGAAATGCTGTCGATGGC‑GGG‑AAA‑G‑CTGCATTATGGGCAGTGGCCACCAGCGTCTGAAAGACCTTCATCCCGAGCT‑GAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTATCTGCGTAAAC  >  NC_000913/4008409‑4008576
                                                                                         ||                                                                                     
gccTGAAGGATTGTATTGCGTTTGGTGACGGGATGAACGACGCCGAAATGCTGTCGATGGCGGGG‑AAAGG‑CTGCATTATGGGCAGTGCgcacc                                                                                   >  1:6135998/3‑93 (MQ=255)
 ccTGAAGGATTGTATTGCGTTTGGTGACGGGATGAACGACGCCGAAATGCTGTCGATGGCGGGG‑AAAGG‑CTGCATTATGGGCAGTGCgcacca                                                                                  >  2:1803524/2‑93 (MQ=255)
  cTGAAGGATTGTATTGCGTTTGGTGACGGGATGAACGACGCCGAAATGCTGTCGATGGCGGGG‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAg                                                                                 >  2:6200664/1‑93 (MQ=255)
  cTGAAGGATTGTATTGCGTTTGGTGACGGGATGAACGACGCCGAAATGCTGTCGATGGCGGGG‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAg                                                                                 >  2:3898226/1‑93 (MQ=255)
   tGAAGGATTGTATTGCGTTTGGTGTCGGGATGAACGACGCCGAAATGCTGTCGATGGCGGGG‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGc                                                                                <  1:6138832/93‑1 (MQ=255)
   tGAAGGATTGTATTGCGTTTGGTGACGGGATGAACGACGCCGAAATGCTGTCGATGGCGGGG‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGc                                                                                <  1:1167811/93‑1 (MQ=255)
     aaGGATTGTATTGCGTTTGGTGACGGGATGAACGACGCCGAAATGCTGTCGATGGCGGGG‑AAA‑GTCTGCATTATGGGCAGTGCGCACCAGCGt                                                                              <  2:5376927/93‑1 (MQ=255)
      aGGATTGTATTGCGTTTGGTGACGGGATGACCGACGCCGAAATGCTGTCGATGGCGGGG‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTc                                                                             <  1:3584364/93‑1 (MQ=255)
      aGGATTGTATTGCGTTTGGTGACGGGATGAACGACGCCGAAATGCTGTCGATGGCGGGG‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTc                                                                             <  2:1668919/93‑1 (MQ=255)
       ggATTGTATTGCGTTTGGTGACGGGATGAACGACGCCGAAATGCTGTCGATGGCGGGG‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTCt                                                                            >  1:5150124/1‑93 (MQ=255)
       ggATTGTATTGCGTTTGGTGACGGGATGAACGACGCCGAAATGCTGTCGATGGCGGGG‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTCt                                                                            >  2:3696911/1‑93 (MQ=255)
                    tttggtgACGGGATGAACGACGCCGAAATGCTGTCGATGGCGGGG‑AAAGG‑CTGCATTATGGCCAGTGCGCACCAGCGTCTGAAAGACCTTCAt                                                               >  1:2149067/5‑93 (MQ=255)
                     ttggtgACGGGATGAACGACGCCGAAATGCTGTCGATGGCGGGG‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACATTCATc                                                              >  1:3443976/4‑93 (MQ=255)
                      tggtgACGGGATGAACGACGCCGAAATGCTGTCGATGGCGGGG‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATcc                                                             <  1:5486743/91‑1 (MQ=255)
                       ggtgACGGGATGAACGACGCCGAAATGCTGTCGATGGCGGGG‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATcac                                                            <  2:2909389/92‑3 (MQ=255)
                        gtgACGGGATGAACGACGCCGAAATGCTGTCGATGGCGGGG‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCg                                                           <  1:1059991/93‑1 (MQ=255)
                        gtgACGGGATGAACGACGCCGAAATGCTGTCGATGGCGGGG‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCg                                                           >  2:3310798/1‑93 (MQ=255)
                          gACGGGATGAACGACGCCGAAATGCTGTCGATGGCGGGG‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAg                                                         >  1:2197154/1‑93 (MQ=255)
                             gggATGAACGACGCCGAAATGCTGTCGATGGCGGGG‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCT‑g                                                     <  1:3819067/93‑1 (MQ=255)
                             gggATGAACGACGCCGAAATGCTGTCGATGGCGGGG‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCT‑g                                                     >  2:1853208/1‑93 (MQ=255)
                              ggATGAACGACGCCGAAATGCTGTCGATGGCGGGG‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCT‑gg                                                    >  2:1105597/1‑92 (MQ=255)
                               gATGAACGACGCCGAAATGCTGTCGATGGCGGGG‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCT‑gga                                                   >  1:654256/1‑91 (MQ=255)
                               gATGAACGACGCCGAAATGCTGTCGATGGCGGGG‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCT‑gga                                                   >  2:1976176/1‑91 (MQ=255)
                                aTGAACGACGCCGAAATGCTGTCGATGGCGGGG‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCT‑ggaa                                                  >  1:5537145/1‑90 (MQ=255)
                                   aaCGACGCCGAAATGCTGTCGATGGCGGGG‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTg                                                >  2:473043/1‑93 (MQ=255)
                                    acgacgCCGAAATGCTGTCGATGGCGGGG‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGa                                               >  1:3137370/1‑93 (MQ=255)
                                    acgacgCCGAAATGCTGTCGATGGCGGGG‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGa                                               >  2:3511753/1‑93 (MQ=255)
                                     cgacgCCGAAATGCTGTCGATGGCGGGG‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGAt                                              >  2:717963/1‑93 (MQ=255)
                                     cgacgCCGAAATGCTGTCGATGGCGGGG‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGAt                                              <  2:3317118/93‑1 (MQ=255)
                                      gacgCCGAAATGCTGTCGATGGCGGGG‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGAtt                                             <  1:4345946/93‑1 (MQ=255)
                                      gacgCCGAAATGCTGTCGATGGCGGGG‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGAtt                                             <  2:4394075/93‑1 (MQ=255)
                                       acgCCGAAATGCTGTCGATGGCGGGG‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTg                                            >  1:6032768/1‑93 (MQ=255)
                                       acgCCGAAATGCTGTCGATGGCGGGG‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTg                                            <  1:5843186/93‑1 (MQ=255)
                                       acgCCGAAATGCTGTCGATGGCGGGG‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTg                                            <  1:3588274/93‑1 (MQ=255)
                                       acgCCGAAATGCTGTCGATGGCGGGG‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTg                                            >  2:5589375/1‑93 (MQ=255)
                                       acgCCGAAATGCTGTCGATGGCGGGG‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTg                                            <  1:3298527/93‑1 (MQ=255)
                                       acgCCGAAATGCTGTCGATGGCGGGG‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTg                                            <  2:1265353/93‑1 (MQ=255)
                                        cgCCGAAATGCTGTCGATGGCGGGG‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTgg                                           <  2:4207724/93‑1 (MQ=255)
                                        cgCCGAAATGCTGTCGATGGCGGGG‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTgg                                           <  1:3340308/93‑1 (MQ=255)
                                          ccGAAATGCTGTCGATGGCGGGG‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTa                                         >  1:6374932/1‑93 (MQ=255)
                                          ccGAAATGCTGTCGATGGCGGGG‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTa                                         <  2:4399691/93‑1 (MQ=255)
                                           cGAAATGCTGTCGATGGCGGGG‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTAc                                        <  2:4015445/93‑1 (MQ=255)
                                           cGAAATGCTGTCGATGGCGGGG‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTAc                                        >  2:4816182/1‑93 (MQ=255)
                                            gAAATGCTGTCGATGGCGGGG‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACt                                       >  2:5430103/1‑93 (MQ=255)
                                              aaTGCTGTCGATGGCGGGG‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTaa                                     <  2:4143029/93‑1 (MQ=255)
                                               aTGCTGTCGATGGCGGGG‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAAt                                    <  1:5864084/93‑1 (MQ=255)
                                               aTGCTGTCGATGGCGGGG‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAAt                                    >  2:2545192/1‑93 (MQ=255)
                                               aTGCTGTCGATGGCGGGG‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAAt                                    <  1:1349698/93‑1 (MQ=255)
                                               aTGCTGTCGATGGC‑GGGTAAAGG‑CTGCATTATGCTCAGTGCGCGCCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAAt                                    <  2:403609/93‑1 (MQ=255)
                                                tGCTGTCGATGGCGGGG‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATg                                   <  2:4883318/93‑1 (MQ=255)
                                                 gCTGTCGATGGCGGGG‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGc                                  <  2:3088535/93‑1 (MQ=255)
                                                  cTGTCGATGGCGGGG‑AAAGG‑CTGCATTATGGGCCGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGCAGTGATTGGTACTAATGcc                                 >  2:4186594/1‑93 (MQ=255)
                                                  cTGTCGATGGCGGGG‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGcc                                 <  2:2685914/93‑1 (MQ=255)
                                                  cTGTCGATGGCGGGG‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGcc                                 <  1:2300294/93‑1 (MQ=255)
                                                   tGTCGATGGCGGGG‑AAATG‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCcg                                >  1:3879453/1‑93 (MQ=255)
                                                    gTCGATGGCGGGG‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCcga                               <  1:5365906/93‑1 (MQ=255)
                                                    gTCGATGGCGGGG‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCcga                               <  2:1555578/93‑1 (MQ=255)
                                                    gTCGATGGCGGGG‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCcga                               >  2:5922856/1‑93 (MQ=255)
                                                     tCGATGGCGGGG‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCcgac                              >  1:4576511/1‑93 (MQ=255)
                                                       gATGGCGGGG‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCcgacga                            <  1:5226036/93‑1 (MQ=255)
                                                       gATGGCGGGG‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCcgacga                            <  1:3291426/93‑1 (MQ=255)
                                                        aTGGCGGGG‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCgacgac                           >  2:1999572/1‑93 (MQ=255)
                                                           gcgggg‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGAcgcg                        <  2:3676546/90‑1 (MQ=255)
                                                            cgggg‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCgg                       <  2:5144113/91‑1 (MQ=255)
                                                            cgggg‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCgg                       <  2:5758642/91‑1 (MQ=255)
                                                             gggg‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGt                      <  2:5286512/92‑1 (MQ=255)
                                                             gggg‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGt                      <  2:321082/92‑1 (MQ=255)
                                                             gggg‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGt                      >  2:736021/2‑93 (MQ=255)
                                                              ggg‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTg                     <  2:5072838/93‑1 (MQ=255)
                                                              ggg‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTg                     >  1:3884871/1‑93 (MQ=255)
                                                               gg‑AAAGG‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGc                    <  1:405514/93‑1 (MQ=255)
                                                                   aagg‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGc                 >  1:4180946/4‑93 (MQ=255)
                                                                   aagg‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGc                 >  1:1984316/4‑93 (MQ=255)
                                                                    atg‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCa                <  1:4654323/91‑1 (MQ=255)
                                                                    agg‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCa                >  2:90026/3‑93 (MQ=255)
                                                                    agg‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCa                <  1:4453228/91‑1 (MQ=255)
                                                                     gg‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCAt               >  1:1112215/2‑93 (MQ=255)
                                                                     gg‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCAt               >  1:2899924/2‑93 (MQ=255)
                                                                      g‑CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCAtt              >  1:2567431/1‑93 (MQ=255)
                                                                        cTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTa             >  1:4137561/1‑93 (MQ=255)
                                                                        cTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTa             <  1:5577129/93‑1 (MQ=255)
                                                                         tGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTAt            <  2:3119856/93‑1 (MQ=255)
                                                                         tGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTAt            <  2:1601560/93‑1 (MQ=255)
                                                                          gCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTATc           <  2:2280005/93‑1 (MQ=255)
                                                                          gCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTATc           <  1:5655668/93‑1 (MQ=255)
                                                                           cATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTATCt          <  1:5946770/93‑1 (MQ=255)
                                                                            aTTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTATCTg         >  1:832625/1‑93 (MQ=255)
                                                                            aTTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTATCTg         >  1:1914102/1‑93 (MQ=255)
                                                                             ttATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGTGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTATCTGc        >  1:3457047/1‑93 (MQ=255)
                                                                             ttATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTATCTGc        <  1:4947162/93‑1 (MQ=255)
                                                                             ttATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTATCTGc        <  1:706195/93‑1 (MQ=255)
                                                                              tATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTATCTGCg       <  1:2939648/93‑1 (MQ=255)
                                                                               aTGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTATCTGCGt      >  1:489583/1‑93 (MQ=255)
                                                                                tGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTATCTGCGTa     >  1:5737194/1‑93 (MQ=255)
                                                                                tGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTATCTGCGTa     >  1:2176586/1‑93 (MQ=255)
                                                                                tGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTATCTGCGTa     >  1:2096878/1‑93 (MQ=255)
                                                                                tGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTATCTGCGTa     >  2:1646150/1‑93 (MQ=255)
                                                                                tGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGACGCATTATCTGCGTa     >  2:4782558/1‑93 (MQ=255)
                                                                                 gggCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTATCTGCGTaa    <  1:1832079/93‑1 (MQ=255)
                                                                                   gCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTATCTGCGTAAAc  >  1:116732/1‑93 (MQ=255)
                                                                                         ||                                                                                     
AGCTGAAGGATTG‑ATTGCGTT‑‑GTGACGGGATGAACGACGCCGAAATGCTGTCGATGGC‑GGG‑AAA‑G‑CTGCATTATGGGCAGTGGCCACCAGCGTCTGAAAGACCTTCATCCCGAGCT‑GAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTATCTGCGTAAAC  >  NC_000913/4008409‑4008576

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

BRESEQ :: bam2aln output
CAGCTGAAGGATTG‑ATTGCGTT‑‑GTGACGGGATGAACGACGCCGAAATGCTGTCGATGGCGGG‑‑AAA‑GCTGCATTATGGGCAGTGGCCACCAGCGTCTGAAAGACCTTCATCCCGAGCT‑GAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTATCTGCGTAAACTC  >  NC_000913/4008408‑4008578
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agcCTGAAGGATTGTATTGCGTTTGGTGACGGGATGAACGACGCCGAAATGCTGTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACC                                                                                     <  SRR4302537.6354651/91‑1 (MQ=60)
agcCTGAAGGATTGTATTGCGTTTGGTGACGGGATGAACGACGCCGAAATGCTGTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACC                                                                                     >  SRR4302537.6178180/4‑94 (MQ=60)
agcCTGAAGGATTGTATTGCGTTTGGTGACGGGATGAACGACGCCGAAATGCTGTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACC                                                                                     <  SRR4302537.736139/91‑1 (MQ=60)
  cctgaaggattgtattgcgcttgGTGACGGGATGAACGACGCCGAAATGCTGTCGATGGCGGGGAAAG‑GCTGGATTATAGGCAGTGCGCACCAG                                                                                   >  SRR4302537.277339/24‑94 (MQ=43)
  CCTGAAGGATTGTATTGCGTTTGGTGACGGGATGAACGACGCCGAAATGCTGTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAG                                                                                   <  SRR4302537.2539279/94‑1 (MQ=60)
   CTGAAGGATTGTATTGCGTTTGGTGACGGGATGAACGACGCCGAAATGCTGTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGC                                                                                  >  SRR4302537.3313670/1‑94 (MQ=60)
    TGAAGGATTGTATTGCGTTTGGTGTCGGGATGAACGACGCCGAAATGCTGTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCG                                                                                 <  SRR4302537.6181042/94‑1 (MQ=46)
    TGAAGGATTGTATTGCGTTTGGTGACGGGATGAACGACGCCGAAATGCTGTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCG                                                                                 <  SRR4302537.1175932/94‑1 (MQ=57)
       AGGATTGTATTGCGTTTGGTGACGGGATGACCGACGCCGAAATGCTGTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCT                                                                              <  SRR4302537.3609632/94‑1 (MQ=46)
       AGGATTGTATTGCGTTTGGTGACGGGATGAACGACGCCGAAATGCTGTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCT                                                                              >  SRR4302537.5185612/1‑94 (MQ=57)
        GGATTGTATTGCGTTTGGTGACGGGATGAACGACGCCGAAATGCTGTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTG                                                                             >  SRR4302537.5500461/1‑94 (MQ=60)
         GATTGTATTGCGTTTGGTGACGGGATGAACGACGCCGAAATGCAGTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGA                                                                            >  SRR4302537.3486948/1‑94 (MQ=50)
           TTGTATTGCGTTTGGTGACGGGATGAACGACGCCGAAATGCTGTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAA                                                                          <  SRR4302537.5184688/94‑1 (MQ=60)
           TTGTATTGCGTTTGGTGACGGGATGAACGACGCCGAAATGCTGTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAA                                                                          >  SRR4302537.6207917/1‑94 (MQ=60)
            tgtattgcgtttgGTGACGGGATGAACGACGCCGAAATGCTGTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGAGCACCAGCGTCTGCAAG                                                                         >  SRR4302537.3745278/14‑94 (MQ=60)
             gtattgcgtttgGTGACGGGATGAACGACGCCGAACTGCTGTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGAGCGCACCAGCGGCTGAAAGA                                                                        >  SRR4302537.1818192/13‑94 (MQ=43)
             gtattgcgtttgGTGACGGGATGAACGACGCCGAAATGCTGTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGA                                                                        <  SRR4302537.5527901/82‑1 (MQ=60)
             gtattgcgtttgGTGACGGGATGAACGACGCCGAAATGCTGTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGA                                                                        >  SRR4302537.2274258/13‑94 (MQ=60)
             T‑ATTGCGTTTGGTGACGGGATGAACGACGCCGAAATGCTGTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGAC                                                                       >  SRR4302537.2462065/1‑94 (MQ=60)
               ATTGCGTTTGGTGACGGGATGAACGACGCCGAAATGCTGTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACC                                                                      <  SRR4302537.5515130/94‑1 (MQ=60)
                TTGCGTTTGGTGACGGGATGAACGACGCCGAAATGCTGTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCT                                                                     <  SRR4302537.3596407/94‑1 (MQ=60)
                TTGCGTTTGGTGACGGGATGAACGACGCCGAAATGCTGTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCT                                                                     <  SRR4302537.5370563/94‑1 (MQ=60)
                 TGCGTTTGGTGACGGGATGAACGACGCCGAAATGCTGTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTT                                                                    <  SRR4302537.2446177/94‑1 (MQ=60)
                  GCGTTTGGTGACGGGATGAACGACGCCGAAATGCTGTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTC                                                                   <  SRR4302537.3933834/94‑1 (MQ=60)
                  GCGTTTGGTGACGGGATGAACGACGCCGAAATGCTGTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTC                                                                   <  SRR4302537.3785303/94‑1 (MQ=60)
                  GCGTTGGGTGACGGGATGAACGACGCCGAAATGCTGTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTC                                                                   <  SRR4302537.5602715/94‑1 (MQ=60)
                   CGTTTGGTGACGGGATGAACGACGCCGAAATGCTGTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCA                                                                  <  SRR4302537.1622734/94‑1 (MQ=60)
                   CGTTTGGTGACGGGATGAACGACGCCGAAATGCTGTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCA                                                                  >  SRR4302537.4124383/1‑94 (MQ=60)
                    gtttgGTGACGGGATGAACGACGCCGAAATGCTGTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCAT                                                                 <  SRR4302537.4320795/89‑1 (MQ=60)
                    gtttgGTGACGGGATGAACGACGCCGAAATGCTGTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCAT                                                                 <  SRR4302537.2336684/89‑1 (MQ=60)
                    gtttgGTGACGGGATGAACGACGCCGAAATGCTGTCGATGGCGGGGAAAG‑GCTGCATTATGGCCAGTGCGCACCAGCGTCTGAAAGACCTTCAT                                                                 >  SRR4302537.2164213/6‑94 (MQ=60)
                     tttgGTGACGGGATGAACGACGCCGAAATGCTGTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATC                                                                <  SRR4302537.1953081/90‑1 (MQ=60)
                     tttgGTGACGGGATGAACGACGCCGAAATGCTGTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACATTCATC                                                                >  SRR4302537.3468341/5‑94 (MQ=60)
                     TG‑‑GTGACGGGATGAACGACGCCGAAATGCTGTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCC                                                              <  SRR4302537.5524195/94‑1 (MQ=60)
                      ttgGTGACGGGATGAACGACGCCGAAATGCTGTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTGATCC                                                               <  SRR4302537.60224/91‑1 (MQ=60)
                      ttgGTGACGGGATGAACGACGCCGAAATGCTGTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCC                                                               <  SRR4302537.3463838/91‑1 (MQ=60)
                         GTGACGGGATGAACGACGCCGAAATGCTGTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGA                                                            <  SRR4302537.1067300/94‑1 (MQ=60)
                          TGACGGGATGAACGACGCCGAAATGCTGTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAG                                                           >  SRR4302537.5674355/1‑94 (MQ=60)
                          TGACGGGATGAACGACGCCGAAATGCTGTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAG                                                           >  SRR4302537.2212634/1‑94 (MQ=60)
                           GACGGGATGAACGACGCCGAAATGCTGTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGC                                                          >  SRR4302537.2831627/1‑94 (MQ=60)
                              GGGATGAACGACGCCGAAATGCTGTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCT‑GG                                                      <  SRR4302537.3845848/94‑1 (MQ=60)
                               GGATGAACGACGCCGAAATGCTGTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCT‑GGA                                                     >  SRR4302537.658712/1‑94 (MQ=60)
                                GATGAACGACGCCGAAATGCTGTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCT‑Ggaa                                                    >  SRR4302537.5574944/1‑91 (MQ=60)
                                 ATGAACGACGCCGAAATGCTGTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAG                                                    >  SRR4302537.6155189/1‑94 (MQ=60)
                                    AACGACGCCGAAATGCTGTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGA                                                 >  SRR4302537.3159390/1‑94 (MQ=60)
                                       GACGCCGAAATGCTGTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTG                                              <  SRR4302537.719372/94‑1 (MQ=60)
                                       GACGCCGAAATGCTGTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTG                                              <  SRR4302537.4376074/94‑1 (MQ=60)
                                       GACGCCGAAATGCTGTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTG                                              >  SRR4302537.6074221/1‑94 (MQ=60)
                                        ACGCCGAAATGCTGTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGG                                             <  SRR4302537.5883250/94‑1 (MQ=60)
                                        ACGCCGAAATGCTGTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGG                                             <  SRR4302537.3613569/94‑1 (MQ=60)
                                        ACGCCGAAATGCTGTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGG                                             <  SRR4302537.3321848/94‑1 (MQ=60)
                                         CGCCGAAATGCTGTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGT                                            <  SRR4302537.3363951/94‑1 (MQ=60)
                                          GCCGAAATGCTGTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTA                                           >  SRR4302537.6418411/1‑94 (MQ=60)
                                              AAATGCTGTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAA                                       >  SRR4302537.5559802/1‑94 (MQ=60)
                                                ATGCTGTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATG                                     <  SRR4302537.5904307/94‑1 (MQ=60)
                                                ATGCTGTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATG                                     <  SRR4302537.1359103/94‑1 (MQ=60)
                                                 TGCTGTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGC                                    >  SRR4302537.4808287/1‑94 (MQ=60)
                                                   CTGTCGATGGCGGGGAAAT‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCG                                  >  SRR4302537.3906584/1‑94 (MQ=60)
                                                   CTGTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCG                                  <  SRR4302537.3087222/94‑1 (MQ=60)
                                                   CTGTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCG                                  <  SRR4302537.2316531/94‑1 (MQ=60)
                                                    TGTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGA                                 >  SRR4302537.6366314/1‑94 (MQ=60)
                                                     GTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGAC                                >  SRR4302537.4608183/1‑94 (MQ=60)
                                                     GTCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGAC                                <  SRR4302537.5402623/94‑1 (MQ=60)
                                                      TCGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACG                               <  SRR4302537.17657/94‑1 (MQ=60)
                                                       CGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGA                              >  SRR4302537.4143157/1‑94 (MQ=60)
                                                       CGATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAACACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGA                              <  SRR4302537.3482756/94‑1 (MQ=60)
                                                        GATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGAC                             <  SRR4302537.5261978/94‑1 (MQ=60)
                                                        GATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGAC                             <  SRR4302537.5845431/94‑1 (MQ=60)
                                                        GATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGAC                             <  SRR4302537.3314682/94‑1 (MQ=60)
                                                         ATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACG                            <  SRR4302537.4427305/94‑1 (MQ=60)
                                                         ATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACG                            >  SRR4302537.5798356/1‑94 (MQ=60)
                                                         ATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACG                            >  SRR4302537.3831549/1‑94 (MQ=60)
                                                         ATGGCGGGGAAAG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACG                            <  SRR4302537.434646/94‑1 (MQ=60)
                                                              cggggaaagGCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGT                        >  SRR4302537.3877279/10‑94 (MQ=60)
                                                              cggggaaagGCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGT                        <  SRR4302537.1195504/85‑1 (MQ=60)
                                                              GGG‑‑AAAGGCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGC                      >  SRR4302537.2197616/1‑94 (MQ=60)
                                                               ggggaaagGCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTG                       >  SRR4302537.3912043/9‑94 (MQ=60)
                                                               GG‑‑AAAGGCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCC                     >  SRR4302537.764196/1‑94 (MQ=60)
                                                               GG‑‑AAAGGCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCC                     <  SRR4302537.408327/94‑1 (MQ=60)
                                                               GG‑‑AAAGGCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCC                     <  SRR4302537.4649800/94‑1 (MQ=60)
                                                               GG‑‑AAAGGCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCC                     >  SRR4302537.1640581/1‑94 (MQ=60)
                                                                   AAAGGCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGC                   >  SRR4302537.4210129/1‑94 (MQ=60)
                                                                   AAAGGCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGC                   >  SRR4302537.1998106/1‑94 (MQ=60)
                                                                    AT‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCAT                 <  SRR4302537.4686509/94‑1 (MQ=60)
                                                                    AG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCAT                 <  SRR4302537.4483983/94‑1 (MQ=60)
                                                                    AG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCAT                 >  SRR4302537.1119897/1‑94 (MQ=60)
                                                                    AG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCAT                 <  SRR4302537.1121632/94‑1 (MQ=60)
                                                                    AG‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCAT                 >  SRR4302537.2920299/1‑94 (MQ=60)
                                                                     G‑GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATT                >  SRR4302537.2585421/1‑94 (MQ=60)
                                                                       GCTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTA               >  SRR4302537.4166424/1‑94 (MQ=60)
                                                                        CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTAT              <  SRR4302537.5493863/94‑1 (MQ=60)
                                                                        CTGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTAT              <  SRR4302537.5615248/94‑1 (MQ=60)
                                                                         TGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTATC             <  SRR4302537.2073792/94‑1 (MQ=60)
                                                                         TGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTATC             >  SRR4302537.6515856/1‑94 (MQ=60)
                                                                         TGCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTATC             >  SRR4302537.3805144/1‑94 (MQ=60)
                                                                          GCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTATCT            <  SRR4302537.4035422/94‑1 (MQ=60)
                                                                          GCATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTATCT            <  SRR4302537.5694370/94‑1 (MQ=60)
                                                                           CATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTATCTG           >  SRR4302537.838321/1‑94 (MQ=60)
                                                                           CATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTATCTG           <  SRR4302537.5987587/94‑1 (MQ=60)
                                                                           CATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTATCTG           >  SRR4302537.1927387/1‑94 (MQ=60)
                                                                           CATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTATCTG           >  SRR4302537.5135983/1‑94 (MQ=60)
                                                                            ATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGTGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTATCTGC          >  SRR4302537.3481489/1‑94 (MQ=60)
                                                                            ATTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTATCTGC          <  SRR4302537.5892905/94‑1 (MQ=60)
                                                                             TTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTATCTGCG         <  SRR4302537.4981269/94‑1 (MQ=60)
                                                                             TTATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTATCTGCG         <  SRR4302537.711024/94‑1 (MQ=60)
                                                                              TATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTATCTGCGT        >  SRR4302537.492945/1‑94 (MQ=60)
                                                                              TATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTATCTGCGT        <  SRR4302537.2960287/94‑1 (MQ=60)
                                                                              TATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTATCTGCGT        >  SRR4302537.2175387/1‑94 (MQ=60)
                                                                               ATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTATCTGCGTA       >  SRR4302537.2191928/1‑94 (MQ=60)
                                                                               ATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTATCTGCGTA       >  SRR4302537.2111664/1‑94 (MQ=60)
                                                                               ATGGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTATCTGCGTA       >  SRR4302537.5776476/1‑94 (MQ=60)
                                                                                 GGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTATCTGCGTAAA     <  SRR4302537.5232410/94‑1 (MQ=60)
                                                                                 GGGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTATCTGCGTAAA     <  SRR4302537.1844839/94‑1 (MQ=60)
                                                                                  GGCAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTATCTGCGTAAAC    >  SRR4302537.117575/1‑94 (MQ=60)
                                                                                  GGCAGTGAGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTATCTGCGTAAAC    <  SRR4302537.2443208/94‑1 (MQ=60)
                                                                                    CAGTGCGCACCAGCGTCTGAAAGACCTTCATCCCGAGCTGGAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTATCTGCGTAAACTC  >  SRR4302537.1282529/1‑94 (MQ=60)
                                                                                         |                                                                                        
CAGCTGAAGGATTG‑ATTGCGTT‑‑GTGACGGGATGAACGACGCCGAAATGCTGTCGATGGCGGG‑‑AAA‑GCTGCATTATGGGCAGTGGCCACCAGCGTCTGAAAGACCTTCATCCCGAGCT‑GAAGTGATTGGTACTAATGCCGACGACGCGGTGCCGCATTATCTGCGTAAACTC  >  NC_000913/4008408‑4008578

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑