Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.
ALE, Flask, Isolate Predicted Mutations Mean Coverage Total Reads Percent Mapped Mapped Reads Average Read Length
A1 F1 I1 R1 1548 369.5 20095359 96.9% 19472402 93.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 1,983,890 T→C T88A (ACT→GCT)  araF ← L‑arabinose‑binding periplasmic protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,983,8900TC99.2% 809.7 / ‑3.5 255T88A (ACT→GCT) araFL‑arabinose‑binding periplasmic protein
Reads supporting (aligned to +/- strand):  ref base T (2/0);  new base C (127/126);  total (129/126)
Fisher's exact test for biased strand distribution p-value = 4.98e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.60e-01

Only 100 of 262 total aligned reads displayed.

GTTAACAAACTGGTCATCCACGGCAATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGTACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCCGGCACGGCAATCTTAATAA  >  NC_000913/1983801‑1983979
                                                                                         |                                                                                         
gTTAACAAACTGGTCATCCACGGCAATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGcaca                                                                                        >  1:6950942/1‑93 (MQ=255)
  tAACAAACTGGTCATCCACGGCAATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACaaa                                                                                      >  2:4459816/1‑93 (MQ=255)
    aCAAACTGGTCATCCACGGCAATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATa                                                                                    <  2:4579439/93‑1 (MQ=255)
        aCTGGTCATCCACGGCAATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGCTTGGGGTCCGGAGCACAAATAACGa                                                                                >  1:3830517/1‑93 (MQ=255)
          tGGTCATCCACGGCAATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGaaa                                                                              <  2:9884282/93‑1 (MQ=255)
           ggTCATCCACGGCAATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAAc                                                                             >  2:683548/1‑93 (MQ=255)
           ggTCATCCACGGCAATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAAc                                                                             >  2:2111777/1‑93 (MQ=255)
           ggTCATCCACGGCAATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAAc                                                                             >  2:8650580/1‑93 (MQ=255)
            gTCATCCACGGCAATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAAcc                                                                            >  2:1772476/1‑93 (MQ=255)
             tCATCCACGGCAATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCt                                                                           <  1:1324426/93‑1 (MQ=255)
             tCATCCACGGCAATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCt                                                                           <  2:702654/93‑1 (MQ=255)
              cATCCATGGCAATGACTTTAATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCtt                                                                          <  1:2213578/93‑1 (MQ=255)
               aTCCACGGCAATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCttt                                                                         <  1:9907937/93‑1 (MQ=255)
               aTCCACGGCAATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCttt                                                                         >  2:3710553/1‑93 (MQ=255)
                tcaaCGGCAGTGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGGGCACAAATAACGAAACCtttt                                                                        <  2:8970051/90‑1 (MQ=255)
                  cACGGCAATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTgc                                                                      <  2:4390187/93‑1 (MQ=255)
                   aCGGCAATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTgcg                                                                     <  1:9756788/93‑1 (MQ=255)
                   aCGGCAATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTgcg                                                                     >  2:2904021/1‑93 (MQ=255)
                    cGGCAATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGCGCACAAATAACGAAACCTTTTgcgc                                                                    >  1:2623464/1‑93 (MQ=255)
                    cGGCAATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGACCGGAGCACAAATAACGAAACCTTTTgcgc                                                                    >  1:5734456/1‑93 (MQ=255)
                      gCAATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCa                                                                  >  1:9582487/1‑93 (MQ=255)
                      gCAATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCa                                                                  <  1:5592965/93‑1 (MQ=255)
                       cAATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCAc                                                                 <  2:2140739/93‑1 (MQ=255)
                        aaTGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACt                                                                >  2:5397545/1‑93 (MQ=255)
                        aaTGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACt                                                                >  1:6301399/1‑93 (MQ=255)
                         aTGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTg                                                               >  1:5231909/1‑93 (MQ=255)
                         aTGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTg                                                               >  2:9802364/1‑93 (MQ=255)
                         aTGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTg                                                               <  2:1217905/93‑1 (MQ=255)
                         aTGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTg                                                               >  1:881881/1‑93 (MQ=255)
                             cTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAg                                                           >  2:9329211/1‑93 (MQ=255)
                              tttCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGc                                                          >  1:1586532/1‑93 (MQ=255)
                               ttCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGcc                                                         <  1:2876188/93‑1 (MQ=255)
                                tCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCa                                                        >  2:2633949/1‑93 (MQ=255)
                                tCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCa                                                        <  2:4673481/93‑1 (MQ=255)
                                tCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCa                                                        <  1:7431599/93‑1 (MQ=255)
                                 cATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAg                                                       >  2:3506815/1‑93 (MQ=255)
                                   tatCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTTCGCCACTGGCAGCCAGGc                                                     >  2:1885948/1‑93 (MQ=255)
                                   tatCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGc                                                     >  2:5889613/1‑93 (MQ=255)
                                   tatCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGc                                                     >  1:4048787/1‑93 (MQ=255)
                                    atCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCt                                                    <  2:2513756/93‑1 (MQ=255)
                                    atCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCt                                                    >  2:4107053/1‑93 (MQ=255)
                                     tCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTg                                                   >  2:8056341/1‑93 (MQ=255)
                                      cGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCTAGGCTGt                                                  <  2:9853542/93‑1 (MQ=255)
                                      cGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGt                                                  <  1:8895755/93‑1 (MQ=255)
                                      cGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGt                                                  >  2:9123572/1‑93 (MQ=255)
                                       gTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTc                                                 >  2:6972189/1‑93 (MQ=255)
                                       gTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTc                                                 >  2:4237966/1‑93 (MQ=255)
                                         aGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGa                                               <  2:6184741/93‑1 (MQ=255)
                                          gCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGAt                                              <  2:7681514/93‑1 (MQ=255)
                                           ccACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATc                                             <  1:2332130/93‑1 (MQ=255)
                                           ccACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATc                                             >  2:2036320/1‑93 (MQ=255)
                                            cACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATcg                                            >  2:1615182/1‑93 (MQ=255)
                                             aCGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATcgc                                           >  1:3972275/1‑93 (MQ=255)
                                              cgcgCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATcgcg                                          >  1:785335/1‑93 (MQ=255)
                                              cgcgCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATcgcg                                          >  1:454204/1‑93 (MQ=255)
                                                cgcTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGtt                                        <  1:845733/93‑1 (MQ=255)
                                                cgcTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGtt                                        <  1:9455618/93‑1 (MQ=255)
                                                 gcTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTc                                       >  2:8877185/1‑93 (MQ=255)
                                                   tttCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCaa                                     >  2:5330938/1‑93 (MQ=255)
                                                   tttCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCaa                                     >  2:1081436/1‑93 (MQ=255)
                                                     tCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATg                                   >  1:8178589/1‑93 (MQ=255)
                                                       gcgACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGtt                                 >  1:6642837/1‑93 (MQ=255)
                                                       gcgACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGtt                                 >  1:8782335/1‑93 (MQ=255)
                                                        cgacgaTGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGttt                                <  1:5443737/93‑1 (MQ=255)
                                                        cgacgaTGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGttt                                <  2:5619864/93‑1 (MQ=255)
                                                         gacgaTGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGtttt                               <  2:2924569/93‑1 (MQ=255)
                                                          acgaTGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGttttt                              <  2:5710525/93‑1 (MQ=255)
                                                          acgaTGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGttttt                              >  1:6904936/1‑93 (MQ=255)
                                                           cgaTGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGtttttt                             <  1:2010366/93‑1 (MQ=255)
                                                            gaTGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTc                            <  2:7191599/93‑1 (MQ=255)
                                                             aTGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCg                           <  1:10003592/93‑1 (MQ=255)
                                                               ggCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGcc                         <  1:9294317/93‑1 (MQ=255)
                                                                gCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCa                        <  1:5858895/93‑1 (MQ=255)
                                                                gCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGAGCGCGTTCAATGTTTTTTCGCCa                        <  2:6274052/93‑1 (MQ=255)
                                                                 cAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCAt                       >  2:7856146/1‑93 (MQ=255)
                                                                   gagCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATcc                     >  1:5056608/1‑93 (MQ=255)
                                                                   gagCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATcc                     <  1:10038995/93‑1 (MQ=255)
                                                                   gagCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATcc                     <  1:4385309/93‑1 (MQ=255)
                                                                   gagCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATcc                     >  1:8648210/1‑93 (MQ=255)
                                                                    agCCCAGTTTGTGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTTGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCcg                    <  1:7993485/93‑1 (MQ=255)
                                                                      ccGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCcggc                  >  1:3453378/1‑93 (MQ=255)
                                                                       cGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCcggca                 >  1:1337338/1‑93 (MQ=255)
                                                                       cGAGTTGGTGGTCCGGTGGACAAATATCTAAACCTTTTGTGCCACTTGCCCCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCcggct                 <  2:7776827/93‑2 (MQ=255)
                                                                        gAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCcggcac                >  1:6247683/1‑93 (MQ=255)
                                                                        gAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCcggcac                >  1:3051912/1‑93 (MQ=255)
                                                                         aGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCcggcacg               >  1:9095884/1‑93 (MQ=255)
                                                                            ttGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCcggcacggca            <  2:1007964/93‑1 (MQ=255)
                                                                              ggggTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCCGGCACGGCAAt          <  1:4035803/93‑1 (MQ=255)
                                                                              ggggGCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCCGGCACGGCAAt          <  2:4201570/93‑1 (MQ=255)
                                                                                ggTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCCGGCACGGCAATCt        <  2:1535961/93‑1 (MQ=255)
                                                                                 gTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCCGGCACGGCAATCtt       <  2:2367698/93‑1 (MQ=255)
                                                                                  tCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCCGGCACGGCAATCTta      >  1:5814648/1‑93 (MQ=255)
                                                                                  tCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCCGGCACGGCAATCTta      <  2:2474262/93‑1 (MQ=255)
                                                                                  tCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCCGGCACGGCAATCTta      <  2:9180561/93‑1 (MQ=255)
                                                                                   ccGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCCGGCACGGCAATCTtaa     <  1:1826769/93‑1 (MQ=255)
                                                                                    cGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTCCAATGTTTTTTCGCCATCCGGCACGGCAATCTtaat    <  1:4166988/93‑1 (MQ=255)
                                                                                     ggAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCCGGCACGGCAATCTtaata   <  2:4938663/93‑1 (MQ=255)
                                                                                     ggAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCCGGCACGGCAATCTtaata   <  2:3292118/93‑1 (MQ=255)
                                                                                      gAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCCGGCACGGTAATCTtaatac  >  1:3192097/1‑92 (MQ=255)
                                                                                      gAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCCGGCACGGCAATCTtaataa  >  1:7321456/1‑93 (MQ=255)
                                                                                         |                                                                                         
GTTAACAAACTGGTCATCCACGGCAATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGTACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCCGGCACGGCAATCTTAATAA  >  NC_000913/1983801‑1983979

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

BRESEQ :: bam2aln output
TGGCGTTAACAAACTGGTCATCCACGGCAATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGTACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCCGGCACGGCAATCTTAATAACCTC  >  NC_000913/1983797‑1983983
                                                                                             |                                                                                             
TGGCGTTAACAAACTGGTCATCCACGGCAATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGC                                                                                               <  SRR4302540.7010082/94‑1 (MQ=60)
 GGCGTGAACAATCTGGTCATCCACGGCAATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCA                                                                                              <  SRR4302540.3767648/94‑1 (MQ=60)
   CGTTAACAAACTGGTCATCCACGGCAATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACA                                                                                            >  SRR4302540.7028281/1‑94 (MQ=60)
     TTAACAAACTGGTCATCCACGGCAATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAA                                                                                          >  SRR4302540.9254865/1‑94 (MQ=60)
         CAAACTGGTCATCCACGGCAATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAAC                                                                                      <  SRR4302540.1759340/94‑1 (MQ=60)
           AACTGGTCATCCACGGCAATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGCTTGGGGTCCGGAGCACAAATAACGA                                                                                    >  SRR4302540.3872197/1‑94 (MQ=60)
              CGGTCATCCACGGCAATGACTTTCATATCGTACGCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAAC                                                                                 <  SRR4302540.1876514/94‑1 (MQ=60)
                GTCATCCACGGCAATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCT                                                                               >  SRR4302540.4730733/1‑94 (MQ=60)
                GTCATCCACGGCAATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCT                                                                               >  SRR4302540.31003/1‑94 (MQ=60)
                 TCATCCACGGCAATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTT                                                                              <  SRR4302540.1338240/94‑1 (MQ=60)
                 TCATCCACGGCAATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTT                                                                              >  SRR4302540.6958418/1‑94 (MQ=60)
                  CATCCATGGCAATGACTTTAATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTT                                                                             <  SRR4302540.2237473/94‑1 (MQ=60)
                  CATCCACGGCAATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTT                                                                             <  SRR4302540.1195914/94‑1 (MQ=60)
                  CATCCACGGCAATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTT                                                                             >  SRR4302540.2961647/1‑94 (MQ=60)
                   ATCCACGGCAATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTT                                                                            <  SRR4302540.6492089/94‑1 (MQ=60)
                   ATCCACGGCAATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTT                                                                            >  SRR4302540.6073821/1‑94 (MQ=60)
                   ATCCACGGCAATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTT                                                                            <  SRR4302540.10023672/94‑1 (MQ=60)
                    TCCACGGCAATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTG                                                                           <  SRR4302540.7968776/94‑1 (MQ=60)
                     CCACGGCAATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGC                                                                          <  SRR4302540.9550389/94‑1 (MQ=60)
                      CACGGCAATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGCGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCG                                                                         >  SRR4302540.7210094/1‑94 (MQ=60)
                      CACGGCAATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCG                                                                         >  SRR4302540.6793070/1‑94 (MQ=60)
                      CACGGCAATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCG                                                                         >  SRR4302540.593109/1‑94 (MQ=60)
                      CACGGCAATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCG                                                                         <  SRR4302540.89941/94‑1 (MQ=60)
                       ACGGCAATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGCGCACAAATAACGAAACCTTTTGCGC                                                                        >  SRR4302540.2651832/1‑94 (MQ=60)
                       ACGGCAATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGC                                                                        <  SRR4302540.9871248/94‑1 (MQ=60)
                       ACGGCAATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGC                                                                        >  SRR4302540.634612/1‑94 (MQ=60)
                       ACGGCAATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGACCGGAGCACAAATAACGAAACCTTTTGCGC                                                                        >  SRR4302540.5797625/1‑94 (MQ=60)
                         GGCAATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCA                                                                      >  SRR4302540.9695635/1‑94 (MQ=60)
                          GCAATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCAC                                                                     <  SRR4302540.5654502/94‑1 (MQ=60)
                          GCAATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCAC                                                                     <  SRR4302540.5654503/94‑1 (MQ=60)
                           CAATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACT                                                                    >  SRR4302540.6371572/1‑94 (MQ=60)
                           CAATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGCTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACT                                                                    >  SRR4302540.6371573/1‑94 (MQ=60)
                            AATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTG                                                                   >  SRR4302540.489925/1‑94 (MQ=60)
                            AATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTG                                                                   >  SRR4302540.5288966/1‑94 (MQ=60)
                            AATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTG                                                                   >  SRR4302540.891233/1‑94 (MQ=60)
                             ATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGG                                                                  >  SRR4302540.1721768/1‑94 (MQ=60)
                             ATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCAGAGTTTGGGGTCCGGAGCCCAACTAACGAAACCTTTTGCGCCACTGG                                                                  >  SRR4302540.3381841/1‑94 (MQ=60)
                                 CTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGC                                                              >  SRR4302540.1603860/1‑94 (MQ=60)
                                  TTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCC                                                             >  SRR4302540.4325185/1‑94 (MQ=60)
                                  TTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCC                                                             >  SRR4302540.2520838/1‑94 (MQ=60)
                                   TTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCA                                                            <  SRR4302540.2907459/94‑1 (MQ=60)
                                    TCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAG                                                           <  SRR4302540.7439350/94‑1 (MQ=60)
                                    TCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAG                                                           <  SRR4302540.7514388/94‑1 (MQ=60)
                                    TCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAG                                                           >  SRR4302540.2196064/1‑94 (MQ=60)
                                    TCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAG                                                           <  SRR4302540.8199478/94‑1 (MQ=60)
                                      ATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGC                                                         >  SRR4302540.4092442/1‑94 (MQ=60)
                                       TATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCT                                                        <  SRR4302540.3179607/94‑1 (MQ=60)
                                       TATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCT                                                        >  SRR4302540.5684157/1‑94 (MQ=60)
                                       TATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCT                                                        <  SRR4302540.2827816/94‑1 (MQ=60)
                                       TATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCT                                                        <  SRR4302540.8685104/94‑1 (MQ=60)
                                        ATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTG                                                       >  SRR4302540.2776033/1‑94 (MQ=60)
                                          CGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTC                                                     <  SRR4302540.8998729/94‑1 (MQ=60)
                                          CGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTC                                                     >  SRR4302540.8294148/1‑94 (MQ=60)
                                          CGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAACCAGGCTctt                                                     >  SRR4302540.8294154/1‑91 (MQ=60)
                                           GTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCG                                                    <  SRR4302540.6984607/94‑1 (MQ=60)
                                           GTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCG                                                    <  SRR4302540.576785/94‑1 (MQ=60)
                                            TAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGA                                                   >  SRR4302540.5383759/1‑94 (MQ=60)
                                             AGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGAT                                                  >  SRR4302540.3998587/1‑94 (MQ=60)
                                              GCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATC                                                 <  SRR4302540.9644725/94‑1 (MQ=60)
                                              GCCACGCGCTTCCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATC                                                 <  SRR4302540.1036659/94‑1 (MQ=60)
                                              GCCACGCGCGTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATC                                                 <  SRR4302540.8290332/94‑1 (MQ=60)
                                               CCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCG                                                <  SRR4302540.2357260/94‑1 (MQ=60)
                                                CACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGC                                               >  SRR4302540.4015091/1‑94 (MQ=60)
                                                 ACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCG                                              >  SRR4302540.2514950/1‑94 (MQ=60)
                                                 ACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCG                                              >  SRR4302540.793683/1‑94 (MQ=60)
                                                 ACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCG                                              >  SRR4302540.459049/1‑94 (MQ=60)
                                                   GCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTT                                            >  SRR4302540.8891126/1‑94 (MQ=60)
                                                    CGCTTTCGCGACGATTGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTA                                           >  SRR4302540.3240560/1‑94 (MQ=60)
                                                    CGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTC                                           <  SRR4302540.854706/94‑1 (MQ=60)
                                                    CGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTC                                           <  SRR4302540.9567833/94‑1 (MQ=60)
                                                    CGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTC                                           <  SRR4302540.854704/94‑1 (MQ=60)
                                                     GCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCA                                          >  SRR4302540.402305/1‑94 (MQ=60)
                                                       TTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAAT                                        <  SRR4302540.4471521/94‑1 (MQ=60)
                                                        TTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATG                                       >  SRR4302540.8273587/1‑94 (MQ=60)
                                                          CGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTT                                     <  SRR4302540.1534387/94‑1 (MQ=60)
                                                          CGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTT                                     <  SRR4302540.8894401/94‑1 (MQ=60)
                                                          CGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTT                                     >  SRR4302540.8884003/1‑94 (MQ=60)
                                                          CGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTT                                     >  SRR4302540.6716335/1‑94 (MQ=60)
                                                           GCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTT                                    >  SRR4302540.591142/1‑94 (MQ=60)
                                                           GCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTT                                    >  SRR4302540.8934084/1‑94 (MQ=60)
                                                            CGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTT                                   >  SRR4302540.9809817/1‑94 (MQ=60)
                                                            CGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTT                                   <  SRR4302540.5503637/94‑1 (MQ=60)
                                                             GACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTT                                  >  SRR4302540.6981706/1‑94 (MQ=60)
                                                             GACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTT                                  >  SRR4302540.8779198/1‑94 (MQ=60)
                                                             GACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTT                                  >  SRR4302540.2356811/1‑94 (MQ=60)
                                                             GACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTT                                  >  SRR4302540.5861323/1‑94 (MQ=60)
                                                              ACGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTAGATCGCGTTCAATGTTTTTT                                 <  SRR4302540.3891614/94‑1 (MQ=60)
                                                               CGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTC                                <  SRR4302540.2032106/94‑1 (MQ=60)
                                                               CGATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTC                                <  SRR4302540.1587818/94‑1 (MQ=60)
                                                                 ATGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGC                              <  SRR4302540.10120114/94‑1 (MQ=60)
                                                                  TGGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCC                             >  SRR4302540.5212903/1‑94 (MQ=60)
                                                                   GGCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCA                            <  SRR4302540.9405364/94‑1 (MQ=60)
                                                                    GCAGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCAT                           <  SRR4302540.5923689/94‑1 (MQ=60)
                                                                      AGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCC                         >  SRR4302540.8748672/1‑94 (MQ=60)
                                                                      AGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCC                         >  SRR4302540.4458972/1‑94 (MQ=60)
                                                                      AGAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCC                         >  SRR4302540.5111276/1‑94 (MQ=60)
                                                                       GAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCCG                        <  SRR4302540.10155726/94‑1 (MQ=60)
                                                                       GAGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCCG                        <  SRR4302540.4432920/94‑1 (MQ=60)
                                                                        AGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCCGG                       <  SRR4302540.5865321/94‑1 (MQ=60)
                                                                        AGCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCCGG                       <  SRR4302540.8086539/94‑1 (MQ=60)
                                                                        AGCCCAGTTTGTGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTTGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCCGG                       <  SRR4302540.8086540/94‑1 (MQ=60)
                                                                         GCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCCGGC                      >  SRR4302540.3490953/1‑94 (MQ=60)
                                                                         GCCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCCGGC                      >  SRR4302540.8942000/1‑94 (MQ=60)
                                                                          CCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCCGGCC                     >  SRR4302540.1351338/1‑94 (MQ=60)
                                                                          CCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCCGGCA                     >  SRR4302540.1351339/1‑94 (MQ=60)
                                                                          CCGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCCGGCA                     >  SRR4302540.4202163/1‑94 (MQ=60)
                                                                           CGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCCGGCAC                    >  SRR4302540.7526202/1‑94 (MQ=60)
                                                                           CGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCCGGCAC                    >  SRR4302540.7433910/1‑94 (MQ=60)
                                                                           CGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCCGGCAC                    >  SRR4302540.6317210/1‑94 (MQ=60)
                                                                           CGAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCCGGCAC                    >  SRR4302540.3085400/1‑94 (MQ=60)
                                                                           CGAGTGTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCCGGCAC                    <  SRR4302540.9658121/94‑1 (MQ=60)
                                                                            GAGTTTGGGGTCCGGAGTACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCCGGCACG                   >  SRR4302540.7296830/1‑94 (MQ=60)
                                                                            GAGTTTGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCCGGCACG                   >  SRR4302540.9205168/1‑94 (MQ=60)
                                                                                 TGGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCCGGCACGGCAAT              <  SRR4302540.9362348/94‑1 (MQ=60)
                                                                                  GGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCCGGCACGGCAATC             <  SRR4302540.9876272/94‑1 (MQ=60)
                                                                                  GGGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCCGGCACGGCAATC             <  SRR4302540.4079322/94‑1 (MQ=60)
                                                                                   GGGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCCGGCACGGCAATCT            >  SRR4302540.216431/1‑94 (MQ=60)
                                                                                   GGGGCCGGGGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCCGGCACGGCAATCT            <  SRR4302540.3554378/94‑1 (MQ=60)
                                                                                    GGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCCGGCACGGCAATCTT           <  SRR4302540.4079380/94‑1 (MQ=60)
                                                                                    GGTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCCGGCACGGCAATCTT           <  SRR4302540.4079381/94‑1 (MQ=60)
                                                                                     GTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCCGGCACGGCAATCTTA          >  SRR4302540.10154801/1‑94 (MQ=60)
                                                                                     GTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCCGGCACGGCAATCTTA          >  SRR4302540.9863763/1‑94 (MQ=60)
                                                                                     GTCCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCCGGCACGGCAATCTTA          >  SRR4302540.5878914/1‑94 (MQ=60)
                                                                                       CCGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCCGGCACGGCAATCTTAAT        <  SRR4302540.1846746/94‑1 (MQ=60)
                                                                                        CGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCCGGCACGGCAATCTTAATA       >  SRR4302540.5431012/1‑94 (MQ=60)
                                                                                        CGGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTCCAATGTTTTTTCGCCATCCGGCACGGCAATCTTAATA       <  SRR4302540.4212168/94‑1 (MQ=60)
                                                                                        CGGAGCAAAAATAACGAAACTGTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTCCAATGTTTTTTCGCCATCCGGCACGGCAATCTTAATA       <  SRR4302540.4212167/94‑1 (MQ=60)
                                                                                         GGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCCGGCACGGTAATCTTAATAC      >  SRR4302540.3226768/1‑94 (MQ=60)
                                                                                         GGAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCCGGCACGGCAATCTTAATAA      >  SRR4302540.7403225/1‑94 (MQ=60)
                                                                                          GAGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCCGGCACGGCAATCTTAATAAC     >  SRR4302540.1789798/1‑94 (MQ=60)
                                                                                           AGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCCGGCACGGCAATCTTAATAACC    <  SRR4302540.3895841/94‑1 (MQ=60)
                                                                                           AGCACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCCGGCACGGCAATCTTAATAACC    >  SRR4302540.8942922/1‑94 (MQ=60)
                                                                                             CACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCCGGCACGGCAATCTTAATAACCTC  <  SRR4302540.1444538/94‑1 (MQ=60)
                                                                                             |                                                                                             
TGGCGTTAACAAACTGGTCATCCACGGCAATGACTTTCATATCGTAGCCACGCGCTTTCGCGACGATGGCAGAGCCGAGTTTGGGGTCCGGAGTACAAATAACGAAACCTTTTGCGCCACTGGCAGCCAGGCTGTCGATCGCGTTCAATGTTTTTTCGCCATCCGGCACGGCAATCTTAATAACCTC  >  NC_000913/1983797‑1983983

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 2 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑