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 780,533 A→G intergenic (+88/‑59) lysY → / → lysZ tRNA‑Lys/tRNA‑Lys

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913780,5330AG100.0% 836.0 / NA 263intergenic (+88/‑59)lysY/lysZtRNA‑Lys/tRNA‑Lys
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (147/116);  total (147/116)

Only 100 of 276 total aligned reads displayed.

CCAGTTTTAACATCAAACTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCACGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGTAGAGCAGTTGA  >  NC_000913/780443‑780622
                                                                                          |                                                                                         
ccaGTTTTAACATCAAACTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGcgcg                                                                                         >  1:4715549/1‑93 (MQ=255)
ccaGTTTTAACATCAAACTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGcgcg                                                                                         >  1:7243177/1‑93 (MQ=255)
 caGTTTTAACATCAAACTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGa                                                                                        >  1:6941265/1‑93 (MQ=255)
  aGTTTTAACATCAAACTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGAc                                                                                       <  1:4563982/93‑1 (MQ=255)
  aGTTTTAACATCAAACTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGAc                                                                                       >  1:8291558/1‑93 (MQ=255)
  aGTTTTAACATCAAACTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGAc                                                                                       >  2:2498113/1‑93 (MQ=255)
   gTTTTAACATCAAACTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGAcc                                                                                      >  2:1437152/1‑93 (MQ=255)
    ttttAACATCAAACTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGAccc                                                                                     >  2:8651481/1‑93 (MQ=255)
       tAACATCAAACTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACccacc                                                                                  <  1:4817488/93‑1 (MQ=255)
       tAACATCAAACTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACccacc                                                                                  <  1:5071101/93‑1 (MQ=255)
        aaCATCAACCTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACccacca                                                                                 >  2:4764896/1‑93 (MQ=255)
          cATCAAACTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAAt                                                                               <  1:9974073/93‑1 (MQ=255)
          cATCAAACTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAAt                                                                               <  2:911710/93‑1 (MQ=255)
           aTCAAACTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATc                                                                              <  2:3660054/93‑1 (MQ=255)
           aTCAAACTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATc                                                                              >  2:3154878/1‑93 (MQ=255)
            tCAAACTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCt                                                                             <  2:7413621/93‑1 (MQ=255)
             cAAACTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCtt                                                                            <  1:7028734/93‑1 (MQ=255)
              aaaCTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTa                                                                           >  2:8507737/1‑93 (MQ=255)
               aaCTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTaa                                                                          >  2:9050350/1‑93 (MQ=255)
               aaCTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCATAGGGCGAGCGAAGCGCGTCATCCTGCGCGACCCACCAATCTTaa                                                                          >  1:1624454/1‑93 (MQ=255)
                aCTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTaaa                                                                         <  1:8323645/93‑1 (MQ=255)
                 cTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAg                                                                        >  1:8644117/1‑93 (MQ=255)
                  tCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGa                                                                       <  1:1184972/93‑1 (MQ=255)
                  ccAGATGTGAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGa                                                                       <  2:6326492/92‑1 (MQ=255)
                    aGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGCAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGAtt                                                                     >  2:7988386/1‑93 (MQ=255)
                      aTGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGGGACCCACCGATCTTAAAGATTgg                                                                   >  1:6035891/1‑93 (MQ=255)
                       tGTTACGCGTGAGGGATACCGTTGCGCCAGCACCGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGc                                                                  <  2:2014856/93‑1 (MQ=18)
                          tAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGcccc                                                               >  2:5872961/1‑93 (MQ=255)
                            aGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGa                                                             >  1:5767323/1‑93 (MQ=255)
                            aGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGa                                                             <  2:9229685/93‑1 (MQ=255)
                            aGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGa                                                             <  2:399843/93‑1 (MQ=255)
                             gCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAg                                                            >  1:1913027/1‑93 (MQ=255)
                             gCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAg                                                            <  1:5270350/93‑1 (MQ=255)
                                tGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTaa                                                         >  2:5123875/1‑93 (MQ=255)
                                tGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTaa                                                         >  1:9775920/1‑93 (MQ=255)
                                tGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTaa                                                         >  1:8952711/1‑93 (MQ=255)
                                     gATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTACAAATc                                                    >  1:9275525/1‑93 (MQ=255)
                                     gATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATc                                                    <  1:3010116/93‑1 (MQ=255)
                                       tAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCtt                                                  >  2:9271484/1‑93 (MQ=255)
                                       tAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCtt                                                  >  2:4037695/1‑93 (MQ=255)
                                        aaCGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCttt                                                 >  2:8282375/1‑93 (MQ=255)
                                         aCGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTc                                                >  2:5406192/1‑93 (MQ=255)
                                         aCGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTc                                                >  2:8556580/1‑93 (MQ=255)
                                         aCGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTc                                                <  1:1552162/93‑1 (MQ=255)
                                         aCGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTc                                                <  1:6791715/93‑1 (MQ=255)
                                          cGTGGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCa                                               <  2:2847674/93‑1 (MQ=255)
                                            ttGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAgg                                             >  1:4173990/1‑93 (MQ=255)
                                               cgcCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTaa                                          <  1:5387604/93‑1 (MQ=255)
                                                 ccAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAaca                                        <  1:5498225/93‑1 (MQ=255)
                                                      aaCGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGt                                   >  2:5338121/1‑93 (MQ=255)
                                                      aaCGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTAAGGTAACACCCGt                                   >  1:1463354/1‑93 (MQ=255)
                                                       aCGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTa                                  <  2:2294050/93‑1 (MQ=255)
                                                        cGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTAt                                 >  1:10038881/1‑93 (MQ=255)
                                                         ggCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATg                                <  2:2180859/93‑1 (MQ=255)
                                                         ggCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATg                                <  1:2661450/93‑1 (MQ=255)
                                                          gCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATgg                               <  1:8866457/93‑1 (MQ=255)
                                                           cccGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATggg                              >  2:8800592/1‑93 (MQ=255)
                                                             cGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTc                            >  2:6498571/1‑93 (MQ=255)
                                                             cGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTc                            <  1:1966933/93‑1 (MQ=255)
                                                             cGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTc                            >  2:6580407/1‑93 (MQ=255)
                                                               tAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGt                          >  1:845817/1‑93 (MQ=255)
                                                                aGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGtt                         <  1:5688301/93‑1 (MQ=255)
                                                                 gggCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTa                        <  2:4570346/93‑1 (MQ=255)
                                                                  ggCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAg                       >  2:5009148/1‑93 (MQ=255)
                                                                     gagcgaAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTc                    >  2:696908/1‑93 (MQ=255)
                                                                      agcgaagcgaGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCa                   <  1:385815/93‑1 (MQ=255)
                                                                      agcgaagcgaGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCa                   <  2:6717452/93‑1 (MQ=255)
                                                                       gcgaagcgaGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAg                  <  2:3771899/93‑1 (MQ=255)
                                                                        cgaagcgaGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGt                 <  1:9227043/93‑1 (MQ=255)
                                                                        cgaagcgaGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGt                 <  2:9742481/93‑1 (MQ=255)
                                                                        cgaagcgaGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGt                 <  1:5193272/93‑1 (MQ=255)
                                                                        cgaagcgaGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGt                 <  2:8409347/93‑1 (MQ=255)
                                                                          aagcgaGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTg               >  2:795769/1‑93 (MQ=255)
                                                                           agcgaGTTGTCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTgg              <  1:3222672/93‑1 (MQ=255)
                                                                           agcgaGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTgg              <  2:8371717/93‑1 (MQ=255)
                                                                            gcgaGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGt             >  2:4323174/1‑93 (MQ=255)
                                                                            gcgaGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGt             <  2:2607998/93‑1 (MQ=255)
                                                                            gcgaGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGt             <  2:8475458/93‑1 (MQ=255)
                                                                             cgaGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGTa            <  2:7349531/93‑1 (MQ=255)
                                                                             cgaGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGTa            <  2:7869426/93‑1 (MQ=255)
                                                                              gaGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGTag           <  1:2459994/93‑1 (MQ=255)
                                                                              gaGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGTag           >  2:4917181/1‑93 (MQ=255)
                                                                               aGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGTaga          <  2:1169219/93‑1 (MQ=255)
                                                                               aGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGTaga          >  2:5671663/1‑93 (MQ=255)
                                                                                 tCATCCTGCGCGACCTACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGTAGAGc        <  1:3714261/93‑1 (MQ=255)
                                                                                   aTCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGTAGAGCAg      <  1:7521881/93‑1 (MQ=255)
                                                                                   aTCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGTAGAGCAg      <  2:1542290/93‑1 (MQ=255)
                                                                                    tCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGTAGAGCAGt     >  1:3422331/1‑93 (MQ=255)
                                                                                    tCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGTAGAGCAGt     >  1:8972857/1‑93 (MQ=255)
                                                                                    tCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGTAGAGCAGt     >  1:3344373/1‑93 (MQ=255)
                                                                                     ccTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGTAGAGCAGtt    <  1:1268028/93‑1 (MQ=255)
                                                                                     ccTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGTAGAGCAGtt    >  1:9561656/1‑93 (MQ=255)
                                                                                     ccTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGTAGAGCAGtt    >  1:6442454/1‑93 (MQ=255)
                                                                                      cTGCGCGACTCCTCAATCTTAAAGATTGGCCTCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTGGTTAGCTCAGTTGGTAGAGCAGTTg   <  2:9522226/93‑1 (MQ=37)
                                                                                      cTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGTAGAGCAGTTg   >  1:946701/1‑93 (MQ=255)
                                                                                      cTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGTAGAGCAGTTg   >  1:7642093/1‑93 (MQ=255)
                                                                                      cTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGTAGAGCAGTTg   <  2:1692181/93‑1 (MQ=255)
                                                                                       tGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGTAGAGCAGTTGa  <  2:8151200/93‑1 (MQ=255)
                                                                                       tGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGTAGAGCAGTTGa  <  2:7738053/93‑1 (MQ=255)
                                                                                       tGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGTAGAGCAGTTGa  <  1:797754/93‑1 (MQ=255)
                                                                                          |                                                                                         
CCAGTTTTAACATCAAACTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCACGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGTAGAGCAGTTGA  >  NC_000913/780443‑780622

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

GATK/CNVnator alignment

BRESEQ :: bam2aln output
CCACCAGTTTTAACATCAAACTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCACGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGTAGAGCAGTTGACTTT  >  NC_000913/780440‑780626
                                                                                             |                                                                                             
CCACCAGTTTTAACATCAAACTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCG                                                                                               >  SRR4302540.9109768/1‑94 (MQ=60)
CCACCAGTTTTAACATCAAACTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCG                                                                                               >  SRR4302540.4529338/1‑94 (MQ=60)
CCACCAGTTTTAACATCAAACTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCG                                                                                               <  SRR4302540.4551253/94‑1 (MQ=60)
 CACCAGTTTTAACATCAAACTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGC                                                                                              >  SRR4302540.9436095/1‑94 (MQ=60)
 CACCAGTTTTAACATCAAACTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGC                                                                                              >  SRR4302540.1120885/1‑94 (MQ=60)
 CACCAGTTTTAACATCAAACTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGC                                                                                              >  SRR4302540.2562710/1‑94 (MQ=60)
  ACCAGTTTTAACATCAAACTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCG                                                                                             >  SRR4302540.7323975/1‑94 (MQ=60)
  ACCAGTTTTAACATCAAACTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCG                                                                                             >  SRR4302540.3283984/1‑94 (MQ=60)
  ACCAGTTTTAACATCAAACTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCG                                                                                             >  SRR4302540.4765926/1‑94 (MQ=60)
   CCAGTTTTAACATCAAACTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGA                                                                                            >  SRR4302540.7018531/1‑94 (MQ=60)
    CAGTTTTAACATCAAACTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGAC                                                                                           >  SRR4302540.8387848/1‑94 (MQ=60)
    CAGTTTTAACATCAAACTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGAC                                                                                           >  SRR4302540.8387847/1‑94 (MQ=60)
     AGTTTTAACATCAAACTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACC                                                                                          <  SRR4302540.4613274/94‑1 (MQ=60)
       TTTTAACATCAAACTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCA                                                                                        >  SRR4302540.4866160/1‑94 (MQ=60)
       TTTTAACATCAAACTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCA                                                                                        >  SRR4302540.4735530/1‑94 (MQ=60)
       TTTTAACATCAAACTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCA                                                                                        >  SRR4302540.633392/1‑94 (MQ=60)
         TTAACATCAAACTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACC                                                                                      >  SRR4302540.6034583/1‑94 (MQ=60)
          TAACATCAAACTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCA                                                                                     <  SRR4302540.4869056/94‑1 (MQ=60)
          TAACATCAAACTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCA                                                                                     <  SRR4302540.5125926/94‑1 (MQ=60)
           AACATCAAACTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAA                                                                                    >  SRR4302540.8491439/1‑94 (MQ=60)
            ACATCAAACTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAAT                                                                                   <  SRR4302540.2659279/94‑1 (MQ=60)
            ACATCAAACTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAAT                                                                                   >  SRR4302540.6111867/1‑94 (MQ=60)
             CATCAAACTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATC                                                                                  >  SRR4302540.169416/1‑94 (MQ=55)
             CATCAAACTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATC                                                                                  <  SRR4302540.10090406/94‑1 (MQ=60)
              ATCAAACTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCT                                                                                 >  SRR4302540.3129974/1‑94 (MQ=55)
              ATCAAACTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCT                                                                                 <  SRR4302540.3393687/94‑1 (MQ=55)
              ATCAAACTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCT                                                                                 <  SRR4302540.3596309/94‑1 (MQ=55)
              ATCAAACTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCT                                                                                 <  SRR4302540.5352187/94‑1 (MQ=55)
                CAAACTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTA                                                                               <  SRR4302540.7106829/94‑1 (MQ=55)
                 AAACTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCATAGGGCGAGCGAAGCGCGTCATCCTGCGCGACCCACCAATCTTAA                                                                              >  SRR4302540.1642246/1‑94 (MQ=60)
                  AACTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAA                                                                             >  SRR4302540.1934699/1‑94 (MQ=55)
                   ACTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAG                                                                            >  SRR4302540.8744532/1‑94 (MQ=55)
                   ACTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAG                                                                            <  SRR4302540.8420253/94‑1 (MQ=55)
                   ACTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAG                                                                            <  SRR4302540.8420254/94‑1 (MQ=55)
                    CTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGA                                                                           >  SRR4302540.7086200/1‑94 (MQ=55)
                    CTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGA                                                                           <  SRR4302540.6400552/94‑1 (MQ=55)
                     TCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGAT                                                                          <  SRR4302540.1197199/94‑1 (MQ=55)
                      CAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATT                                                                         <  SRR4302540.1563900/94‑1 (MQ=55)
                       AGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTG                                                                        >  SRR4302540.1228797/1‑94 (MQ=58)
                        GATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGGGACCCACCGATCTTAAAGATTGG                                                                       >  SRR4302540.6102896/1‑94 (MQ=46)
                        GATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGG                                                                       <  SRR4302540.5019847/94‑1 (MQ=60)
                        GATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGG                                                                       <  SRR4302540.3364138/94‑1 (MQ=60)
                         ATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGC                                                                      >  SRR4302540.3772607/1‑94 (MQ=60)
                         ATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGC                                                                      >  SRR4302540.3904405/1‑94 (MQ=60)
                          TGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCC                                                                     >  SRR4302540.4692307/1‑94 (MQ=60)
                           GTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCC                                                                    >  SRR4302540.5366922/1‑94 (MQ=60)
                           GTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCC                                                                    >  SRR4302540.7330148/1‑94 (MQ=60)
                           GTTAAGCGTAAAGGATAGCGTTGCGCCGGCAACGCCGCGTAGGGCGATCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCC                                                                    <  SRR4302540.9345487/94‑1 (MQ=60)
                              AAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTACAGATTGGCCCCGA                                                                 >  SRR4302540.1494688/1‑94 (MQ=60)
                              AAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGA                                                                 >  SRR4302540.5831009/1‑94 (MQ=60)
                              AAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGA                                                                 >  SRR4302540.10044897/1‑94 (MQ=60)
                               AGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAG                                                                >  SRR4302540.5447318/1‑94 (MQ=60)
                               AGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAG                                                                >  SRR4302540.1933918/1‑94 (MQ=60)
                                GCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGT                                                               <  SRR4302540.5327880/94‑1 (MQ=60)
                                GCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGT                                                               >  SRR4302540.9283032/1‑94 (MQ=60)
                                 CGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTA                                                              >  SRR4302540.1348999/1‑94 (MQ=60)
                                 CGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTA                                                              >  SRR4302540.8982135/1‑94 (MQ=60)
                                  GTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAA                                                             >  SRR4302540.9890516/1‑94 (MQ=60)
                                  GTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAA                                                             >  SRR4302540.7048024/1‑94 (MQ=60)
                                  GTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAA                                                             >  SRR4302540.7904066/1‑94 (MQ=60)
                                  GTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAA                                                             >  SRR4302540.9058315/1‑94 (MQ=60)
                                  GTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAA                                                             >  SRR4302540.9590948/1‑94 (MQ=60)
                                   ggagGGATAGCGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAA                                                            <  SRR4302540.7185390/90‑1 (MQ=60)
                                      AGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAAT                                                         <  SRR4302540.7288266/94‑1 (MQ=60)
                                       GGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTACAAATC                                                        >  SRR4302540.9386423/1‑94 (MQ=60)
                                       GGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATC                                                        >  SRR4302540.5591508/1‑94 (MQ=60)
                                       GGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATC                                                        <  SRR4302540.1476835/94‑1 (MQ=60)
                                       GGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATC                                                        <  SRR4302540.528703/94‑1 (MQ=60)
                                       GGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATC                                                        >  SRR4302540.9386422/1‑94 (MQ=60)
                                        GATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCT                                                       <  SRR4302540.3043232/94‑1 (MQ=60)
                                         ATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTT                                                      >  SRR4302540.5180519/1‑94 (MQ=60)
                                         ATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTT                                                      >  SRR4302540.9502193/1‑94 (MQ=60)
                                         ATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTT                                                      >  SRR4302540.5289040/1‑94 (MQ=60)
                                           AACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTC                                                    >  SRR4302540.4768600/1‑94 (MQ=60)
                                            ACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCA                                                   <  SRR4302540.1569258/94‑1 (MQ=60)
                                            ACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCA                                                   <  SRR4302540.6866829/94‑1 (MQ=60)
                                            ACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCA                                                   >  SRR4302540.8891007/1‑94 (MQ=60)
                                            ACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCA                                                   <  SRR4302540.6866830/94‑1 (MQ=60)
                                             CGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAG                                                  >  SRR4302540.3655225/1‑94 (MQ=60)
                                             CGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAG                                                  <  SRR4302540.8698706/94‑1 (MQ=60)
                                             CGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAG                                                  <  SRR4302540.1614024/94‑1 (MQ=60)
                                             CGTTGCGCCAGCAACGGCCCGTAGGGCAAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAG                                                  <  SRR4302540.8698707/94‑1 (MQ=60)
                                              GTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGG                                                 >  SRR4302540.4219279/1‑94 (MQ=60)
                                              GTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGG                                                 <  SRR4302540.1825241/94‑1 (MQ=60)
                                              GTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGG                                                 <  SRR4302540.3121919/94‑1 (MQ=60)
                                                TGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTA                                               <  SRR4302540.3940711/94‑1 (MQ=60)
                                                  CGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAAC                                             <  SRR4302540.5446858/94‑1 (MQ=60)
                                                  CCCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAAC                                             <  SRR4302540.9827353/94‑1 (MQ=60)
                                                   GCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACA                                            >  SRR4302540.2228343/1‑94 (MQ=60)
                                                    CCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACAC                                           >  SRR4302540.10064354/1‑94 (MQ=60)
                                                    CCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACAC                                           <  SRR4302540.5558762/94‑1 (MQ=60)
                                                      AGCAACGGCCCGTAGGGAGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCC                                         <  SRR4302540.9074263/94‑1 (MQ=60)
                                                       GCGACGGCCCGTAGGGCGAGCGAAGGGAGTCATCCTGCGCTACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCG                                        <  SRR4302540.8053397/94‑1 (MQ=60)
                                                       GCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCG                                        >  SRR4302540.2987158/1‑94 (MQ=60)
                                                        CAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGT                                       >  SRR4302540.3785963/1‑94 (MQ=60)
                                                        CAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTAAGGTAACACCCGT                                       >  SRR4302540.1479308/1‑94 (MQ=60)
                                                         AACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTA                                      >  SRR4302540.8767380/1‑94 (MQ=60)
                                                          ACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTAT                                     <  SRR4302540.1216489/94‑1 (MQ=60)
                                                          ACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTAT                                     >  SRR4302540.10155611/1‑94 (MQ=60)
                                                          ACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTAT                                     <  SRR4302540.8379495/94‑1 (MQ=60)
                                                            GGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGG                                   <  SRR4302540.2690320/94‑1 (MQ=60)
                                                             GCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGG                                  <  SRR4302540.8969057/94‑1 (MQ=60)
                                                               CCGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTC                                <  SRR4302540.8969611/94‑1 (MQ=60)
                                                                CGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCG                               <  SRR4302540.1988298/94‑1 (MQ=60)
                                                                CGTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCG                               <  SRR4302540.9719254/94‑1 (MQ=60)
                                                                 GTAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGT                              >  SRR4302540.854790/1‑94 (MQ=60)
                                                                  TAGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTT                             >  SRR4302540.6660552/1‑94 (MQ=60)
                                                                   AGGGCGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTA                            <  SRR4302540.5750916/94‑1 (MQ=60)
                                                                       CGAGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTC                        >  SRR4302540.5566476/1‑94 (MQ=60)
                                                                         AGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAG                      <  SRR4302540.1104789/94‑1 (MQ=60)
                                                                         AGCGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAG                      <  SRR4302540.389803/94‑1 (MQ=60)
                                                                           CGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTT                    <  SRR4302540.9337670/94‑1 (MQ=60)
                                                                           CGAAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTT                    <  SRR4302540.5249821/94‑1 (MQ=60)
                                                                             AAGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGG                  >  SRR4302540.2821448/1‑94 (MQ=60)
                                                                              AGCGAGTTGTCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGT                 <  SRR4302540.3257697/94‑1 (MQ=60)
                                                                              AGCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGT                 >  SRR4302540.5783644/1‑94 (MQ=60)
                                                                               GCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGTA                <  SRR4302540.683002/94‑1 (MQ=60)
                                                                               GCGAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGTA                <  SRR4302540.9348637/94‑1 (MQ=60)
                                                                                 GAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGTAGA              <  SRR4302540.7646119/94‑1 (MQ=60)
                                                                                 GAGTCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGTAGA              <  SRR4302540.2486470/94‑1 (MQ=60)
                                                                                    TCATCCTGCGCGACCTACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGTAGAGCA           <  SRR4302540.3754792/94‑1 (MQ=60)
                                                                                    TCATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGTAGAGCA           <  SRR4302540.4939225/94‑1 (MQ=60)
                                                                                     CATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGTAGAGCAG          >  SRR4302540.1970065/1‑94 (MQ=60)
                                                                                     CATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGTAGAGCAG          >  SRR4302540.8140207/1‑94 (MQ=60)
                                                                                      ATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGTAGAGCAGT         >  SRR4302540.9079478/1‑94 (MQ=60)
                                                                                      ATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGTAGAGCAGT         >  SRR4302540.9296830/1‑94 (MQ=60)
                                                                                      ATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGTAGAGCAGT         >  SRR4302540.3381066/1‑94 (MQ=60)
                                                                                      ATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGTAGAGCAGT         >  SRR4302540.3459544/1‑94 (MQ=60)
                                                                                      ATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGTAGAGCAGT         >  SRR4302540.422990/1‑94 (MQ=60)
                                                                                      ATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGTAGAGCAGT         <  SRR4302540.7606016/94‑1 (MQ=60)
                                                                                      ATCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGTAGAGCAGT         <  SRR4302540.9518506/94‑1 (MQ=60)
                                                                                       TCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGTAGAGCAGTT        >  SRR4302540.6514158/1‑94 (MQ=60)
                                                                                       TCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGTAGAGCAGTT        <  SRR4302540.5989240/94‑1 (MQ=60)
                                                                                       TCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGTAGAGCAGTT        >  SRR4302540.5497817/1‑94 (MQ=60)
                                                                                       TCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGTAGAGCAGTT        <  SRR4302540.7380654/94‑1 (MQ=60)
                                                                                       TCCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGTAGAGCAGTT        >  SRR4302540.9674692/1‑94 (MQ=60)
                                                                                        CCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGTAGAGCAGTTG       >  SRR4302540.7728103/1‑94 (MQ=60)
                                                                                        CCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGTAGAGCAGTTG       >  SRR4302540.956565/1‑94 (MQ=60)
                                                                                        CCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGTAGAGCAGTTG       <  SRR4302540.1281068/94‑1 (MQ=60)
                                                                                        CCTGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGTAGAGCAGTTG       >  SRR4302540.2074214/1‑94 (MQ=60)
                                                                                          TGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGTAGAGCAGTTGAC     <  SRR4302540.806228/94‑1 (MQ=60)
                                                                                          TGCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGTAGAGCAGTTGAC     >  SRR4302540.7342963/1‑94 (MQ=60)
                                                                                           GCGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGTAGAGCAGTTGACT    <  SRR4302540.1112382/94‑1 (MQ=60)
                                                                                            CGCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGTAGAGCAGTTGACTT   <  SRR4302540.6815700/94‑1 (MQ=60)
                                                                                             GCGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGTAGAGCAGTTGACTTT  <  SRR4302540.2782359/94‑1 (MQ=60)
                                                                                             |                                                                                             
CCACCAGTTTTAACATCAAACTCAGATGTTAAGCGTGAAGGATAACGTTGCGCCAGCAACGGCCCGTAGGGCGAGCGAAGCGAGTCATCCTGCACGACCCACCAATCTTAAAGATTGGCCCCGAGTAAAAATCTTTCAGGTAACACCCGTATGGGTCGTTAGCTCAGTTGGTAGAGCAGTTGACTTT  >  NC_000913/780440‑780626

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑