Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.
ALE, Flask, Isolate Predicted Mutations Mean Coverage Total Reads Percent Mapped Mapped Reads Average Read Length
A1 F1 I2 R1 1475 266.7 13469680 98.2% 13227225 93.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,342,280 T→C intergenic (‑91/‑605) yfaL ← / → nrdA putative ATP‑binding component of a transport system/ribonucleoside diphosphate reductase 1 alpha subunit, B1

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,342,2800TC100.0% 431.8 / NA 131intergenic (‑91/‑605)yfaL/nrdAputative ATP‑binding component of a transport system/ribonucleoside diphosphate reductase 1 alpha subunit, B1
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (7/124);  total (7/124)

Only 100 of 132 total aligned reads displayed.

ATTAATCTAACCATCATTTTCTATAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGTGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATAATTCAAGTTAATAACCTTCAGGGATATCAGTTATATTTAAA  >  NC_000913/2342190‑2342369
                                                                                          |                                                                                         
atTAATCTAACCATCATTTTCTATAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGgcgc                                                                                         <  2:1625002/93‑1 (MQ=255)
  tAATCTAACCATCATTTTCTATAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCaa                                                                                       <  2:5974575/93‑1 (MQ=255)
   aaTCTAACCATCATTTTCTATAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAAt                                                                                      <  1:5598547/93‑1 (MQ=255)
   aaTCTAACCATCATTTTCTATAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAAt                                                                                      <  2:5097876/93‑1 (MQ=255)
    aTCTAACCATCATTTTCTATAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATg                                                                                     <  2:924947/93‑1 (MQ=255)
     tCTAACCATCATTTTCTATAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATgg                                                                                    <  2:4671244/93‑1 (MQ=255)
     tCTAACCATCATTTTCTATAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATgg                                                                                    <  1:2509063/93‑1 (MQ=255)
     tCTAACCATCATTTTCTATAAGACGGCGTATTGAATCACATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATgg                                                                                    <  1:4322479/93‑1 (MQ=255)
     acTAACCATCATTTTCTATAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATgg                                                                                    <  2:391837/92‑1 (MQ=255)
      cTAACCATCATTTTCTATAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGc                                                                                   <  2:5769526/93‑1 (MQ=255)
      cTAACCATCATTTTCTATAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGc                                                                                   <  2:3400189/93‑1 (MQ=255)
      cTAACCATCATTTTCTATAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGc                                                                                   <  1:6452327/93‑1 (MQ=255)
       tAACCATCATTTTCTATAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCt                                                                                  <  1:4618722/93‑1 (MQ=255)
        aaCCATCATTTTCTATAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTa                                                                                 <  2:5913536/93‑1 (MQ=255)
        aaCCATCATTTTCTATAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTa                                                                                 <  1:336497/93‑1 (MQ=255)
        aaCCATCATTTTCTATAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTa                                                                                 <  1:2715937/93‑1 (MQ=255)
        aaCCATCATTTTCTATAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTa                                                                                 <  1:1727184/93‑1 (MQ=255)
          ccATCATTTTCTATAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTAtt                                                                               <  2:80791/93‑1 (MQ=255)
          ccATCATTTTCTATAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTAtt                                                                               <  1:5868714/93‑1 (MQ=255)
           catcatTTTCTATAATACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTAttt                                                                              <  1:4899993/93‑1 (MQ=255)
            atcatTTTCTATAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTAtttt                                                                             <  2:2926351/93‑1 (MQ=255)
            atcatTTTCTATAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTAtttt                                                                             <  2:2828822/93‑1 (MQ=255)
            atcatTTTCTATAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTAtttt                                                                             <  2:319635/93‑1 (MQ=255)
            atcatTTTCTATAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTAtttt                                                                             <  1:2834024/93‑1 (MQ=255)
            atcatTTTCTATAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCACAATGGCTAtttt                                                                             <  1:1096242/93‑1 (MQ=255)
              catTTTCTATAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGt                                                                           <  1:2898453/93‑1 (MQ=255)
               atTTTCTATAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGtt                                                                          <  2:1423908/93‑1 (MQ=255)
                ttttCTATAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGtta                                                                         <  2:6397885/93‑1 (MQ=255)
                 tttCTATAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGttat                                                                        <  1:5731219/93‑1 (MQ=255)
                   tCTATAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGttatta                                                                      <  1:2727922/93‑1 (MQ=255)
                   tCTATAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGttatta                                                                      <  1:5764426/93‑1 (MQ=255)
                     tataAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTattatt                                                                    <  2:4577524/93‑1 (MQ=255)
                     tataAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTattatt                                                                    <  2:2624296/93‑1 (MQ=255)
                     tataAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTattatt                                                                    <  2:1701721/93‑1 (MQ=255)
                      ataAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTAttt                                                                   <  1:3622400/93‑1 (MQ=255)
                       taAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTtg                                                                  <  1:3897471/93‑1 (MQ=255)
                       taAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTtg                                                                  <  1:451078/93‑1 (MQ=255)
                       taAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTtg                                                                  <  1:4742338/93‑1 (MQ=255)
                         aGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTtgat                                                                <  1:5698077/93‑1 (MQ=255)
                         aGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTtgat                                                                <  2:4194210/93‑1 (MQ=255)
                         aGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTtgat                                                                >  1:6260439/1‑93 (MQ=255)
                          gACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTtgatg                                                               <  1:3896028/93‑1 (MQ=255)
                          gACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTtgatg                                                               <  2:1419186/93‑1 (MQ=255)
                           aCGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTtgatga                                                              <  1:5830758/93‑1 (MQ=255)
                            cGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGaa                                                             <  2:4967335/93‑1 (MQ=255)
                            cGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGaa                                                             <  2:3736672/93‑1 (MQ=255)
                             ggCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGaat                                                            <  1:733345/93‑1 (MQ=255)
                              gCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGaata                                                           <  1:1430035/93‑1 (MQ=255)
                               cGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGaataa                                                          <  1:3894237/93‑1 (MQ=255)
                                gTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGaataat                                                         <  2:3589713/93‑1 (MQ=255)
                                gTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGaataat                                                         <  2:6020408/93‑1 (MQ=255)
                                 tATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAataata                                                        <  1:3217331/93‑1 (MQ=255)
                                 tATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAataata                                                        <  2:142647/93‑1 (MQ=255)
                                 tATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAataata                                                        <  2:3761181/93‑1 (MQ=255)
                                 tATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAataata                                                        <  2:828512/93‑1 (MQ=255)
                                    ttAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCa                                                     <  2:4805565/93‑1 (MQ=255)
                                    ttAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCa                                                     <  2:4194557/93‑1 (MQ=255)
                                    ttAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCa                                                     <  1:5886763/93‑1 (MQ=255)
                                      aaTCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGt                                                   <  2:1421996/93‑1 (MQ=255)
                                      aaTCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGt                                                   <  2:3177908/93‑1 (MQ=255)
                                      aaTCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGt                                                   >  1:2834981/1‑93 (MQ=255)
                                       aTCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTg                                                  <  1:3639108/93‑1 (MQ=255)
                                        tCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGc                                                 <  2:1485051/93‑1 (MQ=255)
                                         cGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCg                                                <  2:5061327/93‑1 (MQ=255)
                                            aTTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACGCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCa                                             <  1:257591/93‑1 (MQ=255)
                                            aTTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCa                                             <  1:519772/93‑1 (MQ=255)
                                              tataCGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATa                                           <  2:3186834/93‑1 (MQ=255)
                                              tataCGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATa                                           <  1:3826532/93‑1 (MQ=255)
                                               ataCGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATaa                                          <  1:4427895/93‑1 (MQ=255)
                                                  cGATATGCAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATAATTc                                       <  2:4828697/93‑1 (MQ=255)
                                                     tatGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATAATTCAAg                                    <  2:3022638/93‑1 (MQ=255)
                                                      atGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATAATTCAAGt                                   <  1:540685/93‑1 (MQ=255)
                                                        ggAATATCTTTCTTTTGTAAATTGTTCACCCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATAATTCAAGTta                                 <  1:3559000/93‑1 (MQ=255)
                                                         gAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATAATTCAAGTtaa                                <  2:430680/93‑1 (MQ=255)
                                                          aaTATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATAATTCAAGTtaat                               <  2:2798124/93‑1 (MQ=255)
                                                          aaTATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATAATTCAAGTtaat                               <  1:5794721/93‑1 (MQ=255)
                                                           atatCTTTCATTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATAATTCAAGTtaata                              <  1:2269807/93‑1 (MQ=255)
                                                              tctttcttTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATAATTCAAGTTAATAAcc                           <  1:5496921/93‑1 (MQ=255)
                                                               ctttctttTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATAATTCAAGTTAATAACCt                          <  2:5434227/93‑1 (MQ=255)
                                                                tttctttTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATAATTCAAGTTAATAACCtt                         >  2:3222242/1‑93 (MQ=255)
                                                                tttctttTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATAATTCAAGTTAATAACCtt                         <  2:2277221/93‑1 (MQ=255)
                                                                 ttctttTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATAATTCAAGTTAATAACCTTc                        <  2:617097/93‑1 (MQ=255)
                                                                 ttctttTGCAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATAATTCAAGTTAATAACCTTc                        <  1:3525521/93‑1 (MQ=255)
                                                                   ctttTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATAATTCAAGTTAATAACCTTCAg                      <  2:2986963/93‑1 (MQ=255)
                                                                    ttttGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATAATTCAAGTTAATAACCTTCAgg                     <  1:3340611/93‑1 (MQ=255)
                                                                      ttGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATAATTCAAGTTAATAACCTTCAGGGa                   <  2:6191920/93‑1 (MQ=255)
                                                                        ttAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATAATTCAAGTTAATAACCTTCAGGGata                 <  2:4533255/92‑1 (MQ=255)
                                                                         tAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATAATTCAAGTTAATAACCTTCAGGGatat                <  1:3490774/93‑1 (MQ=255)
                                                                         tAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATAATTCAAGTTAATAACCTTCAGGGatat                <  2:2082857/93‑1 (MQ=255)
                                                                          aaaTTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATAATTCAAGTTAATAACCTTCAGGGATATc               <  2:4085604/93‑1 (MQ=255)
                                                                             ttGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATAATTCAAGTTAATAACCTTCAGGGATATCAGt            <  1:5077369/93‑1 (MQ=255)
                                                                               gTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATAATTCAAGTTAATAACCTTCAGGGATATCAGTta          <  2:563667/93‑1 (MQ=255)
                                                                               gTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATAATTCAAGTTAATAACCTTCAGGGATATCAGTta          <  2:5732194/93‑1 (MQ=255)
                                                                                ttCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATAATTCAAGTTAATAACCTTCAGGGATATCAGTtat         <  1:1053179/93‑1 (MQ=255)
                                                                                   aaCCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATAATTCAAGTTAATAACCTTCAGGGATATCAGTTATAtt      <  1:5924412/93‑1 (MQ=255)
                                                                                   aaCCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATAATTCAAGTTAATAACCTTCAGGGATATCAGTTATAtt      <  1:1328944/93‑1 (MQ=255)
                                                                                   aaCCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATAATTCAAGTTAATAACCTTCAGGGATATCAGTTATAtt      <  1:4629697/93‑1 (MQ=255)
                                                                                   aaCCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATAATTCAAGTTAATAACCTTCAGGGATATCAGTTATAtt      <  1:4349527/93‑1 (MQ=255)
                                                                                    aCCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATAATTCAAGTTAATAACCTTCAGGGATATCAGTTATAttt     >  2:3043510/1‑93 (MQ=255)
                                                                                      ccGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATAATTCAAGTTAATAACCTTCAGGGATATCAGTTATATTTaa   <  1:4794771/93‑1 (MQ=255)
                                                                                          |                                                                                         
ATTAATCTAACCATCATTTTCTATAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGTGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATAATTCAAGTTAATAACCTTCAGGGATATCAGTTATATTTAAA  >  NC_000913/2342190‑2342369

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

BRESEQ :: bam2aln output
ATATTAATCTAACCATCATTTTCTATAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGTGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATAATTCAAGTTAATAACCTTCAGGGATATCAGTTATATTTAAACTAA  >  NC_000913/2342188‑2342373
                                                                                            |                                                                                             
ATATTAATCTAACCATCATTTTCTATAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCG                                                                                              <  SRR4302536.4015328/94‑1 (MQ=60)
ATATTAATCTAACCATCATTTTCTATAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCG                                                                                              <  SRR4302536.1717394/94‑1 (MQ=60)
     AATCTAACCATCATTTTCTATAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATG                                                                                         <  SRR4302536.5764962/94‑1 (MQ=60)
      ATCTAACCATCATTTTCTATAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGG                                                                                        <  SRR4302536.3690009/94‑1 (MQ=60)
       TCTAACCATCATTTTCTATAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGC                                                                                       <  SRR4302536.2584718/94‑1 (MQ=60)
       TCTAACCATCATTTTCTATAAGACGGCGTATTGAATCACATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGC                                                                                       <  SRR4302536.4451903/94‑1 (MQ=60)
        CTAACCATCATTTTCTATAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCT                                                                                      <  SRR4302536.6645036/94‑1 (MQ=60)
         TAACCATCATTTTCTATAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTA                                                                                     <  SRR4302536.4757470/94‑1 (MQ=60)
         TAACCATCATTTTCTATAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTA                                                                                     <  SRR4302536.2889170/94‑1 (MQ=60)
          AACCATCATTTTCTATAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTAT                                                                                    <  SRR4302536.1777056/94‑1 (MQ=60)
          AACCATCATTTTCTATAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTAT                                                                                    <  SRR4302536.2796942/94‑1 (MQ=60)
          AACCATCATTTTCTATAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTAT                                                                                    <  SRR4302536.3999169/94‑1 (MQ=60)
          AACCATCATTTTCTATAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTAT                                                                                    <  SRR4302536.345410/94‑1 (MQ=60)
            CCATCATTTTCTATAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTT                                                                                  <  SRR4302536.5733746/94‑1 (MQ=60)
            CCATCATTTTCTATAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTT                                                                                  <  SRR4302536.6043583/94‑1 (MQ=60)
            CCATCATTTTCTATAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTT                                                                                  <  SRR4302536.3082205/94‑1 (MQ=60)
             CATCATTTTCTATAATACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTT                                                                                 <  SRR4302536.5047345/94‑1 (MQ=60)
              ATCATTTTCTATAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTG                                                                                <  SRR4302536.2917905/94‑1 (MQ=60)
              ATCATTTTCTATAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCACAATGGCTATTTTG                                                                                <  SRR4302536.1129123/94‑1 (MQ=60)
                CATTTTCTATAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTT                                                                              <  SRR4302536.2983963/94‑1 (MQ=60)
                CATTTTCTATAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTT                                                                              <  SRR4302536.5920998/94‑1 (MQ=60)
                   TTTCTATAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATT                                                                           <  SRR4302536.5901693/94‑1 (MQ=60)
                     TCTATAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTAT                                                                         <  SRR4302536.5935910/94‑1 (MQ=60)
                     TCTATAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTAT                                                                         <  SRR4302536.2809250/94‑1 (MQ=60)
                        ATAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTG                                                                      <  SRR4302536.3730712/94‑1 (MQ=60)
                         TAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGA                                                                     <  SRR4302536.4885038/94‑1 (MQ=60)
                         TAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGA                                                                     <  SRR4302536.462927/94‑1 (MQ=60)
                         TAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGA                                                                     <  SRR4302536.4013351/94‑1 (MQ=60)
                          AAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGAT                                                                    >  SRR4302536.6446955/1‑94 (MQ=60)
                           AGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATG                                                                   <  SRR4302536.5867507/94‑1 (MQ=60)
                            GACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGA                                                                  <  SRR4302536.4011863/94‑1 (MQ=60)
                             ACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAA                                                                 <  SRR4302536.6004495/94‑1 (MQ=60)
                               GGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATA                                                               <  SRR4302536.754855/94‑1 (MQ=60)
                                GCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAA                                                              <  SRR4302536.1472507/94‑1 (MQ=60)
                                 CGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAAT                                                             <  SRR4302536.4010022/94‑1 (MQ=60)
                                   TATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATAT                                                           <  SRR4302536.3311687/94‑1 (MQ=60)
                                   TATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATAT                                                           <  SRR4302536.2618474/94‑1 (MQ=60)
                                   TATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATAT                                                           <  SRR4302536.3540735/94‑1 (MQ=60)
                                      TTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAG                                                        <  SRR4302536.6062089/94‑1 (MQ=60)
                                      TTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAG                                                        <  SRR4302536.6017577/94‑1 (MQ=60)
                                       TAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGT                                                       >  SRR4302536.2918885/1‑94 (MQ=60)
                                        AATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTG                                                      <  SRR4302536.4154877/94‑1 (MQ=60)
                                         ATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGC                                                     <  SRR4302536.3747926/94‑1 (MQ=60)
                                              ATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACGCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCAT                                                <  SRR4302536.264472/94‑1 (MQ=60)
                                              ATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCAT                                                <  SRR4302536.533091/94‑1 (MQ=60)
                                                TATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATAA                                              <  SRR4302536.3940533/94‑1 (MQ=60)
                                                 ATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATAAT                                             <  SRR4302536.4560596/94‑1 (MQ=60)
                                                        ATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATAATTCAAGTT                                      <  SRR4302536.554483/94‑1 (MQ=60)
                                                          GGAATATCTTTCTTTTGTAAATTGTTCACCCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATAATTCAAGTTAA                                    <  SRR4302536.3665417/94‑1 (MQ=60)
                                                          GGAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATAATTCAAGTTAA                                    <  SRR4302536.4934026/94‑1 (MQ=60)
                                                           GAATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATAATTCAAGTTAAT                                   <  SRR4302536.1701268/94‑1 (MQ=60)
                                                            AATATCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATAATTCAAGTTAATA                                  <  SRR4302536.5967235/94‑1 (MQ=60)
                                                             ATATCTTTCATTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATAATTCAAGTTAATAA                                 <  SRR4302536.2338561/94‑1 (MQ=60)
                                                                TCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATAATTCAAGTTAATAACCT                              <  SRR4302536.5660949/94‑1 (MQ=60)
                                                                TCTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATAATTCAAGTTAATAACCT                              <  SRR4302536.4646908/94‑1 (MQ=60)
                                                                 CTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATAATTCAAGTTAATAACCTT                             <  SRR4302536.5349153/94‑1 (MQ=60)
                                                                 CTTTCTTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATAATTCAAGTTAATAACCTT                             <  SRR4302536.610668/94‑1 (MQ=60)
                                                                   TTCTTTTGCAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATAATTCAAGTTAATAACCTTCA                           <  SRR4302536.3630853/94‑1 (MQ=60)
                                                                      TTTTGTAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATAATTCAAGTTAATAACCTTCAGGG                        <  SRR4302536.3439586/94‑1 (MQ=60)
                                                                      TTTTGTAAAGTGTTCAACCCGGCGCAATGGCTATTTTGTTATTGTGGGATGAATAATATCAGTGCGTCATAATTCAAGTTATTAACCTTCAGGG                        <  SRR4302536.421459/94‑1 (MQ=60)
                                                                           TAAATTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATAATTCAAGTTAATAACCTTCAGGGATATC                   <  SRR4302536.3594895/94‑1 (MQ=60)
                                                                               TTGTTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATAATTCAAGTTAATAACCTTCAGGGATATCAGTT               <  SRR4302536.5229333/94‑1 (MQ=60)
                                                                                  TTCAACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATAATTCAAGTTAATAACCTTCAGGGATATCAGTTATA            <  SRR4302536.1084639/94‑1 (MQ=60)
                                                                                     AACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATAATTCAAGTTAATAACCTTCAGGGATATCAGTTATATTT         <  SRR4302536.4768812/94‑1 (MQ=60)
                                                                                     AACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATAATTCAAGTTAATAACCTTCAGGGATATCAGTTATATTT         <  SRR4302536.1368617/94‑1 (MQ=60)
                                                                                     AACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATAATTCAAGTTAATAACCTTCAGGGATATCAGTTATATTT         <  SRR4302536.4479683/94‑1 (MQ=60)
                                                                                     AACCCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATAATTCAAGTTAATAACCTTCAGGGATATCAGTTATATTT         <  SRR4302536.6100893/94‑1 (MQ=60)
                                                                                        CCGGCGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATAATTCAAGTTAATAACCTTCAGGGATATCAGTTATATTTAAA      <  SRR4302536.4939085/94‑1 (MQ=60)
                                                                                            CGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATAATTCAAGTTAATAACCTTCAGGGATATCAGTTATATTTAAACTAA  >  SRR4302536.1476937/1‑94 (MQ=60)
                                                                                            |                                                                                             
ATATTAATCTAACCATCATTTTCTATAAGACGGCGTATTTAATCGCATTATACGATATGGAATATCTTTCTTTTGTAAATTGTTCAACCCGGTGCAATGGCTATTTTGTTATTATTTGATGAATAATATCAGTGCGTCATAATTCAAGTTAATAACCTTCAGGGATATCAGTTATATTTAAACTAA  >  NC_000913/2342188‑2342373

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 9 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑