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
A9 F28 I1 R1 151 87.4 2971636 99.2% 2947862 138.5

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,018,530 (C)6→7 coding (145/1128 nt) fliK → flagellar hook‑length control protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,018,5241.C100.0% 180.0 / NA 51A47P (GCC→CCC) fliKflagellar hook‑length control protein
Reads supporting (aligned to +/- strand):  ref base . (0/0);  new base C (26/25);  total (26/25)

AATGATTCGCTTAGCGCCCTTGATTACCGCCGACGTTGACACCACCACATTGCCTGGCGGCAAAGCCAGCGATGCTGCACAAGATTTTCTCGCGTTGTTGAGCGAAGCATTAGCAGGCGAGACAACTACCGACAAAGCGG‑‑CCCCCCAGTTGCTGGTGG‑‑‑CAACAGATAAGCCCACGACAAAAGGCGAGCCGCTGATCAGCGATATTGTTTCCGACGCGCAACAAGCTAATTTACTGATCCCTGTGGATGAAACACCGCCTGTCATCAACGACGAA  >  NC_000913/2018385‑2018658
                                                                                                                                            |                                                                                                                                          
aaTGATTCGCTTAGCGCCCTTGATTACCGCCGACGTTGACACCACCACATTGCCTGGCGGCAAAGCCAGCGATGCTGCACAAGATTTTCTCGCGTTGTTGAGCGAAGCATTAGCAGGCGAGACAACTACCGACAAAGCgg                                                                                                                                             >  2:168065/1‑140 (MQ=255)
     ttCGCTTAGCGCCCTTGATTACCGCCGACGTTGACACCACCACATTGCCTGGCGGCAAAGCCAGCGATGCTGCACAAGATTTTCTCGCGTTGTTGAGCGAAGCATTAGCAGGCGAGACAACTACCGACAAAGCGG‑‑ccccc                                                                                                                                      >  1:210000/1‑140 (MQ=255)
       cGCTTAGCGCCCTTGATTACCGCCGACGTTGACACCACCACATTGCCTGGCGGCAAAGCCAGCGATGCTGCACAAGATTTTCTCGCGTTGTTGAGCGAAGCATTAGCAGGCGAGACAACTACCGACAAAGCGG‑‑ccccccc                                                                                                                                    >  2:366791/1‑139 (MQ=255)
         cTTAGCGCCCTTGATTACCGCCGACGTTGACACCACCACATTGCCTGGCGGCAAAGCCAGCGATGCTGCACAAGATTTTCTCGCGTTGTTGAGCGAAGCATTAGCAGGCGAGACAACTACCGACAAAGCGG‑‑cccccccag                                                                                                                                  >  2:400845/1‑137 (MQ=255)
          ttAGCGCCCTTGATTACCGCCGACGTTGACACCACCACATTGCCTGGCGGCAAAGCCAGCGATGCTGCACAAGATTTTCTCGCGTTGTTGAGCGAAGCATTAGCAGGCGAGACAACTACCGACAAAGCGG‑‑cccccccagt                                                                                                                                 >  2:1170408/1‑136 (MQ=255)
                     gATTACCGCCGACGTTGACACCACCACATTGCCTGGCGGCAAAGCCAGCGATGCTGCACAAGATTTTCTCGCGTTGTTGAGCGAAGCATTAGCAGGCGAGACAACTACCGACAAAGCGGCCCCCCCAGTTGCTGGTGG‑‑‑Ca                                                                                                                    <  1:366791/140‑1 (MQ=255)
                      aTTACCGCCGACGTTGACACCACCACATTGCCTGGCGGCAAAGCCAGCGATGCTGCACAAGATTTTCTCGCGTTGTTGAGCGAAGCATTAGCAGGCGAGACAACTACCGACAAAGCGGCCCCCCCAGTTGCTGGTGG‑‑‑Caa                                                                                                                   <  1:281905/140‑1 (MQ=255)
                       ttACCGCCGACGTTGACACCACCACATTGCCTGGCGGCAAAGCCAGCGATGCTGCACAAGATTTTCTCGCGTTGTTGAGCGAAGCATTAGCAGGCGAGACAACTACCGACAAAGCGGCCCCCCCAGTTGCTGGTGG‑‑‑CAAc                                                                                                                  <  1:1115425/140‑1 (MQ=255)
                        tACCGCCGACGTTGACACCACCACATTGCCTGGCGGCAAAGCCAGCGATGCTGCACAAGATTTTCTCGCGTTGTTGAGCGAAGCATTAGCAGGCGAGACAACTACCGACAAAGCGGCCCCCCCAGTTGCTGGTGG‑‑‑CAACa                                                                                                                 >  2:665994/1‑140 (MQ=255)
                                          caccacATTGCCTGGCGGCAAAGCCAGCGATGCTGCACAAGATTTTCTCGCGTTGTTGAGCGAAGCATTAGCAGGCGAGACAACTACCGACAAAGCGGCCCCCCCAGTTGCTGGTGG‑‑‑CAACAGATAAGCCCACGACaaaa                                                                                               >  2:971838/1‑140 (MQ=255)
                                            ccacATTGCCTGGCGGCAAAGCCAGCGATGCTGCACAAGATTTTCTCGCGTTGTTGAGCGAAGCATTAGCAGGCGAGACAACTACCGACAAAGCGGCCCCCCCAGTTGCTGGTGG‑‑‑CAACAGATAAGCCCACGACAAAAgg                                                                                             >  1:529175/1‑140 (MQ=255)
                                              acaTTGCCTGGCGGCAAAGCCAGCGATGCTGCACAAGATTTTCTCGCGTTGTTGAGCGAAGCATTAGCAGGCGAGACAACTACCGACAAAGCGGCCCCCCCAGTTGCTGGTGG‑‑‑CAACAGATAAGCCCACGACAAAAGGCg                                                                                           <  1:406632/140‑1 (MQ=255)
                                              acaTTGCCTGGCGGCAAAGCCAGCGATGCTGCACAAGATTTTCTCGCGTTGTTGAGCGAAGCATTAGCAGGCGAGACAACTACCGACAAAGCGGCCCCCCCAGTTGCTGGTGG‑‑‑CAACAGATAAGCCCACGACAAAAGGCg                                                                                           <  1:328298/140‑1 (MQ=255)
                                              acaTTGCCTGGCGGCAAAGCCAGCGATGCTGCACAAGATTTTCTCGCGTTGTTGAGCGAAGCATTAGCAGGCGAGACAACTACCGACAAAGCGGCCCCCCCAGTTGCTGGTGG‑‑‑CAACAGATAAGCCCACGACAAAAGGCg                                                                                           <  1:1082481/140‑1 (MQ=255)
                                               caTTGCCTGGCGGCAAACCCAGCGATGCTGCACAAGATTTTCTCGCGTTGTTGAGCGAAGCATTAGCAGGCGAGACAACTACCGACAAAGCGGCCCCCCCAGTTGCTGGAGG‑‑‑CAACAGATAAGCCCACGACAAAAGGCGa                                                                                          >  2:1472153/1‑140 (MQ=255)
                                                   gCCTGGCGGCAAAGCCAGCGATGCTGCACAAGATTTTCTCGCGTTGTTGAGCGAAGCATTAGCAGGCGAGACAACTACCGACAAAGCGGCCCCCCCAGTTGCTGGTGG‑‑‑CAACAGATAAGCCCACGACAAAAGGCGAGCCg                                                                                      <  1:614288/140‑1 (MQ=255)
                                                   gCCTGGCGGCAAAGCCAGCGATGCTGCACAAGATTTTCTCGCGTTGTTGAGCGAAGCATTAGCAGGCGAGACAACTACCGACAAAGCGGCCCCCCCAGTTGCTGGTGG‑‑‑CAACAGATAAGCCCACGACAAAAGGCGAGCCg                                                                                      <  2:597996/140‑1 (MQ=255)
                                                    ccTGGCGGCAAAGCCAGCGATGCTGCACAAGATTTTCTCGCGTTGTTGAGCGAAGCATTAGCAGGCGAGACAACTACCGACAAAGCGGCCCCCCCAGTTGCTGGTGG‑‑‑CAACAGATAAGCCCACGACAAAAGGCGAGCCGc                                                                                     >  1:91613/1‑140 (MQ=255)
                                                      tGGCGGCAAAGCCAGCGATGCTGCACAAGATTTTCTCGCGTTGTTGAGCGAAGCATTAGCAGGCGAGACAACTACCGACAAAGCGGCCCCCCCAGTTGCTGGTGG‑‑‑CAACAGATAAGCCCACGACAAAAGGCGAGCCGCTg                                                                                   >  1:1462043/1‑140 (MQ=255)
                                                       ggcggcAAAGCCAGCNATGCTGCACAAGATTTTCTCGCGGTGTTGAGCGAAGCATTAGCAGGCGAGACAACTACCGACAAAGCGGCCCCCCCAGTTGCTGGTGG‑‑‑CAACAGATAAGCCCACGACAAAAGGCGAGCCGCTGa                                                                                  >  1:1105453/1‑140 (MQ=255)
                                                            cAAAGCCAGCGATGCTGCACAAGATTTTCTCGCGTTGTTGAGCGAAGCATTAGCAGGCGAGACAACTACCGACAAAGCGGCCCCCCCAGTTGCTGGTGG‑‑‑CAACAGATAAGCCCACGACAAAAGGCGAGCCGCTGATCAGc                                                                             >  1:375223/1‑140 (MQ=255)
                                                            cAAAGCCAGCGATGCTGCACAAGATTTTCTCGCGTTGTTGAGCGAAGCATTAGCAGGCGAGACAACTACCGACAAAGCGGCCCCCCCAGTTGCTGGTGG‑‑‑CAACAGATAAGCCCACGACAAAAGGCGAGCCGCTGATCAGc                                                                             <  1:1170408/140‑1 (MQ=255)
                                                             aaaGCCAGCGATGCTGCACAAGATTTTCTCGCGTTGTTGAGCGAAGCATTAGCAGGCGAGACAACTACCGACAAAGCGGCCCCCCCAGTTGCTGGTGG‑‑‑CAACAGATAAGCCCACGACAAAAGGCGAGCCGCTGATCAGCg                                                                            <  1:347011/140‑1 (MQ=255)
                                                              aaGCCAGCGATGCTGCACAAGATTTTCTCGCGTTGTTGAGCGAAGCATTAGCAGGCGAGACAACTACCGACAAAGCGGCCCCCCCAGTTGCTGGTGG‑‑‑CAACAGATAAGCCCACGACAAAAGGCGAGCCGCTGATCAGCGa                                                                           >  1:439696/1‑140 (MQ=255)
                                                               aGCCAGCGATGCTGCACAAGATTTTCTCGCGTTGTTGAGCGAAGCATTAGCAGGCGAGACAACTACCGACAAAGCGGCCCCCCCAGTTGCTGGTGG‑‑‑CAACAGATAAGCCCACGACAAAAGGCGAGCCGCTGATCAGCGat                                                                          <  1:400845/140‑1 (MQ=255)
                                                                           tgcACAAGATTTTCTCGCGTTGTTGAGCGAAGCATTAGCAGGCGAGACAACTACCGACAAAGCGGCCCCCCCAGTTGCTGGTGG‑‑‑CAACAGATAAGCCCACGACAAAAGGCGAGCCGCTGATCAGCGATATTGTTTCCGAc                                                              >  1:337348/1‑140 (MQ=255)
                                                                               caAGATTTTCTCGCGTTGTTGAGCGAAGCATTAGCAGGCGAGACAACTACCGACAAAGCGGCCCCCCCAGTTGCTGGTGG‑‑‑CAACAGATAAGCCCACGACAAAAGGCGAGCCGCTGATCAGCGATATTGTTTCCGACgcgc                                                          >  2:1379226/1‑140 (MQ=255)
                                                                                aaGATTTTCTCGCGTTGTTGAGCGAAGCATTAGCAGGCGAGACAACTACCGACAAAGCGGCCCCCCCAGTTGCTGGTGG‑‑‑CAACAGATAAGCCCACGACAAAAGGCGAGCCGCTGATCAGCGATATTGTTTCCGACGCGca                                                         <  2:91613/140‑1 (MQ=255)
                                                                                  gATTTTCTCGCGTTGTTGAGCGAAGCATTAGCAGGCGAGACAACTACCGACAAAGCGGCCCCCCCAGTTGCTGGTGG‑‑‑CAACAGATAAGCCCACGACAAAAGGCGAGCCGCTGATCAGCGATATTGTTTCCGACGCGcaac                                                       >  1:1111192/1‑140 (MQ=255)
                                                                                  gATTTTCTCGCGTTGTTGAGCGAAGCATTAGCAGGCGAGACAACTACCGACAAAGCGGCCCCCCCAGTTGCTGGTGG‑‑‑CAACAGATAAGCCCACGACAAAAGGCGAGCCGCTGATCAGCGATATTGTTTCCGACGCGcaac                                                       >  1:602640/1‑140 (MQ=255)
                                                                                  gATTTTCTCGCGTTGTTGAGCGAAGCATTAGCAGGCGAGACAACTACCGACAAAGCGGCCCCCCCAGTTGCTGGTGG‑‑‑CAACAGATAAGCCCACGACAAAAGGCGAGCCGCTGATCAGCGATATTGTTTCCGACGCGcaac                                                       >  1:607804/1‑140 (MQ=255)
                                                                                   aTTTTCTCGCGTTGTTGAGCGAAGCATTAGCAGGCGAGACAACTACCGACAAAGCGGCCCCCCCAGTTGCTGGTGG‑‑‑CAACAGATAAGCCCACGACAAAAGGCGAGCCGCTGATCAGCGATATTGTTTCCGACGCGcaaca                                                      >  1:264338/1‑140 (MQ=255)
                                                                                    ttttCTCGCGTTGTTGAGCGAAGCATTAGCAGGCGAGACAACTACCGACAAAGCGGCCCCCCCAGTTGCTGGTGG‑‑‑CAACAGATAAGCCCACGACAAAAGGCGAGCCGCTGATCAGCGATATTGTTTCCGACGCGcaacaa                                                     >  1:264480/1‑140 (MQ=255)
                                                                                     tttCTCGCGTTGTTGAGCGAAGCATTAGCAGGCGAGACAACTACCGACAAAGCGGCCCCCCCAGTTGCTGGTGG‑‑‑CAACAGATAAGCCCACGACAAAAGGCGAGCCGCTGATCAGCGATATTGTTTCCGACGCGCAACAAg                                                    <  1:971838/140‑1 (MQ=255)
                                                                                     tttCTCGCGTTGTTGAGCGAAGCATTAGCAGGCGAGACAACTACCGACAAAGCGGCCCCCCCAGTTGCTGGTGG‑‑‑CAACAGATAAGCCCACGACAAAAGGCGAGCCGCTGATCAGCGATATTGTTTCCGACGCGCAACAAg                                                    <  2:1462043/140‑1 (MQ=255)
                                                                                       tctcGCGTTGTTGAGCGAAGCATTAGCAGGCGAGACAACTACCGACAAAGCGGCCCCCCCAGTTGCTGGTGG‑‑‑CAACAGATAAGCCCACGACAAAAGGCGAGCCGCTGATCAGCGATATTGTTTCCGACGCGcaa                                                        >  2:895175/1‑134 (MQ=255)
                                                                                       tctcGCGTTGTTGAGCGAAGCATTAGCAGGCGAGACAACTACCGACAAAGCGGCCCCCCCAGTTGCTGGTGG‑‑‑CAACAGATAAGCCCACGACAAAAGGCGAGCCGCTGATCAGCGATATTGTTTCCGACGCGcaa                                                        <  1:895175/134‑1 (MQ=255)
                                                                                         tcGCGTTGTTGAGCGAAGCATTAGCAGGCGAGACAACTACCGACAAAGCGGCCCCCCCAGTTGCTGGTGG‑‑‑CAACAGATAAGCCCACGACAAAAGGCGAGCCGCTGATCAGCGATATTGTTTCCGACGCGCAACAAGCTaa                                                >  1:1467255/1‑140 (MQ=255)
                                                                                             gttgttGAGCGAAGCATTAGCAGGCGAGACAACTACCGACAAAGCGGCCCCCCCAGTTGCTGGTGG‑‑‑CAACAGATAAGCCCACGACAAAAGGCGAGCCGCTGATCAGCGATATTGTTTCCGACGCGCAACAAGCTAATTTa                                            <  1:1379226/140‑1 (MQ=255)
                                                                                                    aGCGAAGCATTAGCAGGCGAGACAACTACCGACAAAGCGGCCCCCCCAGTTGCTGGTGG‑‑‑CAACAGATAAGCCCACGACAAAAGGCGAGCCGCTGATCAGCGATATTGTTTCCGACGCGCAACAAGCTAATTTACTGATcc                                     <  2:337348/140‑1 (MQ=255)
                                                                                                      cGAAGCATTAGCAGGCGAGACAACTACCGACAAAGCGGCCCCCCCAGTTGCTGGTGG‑‑‑CAACAGATAAGCCCACGACAAAAGGCGAGCCGCTGATCAGCGATATTGTTTCCGACGCGCAACAAGCTAATTTACTGATCCCt                                   <  1:665994/140‑1 (MQ=255)
                                                                                                      cGAAGCATTAGCAGGCGAGACAACTACCGACAAAGCGGCCCCCCCAGTTGCTGGTGG‑‑‑CAACAGATAAGCCCACGACAAAAGGCGAGCCGCTGATCAGCGATATTGTTTCCGACGCGCAACAAGCTAATTTACTGATCCCt                                   <  2:792992/140‑1 (MQ=255)
                                                                                                           cATTAGCAGGCGAGACAACTACCGACAAAGCGGCCCCCCCAGTTGCTGGTGG‑‑‑CAACAGATAAGCCCACGACAAAAGGCGAGCCGCTGATCAGCGATATTGTTTCCGACGCGCAACAAGCTAATTTACTGAt                                       >  1:331200/1‑131 (MQ=255)
                                                                                                           cATTAGCAGGCGAGACAACTACCGACAAAGCGGCCCCCCCAGTTGCTGGTGG‑‑‑CAACAGATAAGCCCACGACAAAAGGCGAGCCGCTGATCAGCGATATTGTTTCCGACGCGCAACAAGCTAATTTACTGAt                                       <  2:331200/131‑1 (MQ=255)
                                                                                                            aTTAGCAGGCGAGACAACTACCGACAAAGCGGCCCCCCCCAGTTGCTGGTGGCAACAACAGATAAGCCCACGACAAAAGGCGAGCCGCTGATCAGCGATATTGTTTCCGACGCGCAACAAGCTAATTTACTGATCCCtgt                                 <  1:669674/140‑1 (MQ=255)
                                                                                                                 cAGGCGAGACAACTACCGACAAAGCGGCCCCCCCAGTTGCTGGTGG‑‑‑CAACAGATAAGCCCACGACAAAAGGCGAGCCGCTGATCAGCGATATTGTTTCCGACGCGCAACAAGCTAATTTACTGACCCCTGTGGATGAAac                        <  2:264338/140‑1 (MQ=255)
                                                                                                                     cGAGACAACTACCGACAAAGCGGCCCCCCCAGTTGCTGGTGG‑‑‑CAACAGATAAGCCCACGACAAAAGGCGAGCCGCTGATCAGCGATATTGTTTCCGACGCGCAACAAGCTAATTTACTGATCCCTGTGGATGAAACACCg                    >  2:299975/1‑140 (MQ=255)
                                                                                                                             cTACCGACAAAGCGGCCCCCCCAGTTGCTGGTGG‑‑‑CAACAGATAAGCCCACGACAAAAGGCGAGCCGCTGATCAGCGATATTGTTTCCGACGCGCAACAAGCTAATTTACTGATCCCTGTGGATGAAACACCGCCTGtcat            <  2:602640/140‑1 (MQ=255)
                                                                                                                                  gACAAAGCGGCCCCCCCAGTTGCTGGTGG‑‑‑CAACAGATAAGCCCACGACAAAAGGCGAGCCGCTGATCAGCGATATTGTTTCCGACGCGCAACAAGCTAATTTACTGATCCCTGTGGATGAAACACCGCCTGTCATCAacg       >  1:721090/1‑140 (MQ=255)
                                                                                                                                  gACAAAGCGGCCCCCCCAGTTGCTGGTGG‑‑‑CAACAGATAAGCCCACGACAAAAGGCGAGCCGCTGATCAGCGATATTGTTTCCGACGCGCAACAAGCTAATTTACTGATCCCTGTGGATGAAACACCGCCTGTCATCAacg       >  1:486238/1‑140 (MQ=255)
                                                                                                                                   aCAAAGCGGCCCCCCCAGTTGCTGGTGG‑‑‑CAACAGATAAGCCCACGACAAAAGGCGAGCCGCTGATCAGCGATATTGTTTCCGACGCGCAACAAGCTAATTTACTGATCCCTGTGGATGAAACACCg                    <  2:530086/126‑1 (MQ=255)
                                                                                                                                   aCAAAGCGGCCCCCCCAGTTGCTGGTGG‑‑‑CAACAGATAAGCCCACGACAAAAGGCGAGCCGCTGATCAGCGATATTGTTTCCGACGCGCAACAAGCTAATTTACTGATCCCTGTGGATGAAACACCg                    >  1:530086/1‑126 (MQ=255)
                                                                                                                                   aCAAAGCGGCCCCCCCAGTTGCTGGTGG‑‑‑CAACAGATAAGCCCACGACAAAAGGCGAGCCGCTGATCAGCGATATTGTTTCCGACGCGCAACAAGCTAATTTACTGATCCCTGTGGATGAAACACCGCCTGTCATCAacga      >  1:254111/1‑140 (MQ=255)
                                                                                                                                   aCAAAGCGGCCCCCCCAGTTGCTGGTGG‑‑‑CAACAGATAAGCCCACGACAAAAGGCGAGCCGCTGATCAGCGATATTGTTTCCGACGCGCAACAAGCTAATTTACTGATCCCTGTGGATGAAACACCGCCTGTCATCAacga      >  2:773668/1‑140 (MQ=255)
                                                                                                                                       aGCGGCCCCCCCAGTTGCTGGTGG‑‑‑CAACAGATAAGCCCACGACAAAAGGCGAGCCGCTGATCAGCGATATTGTTTCCGACGCGCAACAAGCTAATTTACTGATCCCTGTGGATGAAACACCGc                   <  1:889717/123‑1 (MQ=255)
                                                                                                                                       aGCGGCCCCCCCAGTTGCTGGTGG‑‑‑CAACAGATAAGCCCACGACAAAAGGCGAGCCGCTGATCAGCGATATTGTTTCCGACGCGCAACAAGCTAATTTACTGATCCCTGTGGATGAAACACCGc                   >  2:889717/1‑123 (MQ=255)
                                                                                                                                       aGCGGCCCCCCCAGTTGCTGGTGG‑‑‑CAACAGATAAGCCCACGACAAAAGGCGAGCCGCTGATCAGCGATATTGTTTCCGACGCGCAACAAGCTAATTTACTGATCCCTGTGGATGAAACACCGCCTGTCATCAACGACGaa  >  1:654137/1‑140 (MQ=255)
                                                                                                                                            |                                                                                                                                          
AATGATTCGCTTAGCGCCCTTGATTACCGCCGACGTTGACACCACCACATTGCCTGGCGGCAAAGCCAGCGATGCTGCACAAGATTTTCTCGCGTTGTTGAGCGAAGCATTAGCAGGCGAGACAACTACCGACAAAGCGG‑‑CCCCCCAGTTGCTGGTGG‑‑‑CAACAGATAAGCCCACGACAAAAGGCGAGCCGCTGATCAGCGATATTGTTTCCGACGCGCAACAAGCTAATTTACTGATCCCTGTGGATGAAACACCGCCTGTCATCAACGACGAA  >  NC_000913/2018385‑2018658

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap:     Deleted base: 

GATK/CNVnator alignment

N/A