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
A5 F73 I1 R1 30 41.4 1413620 99.2% 1402311 139.5

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,946,395 C→A A262S (GCT→TCT)  mltA ← membrane‑bound lytic murein transglycosylase A

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,946,3950CA93.5% 149.5 / 4.7 46A262S (GCT→TCT) mltAmembrane‑bound lytic murein transglycosylase A
Reads supporting (aligned to +/- strand):  ref base C (2/1);  new base A (23/20);  total (25/21)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.38e-01

CCATTAAATTTGCCGTTATTATCCAGCAACGGCACTTCTGCCAGCAAGGTAGTACCTGGCGGAATAATGGAACGATCAGAGGCAACTGACGCGCGACCAACCAGCGGCACCGCACTTGCCCCTTTCACCGGAGCAAAAGATTGCGGTTTAAAGAAGACGAAAGACGGGTTCTGTTCCAGCAGCTCGCGAACCTCGGCTTCACTGTGTGTTTCGCCCCAGTGACGAATCGCCTGCATCGACATATCTTCTTTTTTCACTTCGCCACGGTCG  >  NC_000913/2946262‑2946531
                                                                                                                                     |                                                                                                                                        
ccATTAAATTTGCCGTTATTATCCAGCAACGGCACTTCTGCCAGCAAGGTAGTACCTGGCGGAATAATGGAACGATCAGAGGCAACTGACGCGCGACCAACCAGCGGCACCGCACTTGCCCCTTTCACCGGAGAAAAAGa                                                                                                                                    >  1:633459/1‑140 (MQ=255)
ccATTAAATTTGCCGTTATTATCCAGCAACGGCACTTCTGCCAGCAAGGTAGTACCTGGCGGAATAATGGAACGATCAGAGGCAACTGACGCGCGACCAACCAGCGGCACCGCACTTGCCCCTTTCACCGGAGAAAAAGa                                                                                                                                    >  2:474660/1‑140 (MQ=255)
   ttAAATTTGCCGTTATTATCCAGCAACGGCACTTCTGCCAGCAAGATAGTACCTGGCGGAATAATGGAACGATCAGAGGCAACTGACGCGCGACCAACCAGCGGCACCGCACTTGCCCCTTTCACCGGAGAAAAAGATTg                                                                                                                                 <  1:631234/140‑1 (MQ=255)
    tAAATTTGCCGTTATTATCCAGCAACGGCACTTCTGCCAGCAAGGTAGTACCTGGCGGAATAATGGAACGATCAGAGGCAACTGACGCGCGACCAACCAGCGGCACCGCACTTGCCCCTTTCACCGGAGAAAAAGATTGc                                                                                                                                >  2:652178/1‑140 (MQ=255)
       aTTTGCCGTTATTATCCAGCAACGGCACTTCTGCCAGCAAGGTAGTACCTGGCGGAATAATGGAACGATCAGAGGCAACTGACGCGCGACCAACCAGCGGCACCGCACTTGCCCCTTTCACCGGAGAAAAAGATTGCGGt                                                                                                                             <  1:616791/140‑1 (MQ=255)
         ttGCCGTTATTATCCAGCAACGGCACTTCTGCCAGCAAGGTAGTACCTGGCGGAATAATGGAACGATCAGAGGCAACTGACGCGCGACCAACCAGCGGCACCGCACTTGCCCCTTTCACCGGAGAAAAAGATTGCGGttt                                                                                                                           >  2:273192/1‑140 (MQ=255)
             cGTTATTATCCAGCAACGGCACTTCTGCCAGCAAGGTAGTACCTGGCGGAATAATGGAACGATCAGAGGCAACTGACGCGCGACCAACCAGCGGCACCGCACTTGCCCCTTTCACCGGAGAAAAAGATTGCGGTTTAaag                                                                                                                       <  1:640448/140‑1 (MQ=255)
             cGTTATTATCCAGCAACGGCACTTCTGCCAGCAAGGTAGTACCTGGCGGAATAATGGAACGATCAGAGGCAACTGACGCGCGACCAACCAGCGGCACCGCACTTGCCCCTTTCACCGGAGAAAAAGATTGCGGTTTAaag                                                                                                                       <  1:433716/140‑1 (MQ=255)
                    atCCAGCAACGGCACTTCTGCCAGCAAGGTAGTACCTGGCGGAATAATGGAACGATCAGAGGCAACTGACGCGCGACCAACCAGCGGCACCGCACTTGCCCCTTTCACCGGAGAAAAAGATTGCGGTTTAAAGAAGACGa                                                                                                                <  2:239072/140‑1 (MQ=255)
                          cAACGGCACTTCTGCCAGCAAGGTAGTACCTGGCGGAATAATGGAACGATCAGAGGCAACTGACGCGCGACCAACCAGCGGCACCGCACTTGCCCCTTTCACCGGAGAAAAAGATTGCGGTTTAAAGAAGACGAAAGACg                                                                                                          >  1:405299/1‑140 (MQ=255)
                           aaCGGCACTTCTGCCAGCAAGGTAGTACCTGGCGGAATAATGGAACGATCAGAGGCAACTGACGCGCGACCAACCAGCGGCACCGCACTTGCCCCTTTCACCGGAGAAAAAGATTGCGGTTTAAAGAAGACGAAAGACgg                                                                                                         >  1:432912/1‑140 (MQ=255)
                             cGGCACTTCTGCCAGCAAGGTAGTACCTGGCGGAATAATGGAACGATCAGAGGCAACTGACGCGCGACCAACCAGCGGCACCGCACTTGCCCCTTTCACCGGAGAAAAAGATTGCGGTTTAAAGAAGACGAAAGACGGGt                                                                                                       >  1:465978/1‑140 (MQ=255)
                             cGGCACTTCTGCCAGCAAGGTAGTACCTGGCGGAATAATGGAACGATCAGAGGCAACTGACGCGCGACCAACCAGCGGCACCGCACTTGCCCCTTTCACCGGAGAAAAAGATTGCGGTTTAAAGAAGACGAAAGACGGGt                                                                                                       <  1:499892/140‑1 (MQ=255)
                               gCACTTCTGCCAGCAAGGTAGTACCTGGCGGAATAATGGAACGATCAGAGGCAACTGACGCGCGACCAACCAGCGGCACCGCACTTGCCCCTTTCACCGGAGAAAAAGATTGCGGTTTAAAGAAGACGAAAGACGGGTTc                                                                                                     <  1:435630/140‑1 (MQ=255)
                                                   gtaCCTGGCGGAATAATGGAACGATCAGAGGCAACTGACGCGCGACCAACCAGCGGCACCGCACTTGCCCCTTTCACCGGAGAAAAAGATTGCGGTTTAAAGAAGACGAAAGACGGGTTCTGTTCCAGCAGCTCGCGAAc                                                                                 <  2:633459/140‑1 (MQ=255)
                                                    taCCTGGCGGAATAATGGAACGATCAGAGGCAACTGACGCGCGACCAACCAGCGGCACCGCACTTGCCCCTTTCACCGGAGAAAAAGATTGCGGTTTAAAGAAGACGAAAGACGGGTTCTGTTCCAGCAGCTCGCGAAcc                                                                                >  2:324593/1‑140 (MQ=255)
                                                       cTGGCGGAATAATGGAACGATCAGAGGCAACTGACGCGCGACCAACCAGCGGCACCGCACTTGCCCCTTTCACCGGAGAAAAAGATTGCGGTTTAAAGAAGACGAAAGACGGGTTCTGTTCCAGCAGCTCGCGAACCTCg                                                                             <  2:423967/140‑1 (MQ=255)
                                                        tGGCGGAATAATGGAACGATCAGAGGCAACTGACGCGCGACCAACCAGCGGCACCGCACTTGCCCCTTTCACCGGAGAAAAAGATTGCGGTTTAAAGAAGACGAAAGACGGGTTCTGTTCCAGCAGCTCGCGAACCTCgg                                                                            <  1:705527/140‑1 (MQ=255)
                                                         ggCGGAATAATGGAACGATCAGAGGCAACTGACGCGCGACCAACCAGCGGCACCGCACTTGCCCCTTTCACCGGAGAAAAAGATTGCGGTTTAAAGAAGACGAAAGACGGGTTCTGTTCCAGCAGCTCGCGAACCTCGGc                                                                           >  2:386852/1‑140 (MQ=255)
                                                         ggCGGAATAATGGAACGATCAGAGGCAACTGACGCGCGACCAACCAGCGGCACCGCACTTGCCCCTTTCACCGGAGAAAAAGATTGCGGTTTAAAGAAGACGAAAGACGGGTTCTGTTCCAGCAGCTCGCGAACCTCGGc                                                                           >  2:657142/1‑140 (MQ=255)
                                                         ggCAGAATAATGGAACGATCAGAGGCAACTGACGCGCGACCAACCAGCGGCACCGCACTTGCCCCTTTCACCGGAGAAAAAGATTGCGGTTTAAAGAAGACGAAAGACGGGTTCTGTTCCAGCAGCTCGCGAACCTCGGc                                                                           >  2:641089/1‑140 (MQ=255)
                                                          gCGGAATAATGGAACGATCAGAGGCAACTGACGCGCGACCAACCAGCGGCACCGCACTTGCCCCTTTCACCGGAGAAAAAGATTGCGGTTTAAAGAAGACGAAAGACGGGTTCTGTTCCAGCAGCTCGCGAACCTCGGCt                                                                          >  1:98055/1‑140 (MQ=255)
                                                           cGGAATAATGGAACGATCAGAGGCAACTGACGCGCGACCAACCAGCGGCACCGCACTTGCCCCTTTCACCGGAGAAAAAGATTGCGGTTTAAAGAAGACGAAAGACGGGTTCTGTTCCAGCAGCTCGCGAACCTCGGCtt                                                                         >  2:46707/1‑140 (MQ=255)
                                                           cGGAATAATGGAACGATCAGAGGCAACTGACGCGCGACCAACCAGCGGCACCGCACTTGCCCCTTTCACCGGAGAAAAAGATTGCGGTTTAAAGAAGACGAAAGACGGGTTCTGTTCCAGCAGCTCGCGAACCTCGGCtt                                                                         <  1:152778/140‑1 (MQ=255)
                                                              aataatGGAACGATCAGAGGCAACTGACGCGCGACCAACCAGCGGCACCGCACTTGCCCCTTTCACCGGAGAAAAAGATTGCGGTTTAAAGAAGACGAAAGACGGGTTCTGTTCCAGCAGCTCGCGAACCTCGGCTTCAc                                                                      >  2:693578/1‑140 (MQ=255)
                                                               ataatGGAACGATCAGAGGCAACTGACGCGCGACCAACCAGCGGCACCGCACTTGCCCCTTTCACCGGAGAAAAAGATTGCGGTTTAAAGAAGACGAAAGACGGGTTCTGTTCCAGCAGCTCGCGAACCTCGGCTTCACt                                                                     <  1:324593/140‑1 (MQ=255)
                                                                  atGGAACGATCAGAGGCAACTGACGCGCGACCAACCAGCGGCACCGCACTTGCCCCTTTCACCGGAGAAAAAGATTGCGGTTTAAAGAAGACGAAAGACGGGTTCTGTTCCAGCAGCTCGCGAACCTCGGCTTCACtgtg                                                                  <  1:206785/140‑1 (MQ=255)
                                                                       aCGATCAGAGGCAACTGACGCGCGACCAACCAGCGGCACCGCACTTGCCCCTTTCACCGGAGAAAAAGATTGCGGTTTAAAGAAGACGAAAGACGGGTTCTGTTCCAGCAGCTCGCGAACCTCGGCTTCACTGTGTGttt                                                             <  2:405299/140‑1 (MQ=255)
                                                                        cGATCAGAGGCAACTGACGCGCGACCAACCAGCGGCACCGCACTTGCCCCTTTCACCGGAGAAAAAGATTGCGGTTTAAAGAAGACGAAAGACGGGTTCTGTTCCAGCAGCTCGCGAACCTCGGCTTCACTGTGTGTTTc                                                            <  1:474660/140‑1 (MQ=255)
                                                                        cGATCAGAGGCAACTGACGCGCGACCAACCAGCGGCACCGCACTTGCCCCTTTCACCGGAGAAAAAGATTGCGGTTTAAAGAAGACGAAAGACGGGTTCTGTTCCAGCAGCTCGCGAACCTCGGCTTCACTGTGTGTTTc                                                            >  2:447703/1‑140 (MQ=255)
                                                                        cGATCAGAGGCAACTGACGCGCGACCAACCAGCGGCACCGCACTTGCCCCTTTCACCGGAGAAAAAGATTGCGGTTTAAAGAAGACGAAAGACGGGTTCTGTTCCAGCAGCTCGCGAACCTCGGCTTCACTGTGTGTTTc                                                            >  2:470901/1‑140 (MQ=255)
                                                                          aTCAGAGGCAACTGACGCGCGACCAACCAGCGGCACCGCACTTGCCCCTTTCACCGGAGCAAAAGATTGCGGTTTAAAGAAGACGAAAGACGGGTTCTGTTCCAGCAGCTCGCGAACCTCGGCTTCACTGTGTGTTTCGc                                                          >  1:597422/1‑140 (MQ=255)
                                                                             agagGCAACTGACGCGCGACCAACCAGCGGCACCGCACTTGCCCCTTTCACCGGAGAAAAAGATTGCGGTTTAAAGAAGACGAAAGACGGGTTCTGTTCCAGCAGCTCGCGAACCTCGGCTTCACTGTGTGTTTCGcccc                                                       >  2:20322/1‑140 (MQ=255)
                                                                                ggCAACTGACGCGCGACCAACCAGCGGCACCGCACTTGCCCCTTTCACCGGAGAAAAAGATTGCGGTTTAAAGAAGACGAAAGACGGGTTCTGTTCCAGCAGCTCGCGAACCTCGGCTTCACTGTGTGTTTCGCCCCAGt                                                    >  1:350789/1‑140 (MQ=255)
                                                                                    aCTGACGCGCGACCAACCAGCGGCACCGCACTTGCCCCTTTCACCGGAGCAAAAGATTGCGGTTTAAAGAAGACGAAAGACGGGTTCTGTTCCAGCAGCTCGCGAACCTCGGCTTCACTGTGTGTTTCGCCCCAGTGACg                                                >  2:61537/1‑140 (MQ=255)
                                                                                          gcgcgACCAACCAGCGGCACCGCACTTGCCCCTTTCACCGGAGAAAAAGATTGCGGTTTAAAGAAGACGAAAGACGGGTTCTGTTCCAGCAGCTCGCGAACCTCGGCTTCACTGTGTGTTTCGCCCCAGTGACGAATCGc                                          <  1:430747/140‑1 (MQ=255)
                                                                                              gACCAACCAGCGGCACCGCACTTGCCCCTTTCACCGGAGAAAAAGATTGCGGTTTAAAGAAGACGAAAGACGGGTTCTGTTCCAGCAGCTCGCGAACCTCGGCTTCACTGTGTGTTTCGCCCCAGTGACGAATCGCCTGc                                      <  1:652178/140‑1 (MQ=255)
                                                                                               accaaccaGCGGCACCGCACTTGCCCCTTTCACCGGAGAAAAAGATTGCGGTTTAAAGAAGACGAAAGACGGGTTCTGTTCCAGCAGCTCGCGAACCTCGGCTTCACTGTGTGTTTCGCCCCAGTGACGAATCGCCTGCa                                     >  2:384113/1‑140 (MQ=255)
                                                                                                                     gCCCCTTTCACCGGAGCAAAAGATTGCGGTTTAAAGAAGACGAAAGACGGGTTCTGTTCCAGCAGCTCGCGAACCTCGGCTTCACTGTGTGTTTCGCCCCAGTGACGAATCGCCTGCATCGACATATCTTCTTTTTTCAc               <  1:61537/140‑1 (MQ=255)
                                                                                                                     gCCCCTTTCACCGGAGAAAAAGATTGCGGTTTAAAGAAGACGAAAGACGGGTTCTGTTCCAGCAGCTCGCGAACCTCGGCTTCACTGTGTGTTTCGCCCCAGTGACGAATCGCCTGCATCGACATATCTTCTTTTTTCAc               <  1:20322/140‑1 (MQ=255)
                                                                                                                          tttCACCGGAGAAAAAGATTGCGGTTTAAAGAAGACGAAAGACGGGTTCTGTTCCAGCAGCTCGCGAACCTCGGCTTCACTGTGTGTTTCGCCCCAGTGACGAATCGCCTGCATCGACATATCTTCTTTTTTCATTTCGc          >  2:163855/1‑140 (MQ=255)
                                                                                                                          tttCACCGGAGAAAAAGATTGCGGTTTAAAGAAGACGAAAGACGGGTTCTGTTCCAGCAGCTCGCGAACCTCGGCTTCACTGTGTGTTTCGCCCCAGTGACGAATCGCCTGCATCGACATATCTTCTTTTTTCACTTCGc          >  2:211166/1‑140 (MQ=255)
                                                                                                                           ttCACCGGAGAAAAAGATTGCGGTTTAAAGAAGACGAAAGACGGGTTCTGTTCCAGCAGCTCGCGAACCTCGGCTTCACTGTGTGTTTCGCCCCAGTGACGAATCGCCTGCATCGACATATCTTCTTTTTTCACTTCGcc         >  1:380300/1‑140 (MQ=255)
                                                                                                                           ttCACCGGAGAAAAAGATTGCGGTTTAAAGAAGACGAAAGACGGGTTCTGTTCCAGCAGCTCGCGAACCTCGGCTTCACTGTGTGTTTCGCCCCAGTGACGAATCGCCTGCATCGACATATCTTCTTTTTTCACTTCGcc         >  1:367614/1‑140 (MQ=255)
                                                                                                                             cACCGGAGAAAAAGATTGCGGTTTAAAGAAGACGAAAGACGGGTTCTGTTCCAGCAGCTCGCGAACCTCGGCTTCACTGTGTGTTTCGCCCCAGTGACGAATCGCCTGCATCGACATATCTTCTTTTTTCACTTCGCCAc       <  2:471890/140‑1 (MQ=255)
                                                                                                                                cGGAGAAAAAGATTGCGGTTTAAAGAAGACGAAAGACGGGTTCTGTTCCAGCAGCTCGCGAACCTCGGCTTCATTGTGTGTTTCGCCCCAGTGACGAATCGCCTGCATCGACATATCTTCTTTTTTCACTTCGCCACGGt    <  1:46707/140‑1 (MQ=255)
                                                                                                                                  gagaAAAAGATTGCGGTTTAAAGAAGACGAAAGGCGGGTTCTGTTCCAGCAGCTCGCGAACCTCGGCTTCACTGTGTGTTTCGCCCCAGTGACGAATCGCCTGCATCGACATATCTTCTTTTTTCACTTCGCCACGGTCg  <  2:465978/140‑1 (MQ=255)
                                                                                                                                     |                                                                                                                                        
CCATTAAATTTGCCGTTATTATCCAGCAACGGCACTTCTGCCAGCAAGGTAGTACCTGGCGGAATAATGGAACGATCAGAGGCAACTGACGCGCGACCAACCAGCGGCACCGCACTTGCCCCTTTCACCGGAGCAAAAGATTGCGGTTTAAAGAAGACGAAAGACGGGTTCTGTTCCAGCAGCTCGCGAACCTCGGCTTCACTGTGTGTTTCGCCCCAGTGACGAATCGCCTGCATCGACATATCTTCTTTTTTCACTTCGCCACGGTCG  >  NC_000913/2946262‑2946531

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

GATK/CNVnator alignment

N/A