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
A11 F1 I2 R1 760 67.6 3323148 92.7% 3080558 109.3

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,012,553 Δ1 bp intergenic (+160/+61) yqeA → / ← yqeB putative amino acid kinase/XdhC‑CoxI family protein with NAD(P)‑binding Rossman fold

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,012,5520G.100.0% 228.7 / NA 58intergenic (+159/+62)yqeA/yqeBputative amino acid kinase/XdhC‑CoxI family protein with NAD(P)‑binding Rossman fold
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base . (26/32);  total (26/32)

TCCGGCCAAAGATTGTCAAGTAAGTGCGCTTTGTTGATGCCGGATGCGGCGCGAGCGCCTTATCCGTCCTACAAAACATCGCAAATTCAATAGATTGCAATGCACTTGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTTGGCGTTTGTCATCAGTCTCAGGCCGGGT‑GGGTAATACCATCCGGCCATTTTCATTTAAGCCACTTCCAGCACTTCTTTTGTCGCTTTCACGCCCTGATGCATCAACATCATTAACGCCTCAAGTA  >  NC_000913/3012419‑3012684
                                                                                                                                     |                                                                                                                                     
tCCGGCCAAAGATTGTCAAGTAAGTGCGCTTTGTTGATGCCGGATGCGGCGCGAGCGCCTTATCCGTCCTACAAAACATCGCAAATTCAATAGATTGCAATGCACTTGTAGGCCTGATAAGCGTAGCGCATCA‑GCAAtt                                                                                                                                 >  1:156342/1‑139 (MQ=255)
     ccAAAGATTGTCAAGTAAGTGCGCTTTGTTGATGCCGGATGCGGCGCGAGCGCCTTATCCGTCCTACAAAACATCGCAAATTCAATAGATTGCAATGCACTTGTAGGCCTGATAAGCGTAGCGCATCA‑GCAATTTGGCg                                                                                                                            >  1:1633726/1‑139 (MQ=255)
             tGTCAAGTAAGTGCGCTTTGTTGATGCCGGATGCGGCGCGAGCGCCTTATCCGTCCTACAAAACATCGCAAATTCAATAGATTGCAATGCACTTGTAGGCCTGATAAGCGTAGCGCATCA‑GCAATTTGGCGTTTGtcat                                                                                                                    <  1:960113/139‑1 (MQ=255)
                        tGCGCTTTGTTGATGCCGGATGCGGCGCGAGCGCCTTATCCGTCCTACAAAACATCGCAAATTCAATAGATTGCAATGCACTTGTAGGCCTGATAAGCGTAGCGCATCA‑GCAATTTGGCGTTTGTCATCAGTCTCAGGc                                                                                                         <  2:1633726/139‑1 (MQ=255)
                          cgcTTTGTTGATGCCGGATGCGGCGCGAGCGCCTTATCCGTCCTACAAAACATCGCAAATTCGATAGATTGCAATGCACTTGTAGGCCTGATAAGCGTAGCGCATCA‑GCAATTTGGCGTTTGtcat                                                                                                                    <  2:241175/126‑1 (MQ=255)
                          cgcTTTGTTGATGCCGGATGCGGCGCGAGCGCCTTATCCGTCCTACAAAACATCGCAAATTCGATAGATTGCAATGCACTTGTAGGCCTGATAAGCGTAGCGCATCA‑GCAATTTGGCGTTTGtcat                                                                                                                    >  1:241175/1‑126 (MQ=255)
                           gcTTTGTTGATGCCGGATGCGGCGCGAGCGCCTTATCCGTCCTACAAAACATCGCAAATTCAATAGATTGCAATGCACTTGTAGGCCTGATAAGCGTAGCGCATCA‑GCAATTTGGCGTTTGTCATCAGTCTCAGGCCgg                                                                                                      <  2:1385775/139‑1 (MQ=255)
                           gcTTTGTTGATGCCGGATGCGGCGCGAGCGCCTTATCCGTCCTACAAAACATCGCAAATTCAATAGATTGCAATGCACTTGTAGGCCTGATAAGCGTAGCGCATCA‑GCAATTTGGCGTTTGTCATCAGTCTCAGGCCgg                                                                                                      <  1:928969/139‑1 (MQ=255)
                           gcTTTGTTGATGCCGGATGCGGCGCGAGCGCCTTATCCGTCCTACAAAACATCGCAAATTCAATAGATTGCAATGCACTTGTAGGCCTGATAAGCGTAGCGCATCA‑GCAATTTGGCGTTTGTCATCAGTCTCAGGCCgg                                                                                                      <  2:1219742/139‑1 (MQ=255)
                           gcTTTGTTGATGCCGGATGCGGCGCGAGCGCCTTATCCGTCCTACAAAACATCGCAAATTCAATAGATTGCAATGCACTTGTAGGCCTGATAAGCGTAGCGCATCA‑GCAATTTGGCGTTTGTCATCAGTCTCAGGCCgg                                                                                                      <  2:509630/139‑1 (MQ=255)
                           gcTTTGTTGATGCCGGATGCGGCGCGAGCGCCTTATCCGTCCTACAAAACATCGCAAATTCAATAGATTGCAATGCACTTGTAGGCCTGATAAGCGTAGCGCATCA‑GCAATTTGGCGTTTGTCATCAGTCTCAGGCCgg                                                                                                      <  2:555243/139‑1 (MQ=255)
                           gcTTTGTTGATGCCGGATGCGGCGCGAGCGCCTTATCCGTCCTACAAAACATCGCAAATTCAATAGATTGCAATGCACTTGTAGGCCTGATAAGCGTAGCGCATCA‑GCAATTTGGCGTTTGTCATCAGTCTCAGGCCgg                                                                                                      <  2:606640/139‑1 (MQ=255)
                              ttgttgATGCCGGATGCGGCGCGAGCGCCTTATCCGTCCTACAAAACATCGCAAATTCAATAGATTGCAATGCACTTGTAGGCCTGATAAGCGTAGCGCATCA‑GCAATTTGGCGTTTGTCATCAGTCTCAGGCCgggt‑g                                                                                                  >  1:479726/1‑139 (MQ=255)
                              ttgttgATGCCGGATGCGGCGCGAGCGCCTTATCCGTCCTACAAAACATCGCAAATTCAATAGATTGCAATGCACTTGTAGGCCTGATAAGCGTAGCGCATCA‑GCAATTTGGCGTTTGTCATCAGTCTCAGGCCgggt‑g                                                                                                  >  2:1631290/1‑139 (MQ=255)
                               tgttgATGCCGGATGCGGCGCGAGCGCCTTATCCGTCCTACAAAACATCGCAAATTCAATAGATTGCAATGCACTTGTAGGCCTGATAAGCGTAGCGCATCA‑GCAATTTGGCGTTTGTCATCAGTCTCAGGCCgggt‑gg                                                                                                 <  2:328546/139‑1 (MQ=255)
                               tgttgATGCCGGATGCGGCGCGAGCGCCTTATCCGTCCTACAAAACATCGCAAATTCAATAGATTGCAATGCACTTGTAGGCCTGATAAGCGTAGCGCATCA‑GCAATTTGGCGTTTGTCATCAGTCTCAGGCCgggt‑gg                                                                                                 >  1:328546/1‑139 (MQ=255)
                               tgttgATGCAGGATGCGGCGCGAGCGCCTTATCCGTCCTACAAAACATCGCAAATTCAATAGATTGCAATGCACTTGTAGGCCTGATAAGCGTAGCGCATCA‑GCAATTTGGCGTTTGTCATCAGTCTCAGGCCgggt‑gg                                                                                                 <  1:1631290/139‑1 (MQ=255)
                                  tgATGCCGGATGCGGCGCGAGCGCCTTATCCGTCCTACAAAACATCGCAAATTCAATAGATTGCAATGCACTTGTAGGCCTGATAAGCGTAGCGCATCA‑GCAATTTGGCGTTTGtcat                                                                                                                    <  1:1633437/118‑1 (MQ=255)
                                  tgATGCCGGATGCGGCGCGAGCGCCTTATCCGTCCTACAAAACATCGCAAATTCAATAGATTGCAATGCACTTGTAGGCCTGATAAGCGTAGCGCATCA‑GCAATTTGGCGTTTGtcat                                                                                                                    >  2:1633437/1‑118 (MQ=255)
                                             gcggcgCGAGCGCCTTATCCGTCCTACAAAACATCGCAAATTCAATAGATTGCAATGCACTTGTAGGCCTGATAAGCGTAGCGCATCA‑GCAATTTGGCGTTTGTCATCAGTCTCAGGCCGGGT‑GGGTAATACCATCCgg                                                                                   <  2:963318/139‑1 (MQ=255)
                                              cggcgCGAGCGCCTTATCCGTCCTACAAAACATCGCAAATTCAATAGATTGCAATGCACTTGTAGGCCTGATAAGCGTAGCGCATCA‑GCAATTTGGCGTTTGTCATCAGTCTCAGGCCGGGT‑GGGTAATACCATCCGGc                                                                                  <  2:479726/139‑1 (MQ=255)
                                                 cgcgAGCGCCTTATCCGTCCTACAAAACATCGCAAATTCAATAGATTGCAATGCACTTTTAGGCCTGATAAGCGTAGCGCATCA‑GCAATTTGGCGTTTGTCATCAGTCTCAgg                                                                                                          <  2:1092538/113‑1 (MQ=255)
                                                 cgcgAGCGCCTTATCCGTCCTACAAAACATCGCAAATTCAATAGATTGCAATGCACTTGTAGGCCTGATAAGCGTAGCGCATCA‑GCAATTTGGCGTTTGTCATCAGTCTCAgg                                                                                                          >  1:1092538/1‑113 (MQ=255)
                                                 cgcgAGCGCCTTATCCGTCCTACAAAACATCGCAAATTCAATAGATTGCAATGCACTTGTAGGCCTGATAAGCGTAGCGCATCA‑GCAATTTGGCGTTTGTCATCAGTCTCAGGCCGGGT‑GGGTAATACCATCCGGCCAt                                                                               <  2:156342/139‑1 (MQ=255)
                                                  gcgAGCGCCTTATCCGTCCTACAAAACATCGCAAATTCAATAGATTGCAATGCACTTGTAGGCCTGATAAGCGTAGCGCATCA‑GCAATTTGGCGTTTGTCATCAGTCTCAGGCCGGGT‑GGGTAATACCATCCGGCCAtt                                                                              >  2:230716/1‑139 (MQ=255)
                                                   cgAGCGCCTTATCCGTCCTACAAAACATCGCAAATTCAATAGATTGCAATGCACTTGTAGGCCTGATAAGCGTAGCGCATCA‑GCAATTTGGCGTTTGTCATCAGTCTCAGGCCGGGT‑GGGTAATACCATCCGGCCAttt                                                                             <  1:345353/139‑1 (MQ=255)
                                                            tATCCGTCCTACAAAACATCGCAAATTCAATAGATTGCAATGCACTTGTAGGCCTGATAAGCGTAGCGCATCA‑GCAATTTGGCGTTTGTCATCAGTCTCAGGCCGGGT‑GGGTAATACCATCCGGCCATTTTCATTTAAg                                                                    <  1:689716/139‑1 (MQ=255)
                                                                          aaCATCGCAAATTCAATAGATTGCAATGCACTTGTAGGCCTGATAAGCGTAGCGCATCA‑GCAATTTGGCGTTTGTCATCAGTCTCAGGCCGGGT‑GGGTAATACCATCCGGCCATTTTCATTTAAGCCACTTCCAGCAct                                                      >  1:1229701/1‑139 (MQ=255)
                                                                            cATCGCAAATTCAATAGATTGCAATGCACTTGTAGGCCTGATAAGCGTAGCGCATCA‑GCAATTTGGCGTTTGTCATCAGTCTCAGGCCGGGT‑GGGTAATACCATCCGGCCATTTTCATTTAAGCCACt                                                               <  2:409401/128‑1 (MQ=255)
                                                                            cATCGCAAATTCAATAGATTGCAATGCACTTGTAGGCCTGATAAGCGTAGCGCATCA‑GCAATTTGGCGTTTGTCATCAGTCTCAGGCCGGGT‑GGGTAATACCATCCGGCCATTTTCATTTAAGCCACt                                                               >  1:409401/1‑128 (MQ=255)
                                                                             aTCGCAAATTCAATAGATTGCAATGCACTTGTAGGCCTGATAAGCGTAGCGCATCA‑GCAATTTGGCGTTTGTCATCAGTCTCAGGCCGGGT‑GGGTAATACCATCCGGCCATTTTCATTTAAGCCACTTCCAGCActtct                                                   >  1:443175/1‑139 (MQ=255)
                                                                               cGCAAATTCAATAGATTGCAATGCACTTGTAGGCCTGATAAGCGTAGCGCATCA‑GCAATTTGGCGTTTGTCATCAGTCTCAGGCCgg                                                                                                      <  1:7896/87‑1 (MQ=255)
                                                                               cGCAAATTCAATAGATTGCAATGCACTTGTAGGCCTGATAAGCGTAGCGCATCA‑GCAATTTGGCGTTTGTCATCAGTCTCAGGCCgg                                                                                                      >  2:7896/1‑87 (MQ=255)
                                                                                          tAGATTGCAATGCACTTGTAGGCCTGATAAGCGTAGCGCATCA‑GCAATTTGGCGTTTGTCATCAGTCTCAGGCCGGGT‑GGGTAATACCATCCGGCCATTTTCATTTAAGCCACTTCCAGCACTTCTTTTGTCGCTTTCa                                      <  2:1142123/139‑1 (MQ=255)
                                                                                          tAGATTGCAATGCACTTGTAGGCCTGATAAGCGTAGCGCATCA‑GCAATTTGGCGTTTGTCATCAGTCTCAGGCCGGGT‑GGGTAATACCATCCGGCCATTTTCATTTAAGCCACTTCCAGCACTTCTTTTGTCGCTTTCa                                      <  1:298915/139‑1 (MQ=255)
                                                                                           aGATTGCAATGCACTTGTAGGCCTGATAAGCGTAGCGCATCA‑GCAATTTGGCGTTTGTCATCAGTCTCAGGCCGGGTGGGGTAATACCATCCGGCCATTTTCATTTAAGCCACTTCCAGCACTTCTTTTGTCGCTTTCa                                      <  2:660763/139‑1 (MQ=255)
                                                                                               tGCAATGCACTTGTAGGCCTGATAAGCGTAGCGCATCA‑GCAATTTGGCGTTTGTCATCAGTCTCAGGCCGGGT‑GGGTAATACCATCCGGCCATTTTCATTTAAGCCACTTCCAGCACTTCTTTTGTCGCTTTCACGccc                                 >  2:82759/1‑139 (MQ=255)
                                                                                                  aaTGCACTTGTAGGCCTGATAAGCGTAGCGCATCA‑GCAATTTGGCGTTTGTCATCAGTCTCAGGCCGGGT‑GGGTAATACCATCCGGCCATTTTCATTTAAGCCACTTCCAGCACTTCTTTTGTCGCTTTCACGCCCTGa                              <  2:443175/139‑1 (MQ=255)
                                                                                                    tGCACTTGTAGGCCTGATAAGCGTAGCGCATCA‑GCAATTTGGCGttt                                                                                                                         <  2:1341348/47‑1 (MQ=17)
                                                                                                    tGCACTTGTAGGCCTGATAAGCGTAGCGCATCA‑GCAATTTGGCGttt                                                                                                                         >  1:1341348/1‑47 (MQ=17)
                                                                                                              ggCCTGATAAGCGTAGCGCATCA‑GCAATTTGGCGTTTGTCATCAGTCTCAGGCCgg                                                                                                      >  2:98724/1‑56 (MQ=255)
                                                                                                              ggCCTGATAAGCGTAGCGCATCA‑GCAATTTGGCGTTTGTCATCAGTCTCAGGCCgg                                                                                                      <  1:98724/56‑1 (MQ=255)
                                                                                                                 cTGATAAGCGTAGCGCATCA‑GCAATTTGGCGTTTGTCATCAGTCTCAGGCCGGGT‑GTGTAATACCATCCGGCCATTTTCATTTAAGTCACTTCCAGCACTTCTTTTGTCGCTTTCACGcc                                  >  1:1612500/1‑120 (MQ=38)
                                                                                                                 cTGATAAGCGTAGCGCATCA‑GCAATTTGGCGTTTGTCATCAGTCTCAGGCCGGGT‑GGGTAATACCATCCGGCCATTTTCATTTAAGTCTCTTCCAGCACTTCTTTTGTCGCTTTCACGcc                                  <  2:1612500/120‑1 (MQ=255)
                                                                                                                   gATAAGCGTAGCGCATCA‑GCAATTTGGCGTTTGTCATCAGTCTCAgg                                                                                                          <  2:428333/47‑1 (MQ=17)
                                                                                                                   gATAAGCGTAGCGCATCA‑GCAATTTGGCGTTTGTCATCAGTCTCAgg                                                                                                          >  1:428333/1‑47 (MQ=17)
                                                                                                                   gATAAGCGTAGCGCATCA‑GCAATTTGGCGTTTGTCATCAGTCTCAGGCCgg                                                                                                      <  1:723976/51‑1 (MQ=255)
                                                                                                                   gATAAGCGTAGCGCATCA‑GCAATTTGGCGTTTGTCATCAGTCTCAGGCCgg                                                                                                      >  2:723976/1‑51 (MQ=255)
                                                                                                                   gATAAGCGTAGCGCATCA‑GCAATTTGGCGTTTGTCATCAGTCTCAGGCCGGGT‑GGGTAATACCATCCGGCCATTTTCATTTAAGCCACTTCCAGCACTTCTTTTGTCGCTTTCACGCCCTGATGCAt                         >  2:846095/1‑127 (MQ=255)
                                                                                                                   gATAAGCGTAGCGCATCA‑GCAATTTGGCGTTTGTCATCAGTCTCAGGCCGGGT‑GGGTAATACCATCCGGCCATTTTCATTTAAGCCACTTCCAGCACTTCTTTTGTCGCTTTCACGCCCTGATGCAt                         <  1:846095/127‑1 (MQ=255)
                                                                                                                   gATAAGCGTAGCGCATCA‑GCAATTTGGCGTTTGTCATCAGTCTCAGGCCGGGT‑GGGTAATACCATCCGGCCATTTTCATTTAAGCCACTTCCAGCACTTCTTTTGTCGCTTTCACGCCCTGATGCATCAACATCATTaa             >  2:1391070/1‑139 (MQ=255)
                                                                                                                         cGTAGCGCATCA‑GCAATTTGGCGTTTGTCATCAGTCTCAGGCCGGGT‑GGGTAATACCATCCGGCCATTTTCAt                                                                         <  1:699971/73‑1 (MQ=255)
                                                                                                                         cGTAGCGCATCA‑GCAATTTGGCGTTTGTCATCAGTCTCAGGCCGGGT‑GGGTAATACCATCCGGCCATTTTCAt                                                                         >  2:699971/1‑73 (MQ=255)
                                                                                                                             gcgcATCA‑GCAATTTGGCGTTTGTCATCAGTCTCAGGCCGGGT‑GGGTAATACCATCCGGCCATTTTCATTTAAGCCACTTCCAGCACTTCTTTTGTCGCTTTCACGCCCTGa                              <  2:163835/112‑1 (MQ=255)
                                                                                                                             gcgcATCA‑GCAATTTGGCGTTTGTCATCAGTCTCAGGCCGGGT‑GGGTAATACCATCCGGCCATTTTCATTTAAGCCACTTCCAGCACTTCTTTTGTCGCTTTCACGCCCTGa                              >  1:163835/1‑112 (MQ=255)
                                                                                                                              cgcATCA‑GCAATTTGGCGTTTGTCATCAGTCTCAGGCCGGGT‑GGGTAATACCATCCGGCCATTTTCATTTAAGCCACTTCCAGCACTTCTTTTGTCGCTTTCACGCCCTGATGCATCAACATCATTAACGCCTCAAGTa  >  1:168889/1‑139 (MQ=255)
                                                                                                                              cgcATCA‑GCAATTTGGCGTTTGTCATCAGTCTCAGGCCGGGT‑GGGTAATACCATCCGGCCATTTTCATTTAAGCCACTTCCAGCACTTCTTTTGTCGCTTTCACGCCCTGATGCATCAACATCATTAACGCCTCAAGTa  >  2:3226/1‑139 (MQ=255)
                                                                                                                              cgcATCA‑GCAATTTGGCGTTTGTCATCAGTCTCAGCCCGGGT‑GGGTAATACCATCCGGCCATTTTCATTTAAGCCACTTCCAGCACTTCTTTTGTCGCTTGCACGCCCTGATGCATCAACATCATTAACGCCTCAAGTa  >  1:1640908/1‑139 (MQ=255)
                                                                                                                                     |                                                                                                                                     
TCCGGCCAAAGATTGTCAAGTAAGTGCGCTTTGTTGATGCCGGATGCGGCGCGAGCGCCTTATCCGTCCTACAAAACATCGCAAATTCAATAGATTGCAATGCACTTGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTTGGCGTTTGTCATCAGTCTCAGGCCGGGT‑GGGTAATACCATCCGGCCATTTTCATTTAAGCCACTTCCAGCACTTCTTTTGTCGCTTTCACGCCCTGATGCATCAACATCATTAACGCCTCAAGTA  >  NC_000913/3012419‑3012684

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A