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
A25 F36 I0 R2 1302 104.9 4551290 96.3% 4382892 111.1

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_000913 276,942 G→C 7.3% A76A (GCG→GCC)  mmuM → CP4‑6 prophage; S‑methylmethionine:homocysteine methyltransferase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913276,9420GC 7.3% 194.4 / 5.5 55A76A (GCG→GCC) mmuMCP4‑6 prophage; S‑methylmethionine:homocysteine methyltransferase
Reads supporting (aligned to +/- strand):  ref base G (24/27);  new base C (2/2);  total (26/29)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.75e-01

GGAAGCGCGAGGGTGTAACTTAGCCGACAGCCTGTGGTCAGCCAAAGTGCTGGTAGAAAACCCGGAGCTTATCCGCGAAGTGCATCTTGATTACTACCGGGCGGGGGCGCAATGCGCGATCACTGCCAGCTATCAGGCGACGCCGGCGGGCTTCGCCGCGCGAGGTCTGGATGAAGCGCAGTCGAAAGCGCTGATTGGCAAAAGCGTGGAGCTGGCGCGTAAAGCCCGTGAAGCGTATCTGGCAGAGAACCCGCAGGCG  >  NC_000913/276795‑277053
                                                                                                                                                   |                                                                                                               
ggAAGCGCGAGGGTGTAACTTAGCCGACAGCCTGTGGTCAGCCAAAGTGCTGGTAGAAAACCCGGAGCTTATCCGCGAAGTGCATCTTGATTACTACCGGGCGGGGGCGCAATGCGCGATCACTGCCAGCTATCAGGCGACGCcggcg                                                                                                                 >  1:301041/1‑148 (MQ=255)
 gAAGCGCGAGGGTGTAACTTAGCCGACAGCCTGTGGTCAGCCAAAGTGCTGGTAGAAAACCCGGAGCTTATCCGCGAAGTGCATCTTGATTACTACCGGGCGGGGGCGCAATGCGCGATCACTGCCAGCTATCAGGCGACGCcggcgg                                                                                                                >  2:709077/1‑148 (MQ=255)
            gtgtAACTTAGCCGACAGCCTGTGGTCAGCCAAAGTGCTGGTAGAAAACCCGGAGCTTATCCGCGAAGTGCATCTTGATTACTACCGGGCGGGGGCGCAATGCGCGATCACTGCCAGCTATCAGGCGACGCCGGCGGGCTTCGCcgcg                                                                                                     <  1:709077/148‑1 (MQ=255)
               tAACTTAGCCGACAGCCTGTGGTCAGCCAAAGTGCTGGTAGAAAACCCGGAGCTTATCCGCGAAGTGCATCTTGATTACTACCGGGCGGGGGCGCAATGCGCGATCACTGCCAGCTATCAGGCGACGCCGGCGGGCTTCGCCGCGCGa                                                                                                  <  4:998581/148‑1 (MQ=255)
                  cTTAGCCGACAGCCTGTGGTCAGCCAAAGTGCTGGTAGAAAACCCGGAGCTTATCCGCGAAGTGCATCTTGATTACTACCGGGCGGGGGCGCAATGCGCGATCACTGCCAGCTATCAGGCGACGCCGGCGGGCTTCGCCGCGCGAg                                                                                                 >  1:1029835/1‑146 (MQ=255)
                  cTTAGCCGACAGCCTGTGGTCAGCCAAAGTGCTGGTAGAAAACCCGGAGCTTATCCGCGAAGTGCATCTTGATTACTACCGGGCGGGGGCGCAATGCGCGATCACTGCCAGCTATCAGGCGACGCCGGCGGGCTTCGCCGCGCGAg                                                                                                 <  2:1029835/146‑1 (MQ=255)
                     aGCCGACAGCCTGTGGTCAGCCAAAGTGCTGGTAGAAAACCCGGAGCTTATCCGCGAAGTGCATCTTGATTACTACCGGGCGGGGGCGCAATGCGCGATCACTGCCAGCTATCAGGCGACGCcggcgg                                                                                                                >  1:1052793/1‑128 (MQ=255)
                     aGCCGACAGCCTGTGGTCAGCCAAAGTGCTGGTAGAAAACCCGGAGCTTATCCGCGAAGTGCATCTTGATTACTACCGGGCGGGGGCGCAATGCGCGATCACTGCCAGCTATCAGGCGACGCcggcgg                                                                                                                <  2:1052793/128‑1 (MQ=255)
                     aGCCGACAGCCTGTGGTCAGCCAAAGTGCTGGTAGAAAACCCGGAGCTTATCCGCGAAGTGCATCTTGATTACTACCGGGCGGGGGCGCAATGCGCGATCACTGCCAGCTATCAGGCGACGCCGGCGGGCTTCGCCGCGCGAGGTCTg                                                                                            <  2:301041/148‑1 (MQ=255)
                                tgtgGTCAGCCAAAGTGCTGGTAGAAAACCCGGAGCTTATCCGCGAAGTGCATCTTGATTACTACCGGGCGGGGGCGCAATGCGCGATCACTGCCAGCTATCAGGCGACGCCGGCGGGCTTCGCCGCGCGAGGTCTg                                                                                            <  3:787123/137‑1 (MQ=255)
                                ggtgGTCAGCCAAAGTGCGGGTAGAAAACCCGGAGCTTATCCGCGAAGTGCATGTTGATTACTACCGGGCGGGGGCGCAATGCGCGATCACTGCCAGCTATCAGGCGACGCCGGCGGGCTTCGCCGCGCGAGGTCTg                                                                                            >  4:787123/2‑137 (MQ=255)
                                          cAAAGTGCTGGTAGAAAACCCGGAGCTTATCCGCGAAGTGCATCTTGATTACTACCGGGCGGGGGCGCAATGCGCGATCACTGCCAGCTATCAGGCGACGCCGGCGGGCTTcg                                                                                                          <  1:1031643/113‑1 (MQ=255)
                                          cAAAGTGCTGGTAGAAAACCCGGAGCTTATCCGCGAAGTGCATCTTGATTACTACCGGGCGGGGGCGCAATGCGCGATCACTGCCAGCTATCAGGCGACGCCGGCGGGCTTcg                                                                                                          >  2:1031643/1‑113 (MQ=255)
                                          cAAAGTGCTGGTAGAAAACCCGGAGCTTATCCGCGAAGTGCATCTTGATTACTACCGGGCGGGGGCGCAATGCGCGATCACTGCCAGCTATCAGGCGACGCCGGCGGGCTTCGCCGCGCGa                                                                                                  <  2:821025/121‑1 (MQ=255)
                                          cAAAGTGCTGGTAGAAAACCCGGAGCTTATCCGCGAAGTGCATCTTGATTACTACCGGGCGGGGGCGCAATGCGCGATCACTGCCAGCTATCAGGCGACGCCGGCGGGCTTCGCCGCGCGa                                                                                                  >  1:821025/1‑121 (MQ=255)
                                          cAAAGTGCTGGTAGAAAACCCGGAGCTTATCCGCGAAGTGCATCTTGATTACTACCGGGCGGGGGCGCAATGCGCGATCACTGCCAGCTATCAGGCGACGCCGGCGGGCTTCGCCGCGCGAGGTCTGGATGAAgcgc                                                                                  >  2:470104/1‑137 (MQ=255)
                                          cAAAGTGCTGGTAGAAAACCCGGAGCTTATCCGCGAAGTGCATCTTGATTACTACCGGGCGGGGGCGCAATGCGCGATCACTGCCAGCTATCAGGCGACGCCGGCGGGCTTCGCCGCGCGAGGTCTGGATGAAgcgc                                                                                  <  1:470104/137‑1 (MQ=255)
                                            aaGTGCTGGTAGAAAACCCGGAGCTTATCCGCGAAGTGCATCTTGATTACTACCGGGCGGGGGCGCAATGCGCGATCACTGCCAGCTATCAGGCGACGCcggcg                                                                                                                 >  1:329983/1‑104 (MQ=255)
                                            aaGTGCTGGTAGAAAACCCGGAGCTTATCCGCGAAGTGCATCTTGATTACTACCGGGCGGGGGCGCAATGCGCGATCACTGCCAGCTATCAGGCGACGCcggcg                                                                                                                 <  2:329983/104‑1 (MQ=255)
                                                   ggTAGAAAACCCGGAGCTTATCCGCGAAGTGCATCTTGATTACTACCGGGCGGGGGCGCAATGCGCGATCACTGCCAGCTATCAGGCGACGCCGGCGGGCTTCGCCGCGCGAGGTCTGGATGAAGCGCAGTCGAAAGCGCTGATTGGc                                                              >  1:23232/1‑148 (MQ=255)
                                                    gTAGAAAACCCGGAGCTTATCCGCGAAGTGCATCTTGATTACTACCGGGCGGGGGCGCAATGCGCGATCACTGCCAGCTATCAGGCGACGCCGGCGGGCTTCGCCGCGCGAGGTCTGGATGAAGCGCAGTCGAAAGCGCTGATTGGCa                                                             >  3:446218/1‑148 (MQ=255)
                                                     tAGAAAACCCGGAGCTTATCCGCGAAGTGCATCTTGATTACTACCGGGCGGGGGCGCAATGCGCGATCACTGCCAGCTATCAGGCGACGCCGGCGGGCTTCGCCGCGCGAGGTCTGGa                                                                                          >  2:1053379/1‑118 (MQ=255)
                                                     tAGAAAACCCGGAGCTTATCCGCGAAGTGCATCTTGATTACTACCGGGCGGGGGCGCAATGCGCGATCACTGCCAGCTATCAGGCGACGCCGGCGGGCTTCGCCGCGCGAGGTCTGGa                                                                                          <  1:1053379/118‑1 (MQ=255)
                                                      aGAAAACCCGGAGCTTATCCGCGAAGTGCATCTTGATTACTACCGGGCGGGGGCGCAATGCGCGATCACTGCCAGCTATCAGGCGACGCCGGCGGGCTTCGCCGCGCGAGGTCTGGATGAAGCGCAGTCGAAAGCGCTGATTGGCaaa                                                           >  4:489693/1‑148 (MQ=255)
                                                         aaaCCCGGAGCTTATCCGCGAAGTGCATCTTGATTACTACCGGGCGGGGGCGCAATGCGCGATCACTGCCAGCTATCAGGCGAAGCCCGCCGGCGTcgcctgata                                                                                                   >  2:298112/1‑100 (MQ=38)
                                                         aaaCCCGGAGCTTATCCGCGAAGTGCATCTTGATTACTACCGGGCGGGGGCGCAATGCGCGATCACTGCCAGCTATCAGGCGAAGCCCGCCGGCGTcgcctgata                                                                                                   <  1:298112/105‑6 (MQ=38)
                                                          aaCCCGGAGCTTATCCGCGAAGTGCATCTTGATTACTACCGGGCGGGGGCGCAATGCGCGATCACTGCCAGCTATCAGGCGACGCCGGCGGGCTTCGCCGCGCGAGGTCTGGATGa                                                                                       <  1:337483/116‑1 (MQ=255)
                                                          aaCCCGGAGCTTATCCGCGAAGTGCATCTTGATTACTACCGGGCGGGGGCGCAATGCGCGATCACTGCCAGCTATCAGGCGACGCCGGCGGGCTTCGCCGCGCGAGGTCTGGATGa                                                                                       >  2:337483/1‑116 (MQ=255)
                                                          aaCCCGGAGCTTATCCGCGAAGTGCATCTTGATTACTACCGGGCGGGGGCGCAATGCGCGATCACTGCCAGCTATCAGGCGAAGCCCGCCGGCGTcgcct                                                                                                       >  3:700704/1‑99 (MQ=255)
                                                          aaCCCGGAGCTTATCCGCGAAGTGCATCTTGATTACTACCGGGCGGGGGCGCAATGCGCGATCACTGCCAGCAATCAGGCGAAGCCCGCCGGCGTcgcct                                                                                                       <  4:700704/100‑2 (MQ=255)
                                                           aCCCGGAGCTTATCCGCGAAGTGCATCTTGATTACTACCGGGCGGGGGCGCAATGCGCGATCACTGCCAGCTATCAGGCGACGCCGGCGGGCTTCGCcgcgcg                                                                                                   >  4:756988/1‑103 (MQ=255)
                                                           aCCCGGAGCTTATCCGCGAAGTGCATCTTGATTACTACCGGGCGGGGGCGCAATGCGCGATCACTGCCAGCTATCAGGCGACGCCGGCGGGCTTCGCcgcgcg                                                                                                   <  3:756988/103‑1 (MQ=255)
                                                             ccGGAGCTTATCCGCGAAGTGCATCTTGATTACTACCGGGCGGGGGCGCAATGCGCGATCACTGCCAGCTATCAGGCGACGCCGGCGGGCTTCGCCGCGCGAGGTCTGGATGAAGCGCAGTCGAAAGCGCTGATTGGCAAAAGCGTgg                                                    <  2:23232/148‑1 (MQ=255)
                                                                       tCCGCGAAGTGCATCTTGATTACTACCGGGCGGGGGCGCAATGCGCGATCACTGCCAGCTATCAGGCGACGCCGGCGGGCTTCGCCGCGCGAGGTCTGGATGAAGCGCAGTCGAAAGCGCTGATTGGCAAAAGCGTGGAGCTGGcgcg                                          >  1:600714/1‑148 (MQ=255)
                                                                           cgAAGTGCATCTTGATTACTACCGGGCGGGGGCGCAATGCGCGATCACTGCCAGCTATCAGGCGACGCCGGCGGGCTTCGCCGCGCGAGGTCTGGATGAAGCGCAGTCGaa                                                                           >  4:582228/1‑111 (MQ=255)
                                                                           cgAAGTGCATCTTGATTACTACCGGGCGGGGGCGCAATGCGCGATCACTGCCAGCTATCAGGCGACGCCGGCGGGCTTCGCCGCGCGAGGTCTGGATGAAGCGCAGTCGaa                                                                           <  3:582228/111‑1 (MQ=255)
                                                                                    tCTTGATTACTACCGGGCGGGGGCGCAATGCGCGATCACTGCCAGCTATCAGGCGACGCCGGCGGGCTTCGCCGCGCGa                                                                                                  >  2:670438/1‑79 (MQ=255)
                                                                                    tCTTGATTACTACCGGGCGGGGGCGCAATGCGCGATCACTGCCAGCTATCAGGCGACGCCGGCGGGCTTCGCCGCGCGa                                                                                                  <  1:670438/79‑1 (MQ=255)
                                                                                    tCTTGATTACTACCGGGCGGGGGCGCAATGCGCGATCACTGCCAGCTATCAGGCGACGCCGGCGGGCTTCGCCGCGCGAGGTCTGGATGAAGCGCAGTCGAAAGCGCTGATTGGCAAAAGCGTGGAGCTGGCGCGTAAAGCCCGTGaa                             >  3:995996/1‑148 (MQ=255)
                                                                                       tGATTACTACCGGGCGGGGGCGCAATGCGCGATCACTGCCAGCTATCAGGCGACGCCGGCGGGCTTCGCCGCGCGAGGTCTgg                                                                                           <  2:930843/83‑1 (MQ=255)
                                                                                       tGATTACTACCGGGCGGGGGCGCAATGCGCGATCACTGCCAGCTATCAGGCGACGCCGGCGGGCTTCGCCGCGCGAGGTCTgg                                                                                           >  1:930843/1‑83 (MQ=255)
                                                                                       tGATTACTACCGGGCGGGGGCGCAATGCGCGATCACTGCCAGCTATCAGGCGACGCCGGCGGGCTTCGCCGCGCGAGGTCTGGATGAAGCGCTTTCGactgcg                                                                       <  2:591986/103‑6 (MQ=255)
                                                                                       tGATTACTACCGGGCGGGGGCGCAATGCGCGATCACTGCCAGCTATCAGGCGACGCCGGCGGGCTTCGCCGCGCGAGGTCTGGATGAAGCGCTTTCGactgcg                                                                       >  1:591986/1‑98 (MQ=255)
                                                                                         aTTACTACCGGGCGGGGGCGCAATGCGCGATCACTGCCAGCTATCAGGCGACGCCGGCGGGCTTCGCCGCGCGAGGTCTGGATGAAGCGCAGTCGAAAGCGCTGATTGGCAAAAGCg                                                       <  3:719117/117‑1 (MQ=255)
                                                                                         aTTACTACCGGGCGGGGGCGCAATGCGCGATCACTGCCAGCTATCAGGCGACGCCGGCGGGCTTCGCCGCGCGAGGTCTGGATGAAGCGCAGTCGAAAGCGCTGATTGGCAAAAGCg                                                       >  4:719117/1‑117 (MQ=255)
                                                                                          ttACTACCGGGCGGGGGCGCAATGCGCGATCACTGCCAGCTATCAGGCGACGCCGGCGGGCTTCGCCGCGCGAGGTCTGGATGAAGCGCAGTCGAAAGCGCTGAtt                                                                 >  3:75104/1‑106 (MQ=255)
                                                                                          ttACTACCGGGCGGGGGCGCAATGCGCGATCACTGCCAGCTATCAGGCGACGCCGGCGGGCTTCGCCGCGCGAGGTCTGGATGAAGCGCAGTCGAAAGCGCTGAtt                                                                 <  4:75104/106‑1 (MQ=255)
                                                                                          ttACTACCGGGCGGGGGCGCAATGCGCGATCACTGCCAGCTATCAGGCGACGCCGGCGGGCTTCGCCGCGCGAGGTCTGGATGAAGCGCAGTCGAAAGCGCTGATTGGCAAAAGCGt                                                      >  3:768182/1‑117 (MQ=255)
                                                                                          ttACTACCGGGCGGGGGCGCAATGCGCGATCACTGCCAGCTATCAGGCGACGCCGGCGGGCTTCGCCGCGCGAGGTCTGGATGAAGCGCAGTCGAAAGCGCTGATTGGCAAAAGCGt                                                      <  4:768182/117‑1 (MQ=255)
                                                                                          ttACTACCGGGCGGGGGCGCAATGCGCGATCACTGCCAGCTATCAGGCGACGCCGGCGGGCTTCGCCGCGCGAGGTCTGGATGAAGCGCAGTCGAAAGCGCTGATTGGCAAAAGCGTGGAGCTGGCGCGTAAAGCCCGTGAAGCGTAt                       <  4:995996/148‑1 (MQ=255)
                                                                                           tactacCGGGCGGGGGCGCAATGCGCGATCACTGCCAGCTATCAGGCGACGCCGGCGGGCTTCGCCGCGCGAGGTCTGGATGAAGCGCAGTCGAAAGCGCTGATTGGCAAAAGCGTGGAGCTGGCGCGTAAAGCCCGTGa                              <  1:664550/140‑1 (MQ=255)
                                                                                           tactacCGGGCGGGGGCGCAATGCGCGATCACTGCCAGCTATCAGGCGACGCCGGCGGGCTTCGCCGCGCGAGGTCTGGATGAAGCGCAGTCGAAAGCGCTGATTGGCAAAAGCGTGGAGCTGGCGCGTAAAGCCCGTGa                              >  2:664550/1‑140 (MQ=255)
                                                                                            actacCGGGCGGGGGCGCAATGCGCGATCACTGCCAGCTATCAGGCGACGCCGGCGGGCTTCGCCGCGCGAGGTCTGGATGAAGCGCAGTCGAAAGCGCTGATTGGCAAAAGCg                                                       >  3:27400/1‑114 (MQ=255)
                                                                                            actacCGGGCGGGGGCGCAATGCGCGATCACTGCCAGCTATCAGGCGACGCCGGCGGGCTTCGCCGCGCGAGGTCTGGATGAAGCGCAGTCGAAAGCGCTGATTGGCAAAAGCg                                                       <  4:27400/114‑1 (MQ=255)
                                                                                               acCGGGCGGGGGCGCAATGCGCGATCACTGCCAGCTATCAGGCGACGCCGGCGGGCTTCGCCGCGCGAGGTCTGGATGAAGCGCAGTCGAAAGCGCTGATTGGCAAAAGCGTGGAGCTGGCGCGTaa                                       <  1:369079/127‑1 (MQ=255)
                                                                                               acCGGGCGGGGGCGCAATGCGCGATCACTGCCAGCTATCAGGCGACGCCGGCGGGCTTCGCCGCGCGAGGTCTGGATGAAGCGCAGTCGAAAGCGCTGATTGGCAAAAGCGTGGAGCTGGCGCGTaa                                       >  2:369079/1‑127 (MQ=255)
                                                                                                      gggggCGCAATGCGCGATCACTGCCAGCTATCAGGCGACGCCGGCGGGCTTCGCCGCGCGAGGTCTGGATGAAGCGCAGTCGAAAGCGCTGATTGGCAAAAGCGTGGAGCTGGCGCGTAAAGCCCGTGAAGCGTATCTGGCAGAGAAc           <  2:600714/148‑1 (MQ=255)
                                                                                                       ggggCGCAATGCGCGATCACTGCCAGCTATCAGGCGACGCCGGCGGGCTTCGCCGCGCGAGGTCTGGATGAAGCGCAGTCGAAAGCGCTGATTGGCAAAAGCGTGGAGCTGGCGCGTAAAGCCCGTGAAGCGTATCTGGCAGAGAAcc          <  3:489693/148‑1 (MQ=255)
                                                                                                               aTGCGCGATCACTGCCAGCTATCAGGCGACGCCGGCGGGCTTCGCCGCGCGAGGTCTGGATGAAGCGCAGTCGAAAGCGCTGATTGGCAAAAGCGTGGAGCTGGCGCGTAAAGCCCGTGAAGCGTATCTGGCAGAGAACCCGCAGGCg  <  4:446218/148‑1 (MQ=255)
                                                                                                                          cTGCCAGCTATCAGGCGACGCCGGCGGGCTTCGCCGCGCGAGGTCTGGATGAAGCGCAGTCGAAAGCGCTGATTGGCAAAAGCGt                                                      <  1:403942/85‑1 (MQ=255)
                                                                                                                          cTGCCAGCTATCAGGCGACGCCGGCGGGCTTCGCCGCGCGAGGTCTGGATGAAGCGCAGTCGAAAGCGCTGATTGGCAAAAGCGt                                                      >  2:403942/1‑85 (MQ=255)
                                                                                                                                                   |                                                                                                               
GGAAGCGCGAGGGTGTAACTTAGCCGACAGCCTGTGGTCAGCCAAAGTGCTGGTAGAAAACCCGGAGCTTATCCGCGAAGTGCATCTTGATTACTACCGGGCGGGGGCGCAATGCGCGATCACTGCCAGCTATCAGGCGACGCCGGCGGGCTTCGCCGCGCGAGGTCTGGATGAAGCGCAGTCGAAAGCGCTGATTGGCAAAAGCGTGGAGCTGGCGCGTAAAGCCCGTGAAGCGTATCTGGCAGAGAACCCGCAGGCG  >  NC_000913/276795‑277053

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A