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 F1 I1 R1 770 51.4 2439994 93.8% 2288714 110.3

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,515,726 T→C Y63C (TAT→TGT)  dam ← DNA adenine methyltransferase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,515,7260TC100.0% 205.2 / NA 56Y63C (TAT→TGT) damDNA adenine methyltransferase
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (31/25);  total (31/25)

CCCGACGGAACGGATCCTGGCTTTTGTTGAACTCTTCGCGGAACTGATAGTAAACCTCGGCGCAATTTGTTTCGGGAACAAACAGCTCGCGTGCGGCCTGTACGTACTCATCAGTACGCATCTTCACAATGTTATAGAGACTGATCAGGTCGCTATTGATATCGGCAAGGATATAACGAGAAAAGTCGGTGTTGAGAAACACCGACCCGGCACCTACAAAAGGCTCAACCAGACATTCGCCCTTGGGCAAATGCCGTTTAATATCATCAA  >  NC_000913/3515592‑3515861
                                                                                                                                      |                                                                                                                                       
cccGACGGAACGGATCCTGGCTTTTGTTGAACTCTTCGCGGAACTGATAGTAAACCTCGGCGCAATTTGTTTCGGGAACAAACAGCTCGCGTGCGGCCTGTACGTACTCATCAGTACGCATCTTCACAATGTTACagag                                                                                                                                     >  2:43089/1‑139 (MQ=255)
     cggaacggaTCCTGGCTTTTGTTGAACTCTTCGCGGAACTGATAGTAAACCTCGGCGCAATTTGTTTCGGGAACAAACAGCTCGCGTGCGGCCTGTACGTACTCATCAGTACGCATCTTCACAATGTTACAGAGACTGa                                                                                                                                >  2:485832/1‑139 (MQ=255)
          cggaTCCTGGCTTTTGTTGAACTCTTCGCGGAACTGATAGTAAACCTCGGCGCAATTTGTTTCGGGAACAAACAGCTCGCGTGCGGCCTGTACGTACTCATCAGTACGCATCTTCACAATGTTACAGAGACTGATCAgg                                                                                                                           <  1:43089/139‑1 (MQ=255)
           ggaTCCTGGCTTTTGTTGAACTCTTCGCGGAACTGATAGTAAACCTCGGCGCAATTTGTTTCGGGAACAAACAGCTCGCGTGCGGCCTGTACGTACTCATCAGTACGCATCTTCACAATGTTACAGAGACTGATCAGGt                                                                                                                          <  1:858426/139‑1 (MQ=255)
                      tttGTTGAACTCTTCGCGGAACTGATAGTAAACCTCGGCGCAATTTGTTTCGGGAACAAACAGCTCGCGTGCGGCCTGTACGTACTCATCAGTACGCATCTTCACAATGTTACAGAGACTGATCAGGTCGCTATTGata                                                                                                               >  2:837931/1‑139 (MQ=255)
                        tgttgAACTCTTCGCGGAACTGATAGTAAACCTCGGCGCAATTTGTTTCGGGAACAAACAGCTCGCGTGCGGCCTGTACGTACTCATCAGTACGCATCTTCACAATGTTACAgaga                                                                                                                                    >  1:940394/1‑116 (MQ=255)
                        tgttgAACTCTTCGCGGAACTGATAGTAAACCTCGGCGCAATTTGTTTCGGGAACAAACAGCTCGCGTGCGGCCTGTACGTACTCATCAGTACGCATCTTCACAATGTTACAgaga                                                                                                                                    <  2:940394/116‑1 (MQ=255)
                              aCTCTTCGCGGAACTGATAGTAAACCTCGGCGCAATTTGTTTCGGGAACAAACAGCTCGCGTGCGGCCTGTACGTACTCATCAGTACGCATCTTCACAATGTTACAGAGACTGATCAGGTCGCTa                                                                                                                     <  2:299272/125‑1 (MQ=255)
                              aCTCTTCGCGGAACTGATAGTAAACCTCGGCGCAATTTGTTTCGGGAACAAACAGCTCGCGTGCGGCCTGTACGTACTCATCAGTACGCATCTTCACAATGTTACAGAGACTGATCAGGTCGCTa                                                                                                                     >  1:299272/1‑125 (MQ=255)
                                  ttCGCGGAACTGATAGTAAACCTCGGCGCAATTTGTTTCGGGAACAAACAGCTCGCGTGCGGCCTGTACGTACTCATCAGTACGCATCTTCACAATGTTACAGAGACTGATCAGGt                                                                                                                          >  1:1002439/1‑116 (MQ=255)
                                  ttCGCGGAACTGATAGTAAACCTCGGCGCAATTTGTTTCGGGAACAAACAGCTCGCGTGCGGCCTGTACGTACTCATCAGTACGCATCTTCACAATGTTACAGAGACTGATCAGGt                                                                                                                          <  2:1002439/116‑1 (MQ=255)
                                               tAGTAAACCTCGGCGCAATTTGTTTCGGGAACAAACAGCTCGCGTGCGGCCTGTACGTACTCATCAGTACGCATCTTCACAATGTTACAGAGACTGAt                                                                                                                               >  1:1095927/1‑98 (MQ=255)
                                               tAGTAAACCTCGGCGCAATTTGTTTCGGGAACAAACAGCTCGCGTGCGGCCTGTACGTACTCATCAGTACGCATCTTCACAATGTTACAGAGACTGAt                                                                                                                               <  2:1095927/98‑1 (MQ=255)
                                                        tCGGCGCAATTTGTTTCGGGAACAAACAGCTCGCGTGCGGCCTGTACGTACTCATCAGTACGCATCTTCACAATGTTACAGAGACTGATCAGGTCGCTATTGATATCGGCAAGGATATAACGAGAAAAGTCGGTGTTga                                                                             >  1:259571/1‑139 (MQ=255)
                                                          ggCGCAATTTGTTTCGGGAACAAACAGCTCGCGTGCGGCCTGTACGTACTCATCAGTACGCATCTTCACAATGTTACAGAGACTGATCAGGTCGCTATTGATATCGGCAAGGATATAACGAGAAAAGTCGGTGTTgaga                                                                           >  2:20026/1‑139 (MQ=255)
                                                            cgcAATTTGTTTCGGGAACAAACAGCTCGCGTGCGGCCTGTACGTACTCATCAGTACGCATCTTCACAATGTTACAGAGACTGAt                                                                                                                               >  1:1078539/1‑85 (MQ=255)
                                                            cgcAATTTGTTTCGGGAACAAACAGCTCGCGTGCGGCCTGTACGTACTCATCAGTACGCATCTTCACAATGTTACAGAGACTGAt                                                                                                                               <  2:1078539/85‑1 (MQ=255)
                                                                       tCGGGAACAAACAGCTCGCGTGCGGCCTGTACGTACTCATCAGTACGCATCTTCACAATGTTACAGAGACTGATCAGGTCGCTATTGATATCGGCAAGGATATAACGAGAAAAGTCGGTGTTGAGAAACACCGACCCgg                                                              <  1:20026/139‑1 (MQ=255)
                                                                        ctggAACAAACAGCTCGCGTGCGGCCTGTACGTACTCATCAGTACGCATCTTCACAATGTTACAGAGACTGATCAGGTCGCTATTGATATCGGCAAGGATATAACGAGAAAAGTCGGTGTTGAGAAACTCCGACCAGGc                                                             <  1:649930/137‑1 (MQ=255)
                                                                           gAACAAACAGCTCGCGTGCGGCCTGTACGTACTCATCAGTACGCATCTTCACAATGTTACAGAGACTGATCAGGTCGCTATTGATATCGGCAAGGATATAACGAGAAAAGTCGGTGTTGAGAAACACCGACCCGGCAcc                                                          >  1:14330/1‑139 (MQ=255)
                                                                           gAACAAACAGCTCGCGTGCGGCCTGTACGTACTCATCAGTACGCATCTTCACAATGTTACAGAGACTGATCAGGTCGCTATTGATATCGGCAAGGATATAACGAGAAAAGTCGGTGTTGAGAAACACCGACCCGGCAcc                                                          >  2:860592/1‑139 (MQ=255)
                                                                               aaacaACTCGCGTGCGGCCTGTACGTACTCATCAGTACGCATCTTCACAATGTTACAGAGACTGATCAGGTCGCTATTGATATCGGCAAGGATATAACGAGAAAAGTCGGTGTTGAGAAACACCGACCCGGCACCTACa                                                      >  2:664613/1‑139 (MQ=255)
                                                                                aacaGCTCGCGTGCGGCCTGTACGTACTCATCAGTACGCATCTTCACAATGTTACAGAGACTGATCAGGTCGCTATTGATATCGGCAAGGATATCACGAGAAAAGTCGGTGTTGAGAAACACCGACCCGGCACCTACaa                                                     <  1:860592/139‑1 (MQ=255)
                                                                                     cTCGCGTGCGGCCTGTACGTACTCATCAGTACGCATCTTCACAATGTTACAGAGACTGATCAgg                                                                                                                           <  2:842723/64‑1 (MQ=255)
                                                                                     cTCGCGTGCGGCCTGTACGTACTCATCAGTACGCATCTTCACAATGTTACAGAGACTGATCAgg                                                                                                                           >  1:842723/1‑64 (MQ=255)
                                                                                     cTCGCGTGCGGCCTGTACGTACTCATCAGTACGCATCTTCACAATGTTACAGAGACTGATCAGGTCGCTATTGat                                                                                                                >  1:646972/1‑75 (MQ=255)
                                                                                     cTCGCGTGCGGCCTGTACGTACTCATCAGTACGCATCTTCACAATGTTACAGAGACTGATCAGGTCGCTATTGat                                                                                                                <  2:646972/75‑1 (MQ=255)
                                                                                     cTCGCGTGCGGCCTGTACGTACTCATCAGTACGCATCTTCACAATGTTACAGAGACTGATCAGGTCGCTATTGATATCGGCAAGGATATAACGAGAAAAGTCGGTGTTGAGAAACACCGACCCGGCACCTACAAAAGGc                                                >  1:1038547/1‑139 (MQ=255)
                                                                                     cTCGCGTGCGGCCTGTACGTACTCATCAGTACGCATCTTCACAATGTTACAGAGACTGATCAGGTCGCTATTGATATCGGCAAGGATATAACGAGAAAAGTCGGTGTTGAGAAACACCGACCCGGCACCTACAAAAGGc                                                >  1:630959/1‑139 (MQ=255)
                                                                                     cTCGCGTGCGGCCTGTACATACTCATCAGTACGCATCTTCACAATGTTACAGAGACTGATCAGGTCGCTATTGATATCGGCAAGGATATAACGAGAAAAGTCGGTGTTGAGAAACACCGACCCGGCACCTACAAAAGGc                                                >  1:827586/1‑139 (MQ=255)
                                                                                               gCCTGTACGTACTCATCAGTACGCATCTTCACAATGTTACAGAGACTGATCAGGt                                                                                                                          <  2:63806/55‑1 (MQ=255)
                                                                                               gCCTGTACGTACTCATCAGTACGCATCTTCACAATGTTACAGAGACTGATCAGGt                                                                                                                          >  1:63806/1‑55 (MQ=255)
                                                                                                  tGTACGTACTCATCAGTACGCATCTTCACAATGTTACAGAGACTGATCAGGTCGCTATTGATATCGGCAAGGATATAACGAGAAAAGTCGGTGTTGAGAAACACCGACCCGGCACCTACAAAAGGCTCAACCAGACAtt                                   <  1:664613/139‑1 (MQ=255)
                                                                                                    tacgtacTCATCAGTACGCATCTTCACAATGTTACAGAGACTGATCAGGTCTCTATTGATATCGGCAAGGATATATCGAGAAAAGTCGGTGCTGAGAAACACAGACCCGGCACCTACAAAAGGCTCAACCAGACATTCg                                 <  2:775306/139‑1 (MQ=255)
                                                                                                    tacgtacTCATCAGTACGCATCTTCACAATGTTACAGAGACTGATCAGGTCGCTATTGATATCGGCAAGGAtata                                                                                                 >  1:919577/1‑75 (MQ=255)
                                                                                                    tacgtacTCATCAGTACGCATCTTCACAATGTTACAGAGACTGATCAGGTCGCTATTGATATCGGCAAGGAtata                                                                                                 <  2:919577/75‑1 (MQ=255)
                                                                                                          cTCATCAGTACGCATCTTCACAATGTTACAGAGACTGATCAGGTCGCTATTGATATCGGCAAGGATATAACGAGAAAAGTCGGTGTTGAGAAACACCGACCCGGCACCTACAAAAGGCTCAACCAGACATTCGCCCTTg                           >  1:212283/1‑139 (MQ=255)
                                                                                                             atcaGTACGCATCTTCACAATGTTACAGAGACTGATCAGGTCGCTATTGATATCGGCAAGGATATAACGAGAAAAGTCGGTGTTGAGAAACACCGACCCGGCACCTACAAAAGGCTCAACCAGACATTCGCCCTTGGGc                        >  1:627937/1‑139 (MQ=255)
                                                                                                              tcaGTACGCATCTTCACAATGTTACAGAGACTGATCAGGTCGCTATTGATATCGGCAAGGATATAACGAGAAAAGTCGGTGTTGAGAAACACCGACCCGGCGCCTACAAAAGGCTCAACCAGACATTCGCCCTTGGGCa                       >  1:775306/1‑139 (MQ=255)
                                                                                                                  tACGCATCTTCACAATGTTACAGAGACTGATCAGGTCGCTATTGATATCGGCAAGGATATAACGAGAAAAGTCGGTGTTGAGAAACACCGACCCGGCACCTACAAAAGGCTCAACCAGACATTCGCCCTTGGGCAAATg                   <  2:14330/139‑1 (MQ=255)
                                                                                                                  tACGCATCTTCACAATGTTACAGAGACTGATCAGGTCGCTATTGATATCGGCAAGGATATAACGAGAAAAGTCGGTGTTGAGAAACACCGACCCGGCACCTACAAAAGGCTCAACCAGACATTCGCCCTTGGGCAAATg                   <  2:259571/139‑1 (MQ=255)
                                                                                                                  tACGCATCTTCACAATCTTACAGAGACTGATCAGGTCGCTATTGATATCGGCAAGGATATAACGAGAAAAGTCGGTGTTGAGAAACACCGACCCGGCACCTACAAAAGGCTCAACCAGGCATTCGCCCTTGGGCATATg                   <  2:827586/139‑1 (MQ=255)
                                                                                                                     gCATCTTCACAATGTTACAGAGACTGATCAGGTCGCTATTGATATCGGCAAGGATATAACGAGAAAAGTCGGTGTTGAGAAACACCGACCCGGCACCTACAAAAGGCTCAAcc                                          >  1:1040049/1‑113 (MQ=255)
                                                                                                                     gCATCTTCACAATGTTACAGAGACTGATCAGGTCGCTATTGATATCGGCAAGGATATAACGAGAAAAGTCGGTGTTGAGAAACACCGACCCGGCACCTACAAAAGGCTCAAcc                                          <  2:1040049/113‑1 (MQ=255)
                                                                                                                       aTCTTCACAATGTTACAGAGACTGATCAGGTCGCTATTGATATCGGCAAGGATATAACGAGAAAAGTCGGTGTTGAGAAACACCGACCCGGc                                                             <  2:916776/92‑1 (MQ=255)
                                                                                                                       aTCTTCACAATGTTACAGAGACTGATCAGGTCGCTATTGATATCGGCAAGGATATAACGAGAAAAGTCGGTGTTGAGAAACACCGACCCGGc                                                             >  1:916776/1‑92 (MQ=255)
                                                                                                                       aTCTTCACAATGTTACAGAGACTGATCAGGTCGCTATTGATATCGGCAAGGATATAACGAGAAAAGTCGGTGTTGAGAAACACCGACCCGGCACCTACAAAAGGCTCAACCAGACATTCGCCCTTGGGCAAATGCCGtt              >  1:594076/1‑139 (MQ=255)
                                                                                                                         cTTCACAATGTTACAGAGACTGATCAGGTCGCTATTGATATCGGCAAGGATATAACGAGAAAAGTCGGTGTTGAGAAACACCGACCCGGCACCTACAAAAGGc                                                >  1:870660/1‑103 (MQ=255)
                                                                                                                         cTTCACAATGTTACAGAGACTGATCAGGTCGCTATTGATATCGGCAAGGATATAACGAGAAAAGTCGGTGTTGAGAAACACCGACCCGGCACCTACAAAAGGc                                                <  2:870660/103‑1 (MQ=255)
                                                                                                                         cTTCACAATGTTACAGAGACTGATCAGGTCGCTATTGATATCGGCAAGGATATAACGAGAAAAGTCGGTGTTGAGAAACACCGACCCGGCACCTACAAAAGGCTCAACCAGACATTCGCCCTTGGGCAAATGCCGtt              >  1:276391/1‑137 (MQ=255)
                                                                                                                         cTTCACAATGTTACAGAGACTGATCAGGTCGCTATTGATATCGGCAAGGATATAACGAGAAAAGTCGGTGTTGAGAAACACCGACCCGGCACCTACAAAAGGCTCAACCAGACATTCGCCCTTGGGCAAATGCCGtt              <  2:276391/137‑1 (MQ=255)
                                                                                                                         cTTCACAATGTTACAGAGACTGATCAGGTCGCTATTGATATCGGCAAGGATATAACGAGAAAAGTCGGTGTTGAGAAACACCGACCCGGCACCTACAAAAGGCTCAACCAGACATTCGCCCTTGGGCAAATGCCGTTTa            >  1:845971/1‑139 (MQ=255)
                                                                                                                         cTTCACAATGTTACAGAGACTGATCAGGTCGCTATTGATATCGGCAAGGATATAACGAGAAAAGTCGGTGTTGAGAAACACCGACCCGGCACCTACAAAAGGCTCAACCAGACATTCGCCCTTGGGCAAATGCCGTTTa            <  2:1038547/139‑1 (MQ=255)
                                                                                                                         cTTCACAATGTTACAGAGACTGATCAGGTCGCTATTGATATCGGCAAGGATATAACGAGAAAAGTCGGTGTTGAGAAACACCGACCCGGCACCTACAAAAGGCTCAACCAGACATTCGCCCTTGGGCAAATGCCGTTTa            <  1:624930/139‑1 (MQ=255)
                                                                                                                            cacaATGTTACAGAGACTGATCAGGTCGCTATTGATATCGGCAAGGATATAACGAGAAAAGTCGGTGTTGAGAAACACCGACCCGGCACCTACAAAAGGCTCAACCAGACATTCGCCCTTGGGCAAATGCCGTTTAata         >  1:758598/1‑139 (MQ=255)
                                                                                                                                   ttACAGAGACTGATCAGGTCGCTATTGATATCGGCAAGGATATAACGAGAAAAGTCGGTGTTGAGAAACACCGACCCGGCACCTACAAAAGGCTCAACCAGACATTCGCCCTTGGGCAAATGCCGTTTAATATCATCaa  >  2:1019015/1‑139 (MQ=255)
                                                                                                                                      |                                                                                                                                       
CCCGACGGAACGGATCCTGGCTTTTGTTGAACTCTTCGCGGAACTGATAGTAAACCTCGGCGCAATTTGTTTCGGGAACAAACAGCTCGCGTGCGGCCTGTACGTACTCATCAGTACGCATCTTCACAATGTTATAGAGACTGATCAGGTCGCTATTGATATCGGCAAGGATATAACGAGAAAAGTCGGTGTTGAGAAACACCGACCCGGCACCTACAAAAGGCTCAACCAGACATTCGCCCTTGGGCAAATGCCGTTTAATATCATCAA  >  NC_000913/3515592‑3515861

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A