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
A8 F1 I2 R1 765 53.2 2691310 93.4% 2513683 103.8

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 1,248,410 A→G A235A (GCT→GCC)  dhaM ← putative dihydroxyacetone‑specific PTS enzymes: HPr, EI components

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,248,4100AG100.0% 194.9 / NA 54A235A (GCT→GCC) dhaMputative dihydroxyacetone‑specific PTS enzymes: HPr, EI components
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (28/26);  total (28/26)

CTTCCACGGTCAGGGTTGATTTTGCCTGTACCGTACATAAAACTGGTTGATAATAAAAGGCTTTACCCGAAACAGGCGGAACGGGACGCAGAGTAGGTGGAGCGACTTCCTCCGTTTCACCAAAGTTATCTTCAGCCAGCTGACGGAAAGCGATCAGTGCCTCTTCAGCTTCTGGCCCTTTCGCAATCAGGCGCAGCGTATCGTTATAGCGAACTTGTAGTAACGCAATCTGGTTAATACTCTCTGGTGTGACGCAT  >  NC_000913/1248277‑1248533
                                                                                                                                     |                                                                                                                           
cttcCACGGTCAGGGTTGATTTTGCCTGTACCGTACATAAAACTGGTTGATAATAAAAGGCTTTACCCGAAACAGGCGGAACGGGACGCAGAGTAGGTGGAGCGTCTTCCTCCGTTTCACCAAAGTTATCTTcggccag                                                                                                                        >  2:288145/1‑139 (MQ=255)
cttcCACGGTCAGGGTTGATTTTGCCTGTACCGTACATAAAACTGGTTGATAATAAAAGGCTTTACCCGAAACAGGCGGAACGGGACGCAGAGTAGGTGGAGCGACTTCCTCCGTTTCACCAAAGTTATCTTcggccag                                                                                                                        <  2:1286618/139‑1 (MQ=255)
cttcCACGGTCAGGGTTGATTTTGCCTGTACCGTACATAAAACTGGTTGATAATAAAAGGCTTTACCCGAAACAGGCGGAACGGGACGCAGAGTAGGTGGAGCGACTTCCTCCGTTTCACCAAAGTTATCTTcggccag                                                                                                                        <  2:138244/139‑1 (MQ=255)
     aCGGTCAGGGTTGATTTTGCCTGTACCGTACATAAAACTGGTTGATAATAAAAGGCTTTACCCGAAACAGGCGGAACGGGACGCAGAGTAGGTGGAGCGACTTCCTCCGTTTCACCAAAGTTATCTTCGGCCAGCTGAc                                                                                                                   >  1:1095937/1‑139 (MQ=255)
       ggTCAGGGTTGATTTTGCCTGTACCGTACATAAAACTGGTTGATAATAAAAGGCTTTACCCGAAACAGGCGGAACGGGACGCAGAGTAGGTGGAGCGACTTCCTCCGTTTCACCAAAGTTATCTTCGGCCAGCTGACgg                                                                                                                 <  1:525884/139‑1 (MQ=255)
             ggTTGATTTTGCCTGTACCGTACATAAAACTGGTTGATAATAAAAGGCTTTACCCGAAACAGGCGGAACGGGACGCAGAGTAGGTGGAGCGACTTCCTCCGTTTCACCAAAGTTATCTTCGGCCAGCTGACgg                                                                                                                 <  2:1091566/133‑1 (MQ=255)
             ggTTGATTTTGCCTGTACCGTACATAAAACTGGTTGATAATAAAAGGCTTTACCCGAAACAGGCGGAACGGGACGCAGAGTAGGTGGAGCGACTTCCTCCGTTTCACCAAAGTTATCTTCGGCCAGCTGACgg                                                                                                                 >  1:1091566/1‑133 (MQ=255)
                            tACCGTACATAAAACTGGTTGATAATAAAAGGCTTTACCCGAAACAGGCGGAACGGGACGCAGAGTAGGTGGAGCGACTTCCTCCGTTTCACCAAAGTTATCTTcggccag                                                                                                                        >  1:530800/1‑111 (MQ=255)
                            tACCGTACATAAAACTGGTTGATAATAAAAGGCTTTACCCGAAACAGGCGGAACGGGACGCAGAGTAGGTGGAGCGACTTCCTCCGTTTCACCAAAGTTATCTTcggccag                                                                                                                        <  2:530800/111‑1 (MQ=255)
                                 tACATAAAACTGGTTGATAATAAAAGGCTTTACCCGAAACAGGCGGAACGGGACGCAGAGTAGGTGGAGCGACTTCCTCCGTTTCACCAAAGTTATCTTCGGCCAGCTGACGGaaa                                                                                                              <  1:526853/116‑1 (MQ=255)
                                 tACATAAAACTGGTTGATAATAAAAGGCTTTACCCGAAACAGGCGGAACGGGACGCAGAGTAGGTGGAGCGACTTCCTCCGTTTCACCAAAGTTATCTTCGGCCAGCTGACGGaaa                                                                                                              >  2:526853/1‑116 (MQ=255)
                                      aaaaCTGGTTGATAATAAAAGGCTTTACCCGAAACAGGCGGAACGGGACGCAGAGTAGGTGGAGCGACTTCCTCCGTTTCACCAAAGTTATCTTCGGCCAGCTGACGGAAAGCGATCAGTGCCTCTTCAGCTTCTGGcc                                                                                  >  2:944697/1‑139 (MQ=255)
                                        aaCTGGTTGATAATAAAAGGCTTTACCCGAAACAGGCGGAACGGGACGCAGAGTAGGTGGAGCGACTTCCTCCGTTTCACCAAAGTTATCTTCGGCCAGCTGACGGAAAGCg                                                                                                           >  1:228874/1‑112 (MQ=255)
                                        aaCTGGTTGATAATAAAAGGCTTTACCCGAAACAGGCGGAACGGGACGCAGAGTAGGTGGAGCGACTTCCTCCGTTTCACCAAAGTTATCTTCGGCCAGCTGACGGAAAGCg                                                                                                           <  2:228874/112‑1 (MQ=255)
                                             gTTGATAATAAAAGGCTTTACCCGAAACAGGCGGAACGGGACGCAGAGTAGGTGGAGCGACTTCCTCCGTTTCACCAAAGTTATCTTcggccag                                                                                                                        >  1:251355/1‑94 (MQ=255)
                                             gTTGATAATAAAAGGCTTTACCCGAAACAGGCGGAACGGGACGCAGAGTAGGTGGAGCGACTTCCTCCGTTTCACCAAAGTTATCTTcggccag                                                                                                                        <  2:251355/94‑1 (MQ=255)
                                             gTTGATAATAAAAGGCTTTACCCGAAACAGGCGGAACGGGACGCAGAGTAGGTGGAGCGACTTCCTCCGTTTCACCAAAGTTATCTTCGGCCAGCTGACGGAAAGCGATCAGTGCCTCTTCAGCTTCTGGCCCTTTCGc                                                                           >  1:564400/1‑139 (MQ=255)
                                                     taaAAGGCTTTACCCGAAACAGGCGGAACGGGACGCAGAGTAGGTGGAGCGACTTCCTCCGTTTCACCAAAGTTATCTTCGGCCAGCTGACGGAAAGCGATCAGTGCCTCTTc                                                                                             <  2:1196382/113‑1 (MQ=255)
                                                     taaAAGGCTTTACCCGAAACAGGCGGAACGGGACGCAGAGTAGGTGGAGCGACTTCCTCCGTTTCACCAAAGTTATCTTCGGCCAGCTGACGGAAAGCGATCAGTGCCTCTTc                                                                                             >  1:1196382/1‑113 (MQ=255)
                                                        aaGGCTTTACCCGAAACAGGCGGAACGGGACGCAGAGTAGGTGGAGCGACTTCCTCCGTTTCACCAAAGTTATCTTCGGCCAGCTGACGGAAAGCGATCAGTg                                                                                                    <  2:331935/103‑1 (MQ=255)
                                                        aaGGCTTTACCCGAAACAGGCGGAACGGGACGCAGAGTAGGTGGAGCGACTTCCTCCGTTTCACCAAAGTTATCTTCGGCCAGCTGACGGAAAGCGATCAGTg                                                                                                    >  1:331935/1‑103 (MQ=255)
                                                        aaGGCTTTACCCGAAACAGGCGGAACGGGACGCAGAGTAGGTGGAGCGACTTCCTCCGTTTCACCAAAGTTATCTTCGGCCAGCTGACGGAAAGCGATCAGTGCCTCTTCAGCTTCTGGCCCTTTCGCAATCAGGCGCa                                                                <  1:944697/139‑1 (MQ=255)
                                                            cTTTACCCGAAACAGGCGGAACGGGACGCAGAGTAGGTGGAGCGACTTCCTCCGTTTCACCAAAGTTATCTTCGGCCAGCTGACGGAAAGCGATc                                                                                                        >  1:656963/1‑95 (MQ=255)
                                                            cTTTACCCGAAACAGGCGGAACGGGACGCAGAGTAGGTGGAGCGACTTCCTCCGTTTCACCAAAGTTATCTTCGGCCAGCTGACGGAAAGCGATc                                                                                                        <  2:656963/95‑1 (MQ=255)
                                                            cTTTACCCGAAACAGGCGGAACGGGACGCAGAGTAGGTGGAGCGACTTCCTCCGTTTCACCAAAGTTATCTTCGGCCAGCTGACGGAAAGCGATCAGTGCCTCTTCAGCTTCTGGCCCTTTCGCAATCAGGCGCAGCGt                                                            <  1:432218/139‑1 (MQ=255)
                                                            cTTTACCCGAAACAGGCGGAACGGGACGCAGAGTAGGTGGAGCGACTTCCTCCGTTTCACCAAAGTTATCTTCGGCCAGCTGACGGAAAGCGATCAGTGCCTCTTCAGCTTCTGGCCCTTTCGCAATCAGGCGCAGCGt                                                            >  1:763437/1‑139 (MQ=255)
                                                             tttACCCGAAACAGGCGGAACGGGACGCAGAGTAGGTGGAGCGACTTCCTCCGTTTCACCAAAGTTATCTTCGGCCAGCTGACGGAAAGCGATCAGt                                                                                                     <  2:605950/97‑1 (MQ=255)
                                                             tttACCCGAAACAGGCGGAACGGGACGCAGAGTAGGTGGAGCGACTTCCTCCGTTTCACCAAAGTTATCTTCGGCCAGCTGACGGAAAGCGATCAGt                                                                                                     >  1:605950/1‑97 (MQ=255)
                                                             tttACCCGAAACAGGCGGAACGGGACGCAGAGTAGGTGGAGCGACTTCCTCCGTTTCACCAAAGTTATCTTCGGCCAGCTGACGGAAAGCGATCAGTGCCTCTTCAGCTTCTGGCCCTTTCg                                                                            <  2:37152/122‑1 (MQ=255)
                                                             tttACCCGAAACAGGCGGAACGGGACGCAGAGTAGGTGGAGCGACTTCCTCCGTTTCACCAAAGTTATCTTCGGCCAGCTGACGGAAAGCGATCAGTGCCTCTTCAGCTTCTGGCCCTTTCGCAAt                                                                        <  2:1334013/126‑1 (MQ=255)
                                                             tttACCCGAAACAGGCGGAACGGGACGCAGAGTAGGTGGAGCGACTTCCTCCGTTTCACCAAAGTTATCTTCGGCCAGCTGACGGAAAGCGATCAGTGCCTCTTCAGCTTCTGGCCCTTTCGCAAt                                                                        >  1:1334013/1‑126 (MQ=255)
                                                             tttACCCGAAACAGGCGGAACGGGACGCAGAGTAGGTGGAGCGACTTCCTCCGTTTCACCAAAGTTATCTTCGGCCAGCTGACGGAAAGCGATCAGTGCCTCTTCAGCTGCTGGCCCTTTCg                                                                            >  1:37152/1‑122 (MQ=255)
                                                               tACCCGAAACAGGCGGAACGGGACGCAGAGTAGGTGGAGCGACTTCCTCCGTTTCACCAAAGTTATCTTCGGCCAGCTGACGGAAAGCGATCAGTGCCTCTTCa                                                                                            <  1:597318/104‑1 (MQ=255)
                                                               tACCCGAAACAGGCGGAACGGGACGCAGAGTAGGTGGAGCGACTTCCTCCGTTTCACCAAAGTTATCTTCGGCCAGCTGACGGAAAGCGATCAGTGCCTCTTCa                                                                                            >  2:597318/1‑104 (MQ=255)
                                                               tACCCGAAACAGGCGGAACGGGACGCAGAGTAGGTGGAGCGACTTCCTCCGTTTCACCAAAGTTATCTTCGGCCAGCTGACGGAAAGCGATCAGTGCCTCTTCAGCTTCTGGCCCTTTCGCAATCAGGCGCAGCGt                                                            <  2:971624/136‑1 (MQ=255)
                                                               tACCCGAAACAGGCGGAACGGGACGCAGAGTAGGTGGAGCGACTTCCTCCGTTTCACCAAAGTTATCTTCGGCCAGCTGACGGAAAGCGATCAGTGCCTCTTCAGCTTCTGGCCCTTTCGCAATCAGGCGCAGCGt                                                            >  1:971624/1‑136 (MQ=255)
                                                                     aaaCAGGCGGAACGGGACGCAGAGTAGGTGGAGCGACTTCCTCCGTTTCACCAAAGTTATCTTCGGCCAGCTGACGGAAAGCGATCAGTGCCTCTTc                                                                                             >  2:1341363/1‑97 (MQ=255)
                                                                     aaaCAGGCGGAACGGGACGCAGAGTAGGTGGAGCGACTTCCTCCGTTTCACCAAAGTTATCTTCGGCCAGCTGACGGAAAGCGATCAGTGCCTCTTc                                                                                             <  1:1341363/97‑1 (MQ=255)
                                                                       aCAGGCGGAACGGGACGCAGAGTAGGTGGAGCGACTTCCTCCGTTTCACCAAAGTTATCTTCGGCCAGCTGACGGAAAGCGATCAGTGCCTCTTCAGCTTCTGGCCCTTTCGCAATCAGGCGCAGCGTATCGTTATAGc                                                 <  2:1095937/139‑1 (MQ=255)
                                                                         aGGCGGAACGGGACGCAGAGTAGGTGGAGCGACTTCCTCCGTTTCACCAAAGTTATCTTcggccag                                                                                                                        <  2:1127191/66‑1 (MQ=255)
                                                                         aGGCGGAACGGGACGCAGAGTAGGTGGAGCGACTTCCTCCGTTTCACCAAAGTTATCTTcggccag                                                                                                                        >  1:1127191/1‑66 (MQ=255)
                                                                           gCGGAACGGGACGCAGAGTAGGTGGAGCGACTTCCTCCGTTTCACCAAAGTTATCTTCGGCCAGCTGACGGAAAGCGATCAGTGCCTCTTCAGCTTCTgg                                                                                    <  2:215798/100‑1 (MQ=255)
                                                                           gCGGAACGGGACGCAGAGTAGGTGGAGCGACTTCCTCCGTTTCACCAAAGTTATCTTCGGCCAGCTGACGGAAAGCGATCAGTGCCTCTTCAGCTTCTgg                                                                                    >  1:215798/1‑100 (MQ=255)
                                                                           gCGGAACGGGACGCAGAGTAGGTGGAGCGACTTCCTCCGTTTCACCAAAGTTATCTTCGGCCAGCTGACGGAAAGCGATCAGTGCCTCTTCAGCTTCTGGCCCTTTCGCAATCAGGCGCAGCGTATCGTTATAGCGAAc                                             >  1:414053/1‑139 (MQ=255)
                                                                                    gACGCAGAGTAGGTGGAGCGACTTCCTCCGTTTCACCAAAGTTATCTTCGGCCAGCTGACGGAAAGCGATCAGTGCCTCTTCAGCTTCTGGCCCTTTCGCAATCAGGCGCAGCGTATCGTTATAGCGAACTTGTAGTaa                                    >  2:18697/1‑139 (MQ=255)
                                                                                         agagTAGGTGGAGCGACTTCCTCCGTTTCACCAAAGTTATCTTCGGCCAGCTGACGGAAAGCGATCAGTGCCTCtt                                                                                              >  2:870447/1‑76 (MQ=255)
                                                                                         agagTAGGTGGAGCGACTTCCTCCGTTTCACCAAAGTTATCTTCGGCCAGCTGACGGAAAGCGATCAGTGCCTCtt                                                                                              <  1:870447/76‑1 (MQ=255)
                                                                                         agagTAGGTGGAGCGACTTCCTCCGTTTCACCAAAGTTATCTTCGGCCAGCTGACGGAAAGCGATCAGTGCCTCTTCAGCTTCTGGCCCTTTCGCAATCAGgcg                                                                  >  2:126963/1‑104 (MQ=255)
                                                                                         agagTAGGTGGAGCGACTTCCTCCGTTTCACCAAAGTTATCTTCGGCCAGCTGACGGAAAGCGATCAGTGCCTCTTCAGCTTCTGGCCCTTTCGCAATCAGgcg                                                                  <  1:126963/104‑1 (MQ=255)
                                                                                          gagTAGGTGGAGCGACTTCCTCCGTTTCACCAAAGTTATCTTCGGCCAGCTGACGGAAAGCGATCAGTGCCTCTTCAGCTTCTGGCCCTTTCGCAATCAGGCGCAGCGTATCGTTATAGCGAACTTGTAGTAACGCAAt                              <  2:1332090/139‑1 (MQ=255)
                                                                                          gagTAGGTGGAGCGACTTCCTCCGTTTCACCAAAGTTATCTTCGGCCAGCTGACGGAAAGCGATCAGTGCCTCTTCAGCTTCTGGCCCTTTCGCAATCAGGCGCAGCGTATCGTTATAGCGAACTTGTAGTAACGCAAt                              <  1:18697/139‑1 (MQ=255)
                                                                                                   gAGCGTCTTCCTCCGTTTCACCAAAGTTATCTTCGGCCAGCTGACGGAAAGCGATCAGTGCCTCTTCAGCTTCTGGCCCTTTCGCAATCAGGCGCAGCGTATCGTTATAGCGAACTTGTAGTAACGCAATCTGGTTAAt                     <  1:288145/139‑1 (MQ=255)
                                                                                                    aGCGACTTCCTCCGTTTCACCAAAGTTATCTTCGGCCAGCTGACGGAAAGCGATCAGTGCCTCTTCAGCTTCTGGCCCTTTCGCAATCAGGCGCAGCGTATCGTTATAGCGAACTTGTAGTAACGCAATCTGGTTAATa                    <  2:763437/139‑1 (MQ=255)
                                                                                                     gCGACTTCCTCCGTTTCACCAAAGTTATCTTCGGCCAGCTGACgg                                                                                                                 >  1:1090684/1‑45 (MQ=255)
                                                                                                     gCGACTTCCTCCGTTTCACCAAAGTTATCTTCGGCCAGCTGACgg                                                                                                                 <  2:1090684/45‑1 (MQ=255)
                                                                                                     gCGACTTCCTCCGTTTCACCAAAGTTATCTTCGGCCAGCTGACGGAAAGCGATCAGTGCCTCTTCAGCTTCTGGCCCTTTCGCAATCAGGCGCAGCGTATCGTTATAGCGAACTTGTAGTAACGCAATCTGGTTAATAc                   >  1:495740/1‑139 (MQ=255)
                                                                                                        aCTTCCTCCGTTTCACCAAAGTTATCTTCGGCCAGCTGACGGAAAGCGATCAGTGCCTCTTCAGCTTCTGGCCCTTTCGCAATCAGGCGCAGCGTATCGTTATAGCGAACTTGTAGTAACGCAATCTGGTTAATActct                >  1:179690/1‑139 (MQ=255)
                                                                                                          ttCCTCCGTTTCACCAAAGTTATCTTCGGCCAGCTGACGGAAAGCGATCAGTGCCTCTTCAGCTTCTGGCCCTTTCGCAATCAGGCGCAGCGTATCGTTATAGCGAACTTGTAGTAACGCAATCTGGTTAATActctct              >  1:134162/1‑139 (MQ=255)
                                                                                                           tcctccGTTTCACCAAAGTTATCTTCGGCCAGCTGACGGAAAGCGATCAGTGCCTCTTCAGCTTCTGGCCCTTTCGCAATCAGGCGCAGCGTATCGTTATAGc                                                 >  1:100310/1‑103 (MQ=255)
                                                                                                           tcctccGTTTCACCAAAGTTATCTTCGGCCAGCTGACGGAAAGCGATCAGTGCCTCTTCAGCTTCTGGCCCTTTCGCAATCAGGCGCAGCGTATCGTTATAGc                                                 <  2:100310/103‑1 (MQ=255)
                                                                                                                      aCCAAAGTTATCTTCGGCCAGCTGACGGAAAGCGATCAGTGCCTCTTCAGCTTCTGGCCCTTTCGCAATCAGGCGCAGCGTATCGTTATAGCGAACTTGTAGTAACGCAATCTGGTTAATACTCTCTGGTGTGACGCAt  >  2:224496/1‑139 (MQ=255)
                                                                                                                                  ttCGGCCAGCTGACGGAAAGCGATCAGTGCCTCTTCAGCTTCTGGCCCTTTCGCAATCAGGCGCAGCGTATCGTTATAGCGAACTTgtag                                       >  1:1039928/1‑90 (MQ=255)
                                                                                                                                  ttCGGCCAGCTGACGGAAAGCGATCAGTGCCTCTTCAGCTTCTGGCCCTTTCGCAATCAGGCGCAGCGTATCGTTATAGCGAACTTgtag                                       <  2:1039928/90‑1 (MQ=255)
                                                                                                                                     |                                                                                                                           
CTTCCACGGTCAGGGTTGATTTTGCCTGTACCGTACATAAAACTGGTTGATAATAAAAGGCTTTACCCGAAACAGGCGGAACGGGACGCAGAGTAGGTGGAGCGACTTCCTCCGTTTCACCAAAGTTATCTTCAGCCAGCTGACGGAAAGCGATCAGTGCCTCTTCAGCTTCTGGCCCTTTCGCAATCAGGCGCAGCGTATCGTTATAGCGAACTTGTAGTAACGCAATCTGGTTAATACTCTCTGGTGTGACGCAT  >  NC_000913/1248277‑1248533

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ 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