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
A12 F1 I1 R1 760 58.2 3022526 90.8% 2744453 102.0

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,961,917 G→C G414A (GGC→GCC)  rep → DNA helicase and single‑stranded DNA‑dependent ATPase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,961,9170GC100.0% 230.3 / NA 65G414A (GGC→GCC) repDNA helicase and single‑stranded DNA‑dependent ATPase
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base C (38/27);  total (38/27)

CTGGTGGTACGTCGTTTTTCTCTCGTCCTGAAATCAAGGACTTGCTGGCTTATCTGCGCGTGCTGACTAACCCGGACGATGACAGCGCATTTCTGCGTATCGTTAACACGCCGAAGCGAGAGATTGGCCCGGCTACGCTGAAAAAGCTGGGTGAGTGGGCGATGACGCGCAATAAAAGCATGTTTACCGCCAGCTTTGATATGGGCCTGAGTCAGACGCTTAGCGGACGTGGTTATGAAGCATTGACCCGCTTCACTC  >  NC_000913/3961791‑3962048
                                                                                                                              |                                                                                                                                   
cTGGTGGTACGTCGTTTTTCTCTCGTCCTGAAATCAAGGATTTGCTGGCTTATCTGCGCGTGCTGACTAACCCGGACGATGACAGCGCATTTCTGCGTATCGTTAACACGCCGAAGCGAGAGATTGCCCCGGCTACGCt                                                                                                                         >  2:1134887/1‑139 (MQ=255)
     ggtACGTCGTTTTTCTCTCGTCCTGAAATAAAGGACTTGCTGGCTTATCTGCGCGTGCTGACTAACCCGGACGATGACAGCGCATTTCTGCGTATCGTTAACACGCCGAAGCGAGAGATTGCCCCGGCTACGCTGaaaa                                                                                                                    >  2:990851/1‑139 (MQ=255)
       tACGTCGTTTTTCTCTCGTCCTGAAATCAAGGACTTGCTGGCTTATCTGCGCGTGCTGACTAACCCGGACGATGACAGCGCATTTCTGCGTATCGTTAACACGCCGAAGCGAGAGATTGCCCCGGCTACGCTGAAAAAg                                                                                                                  >  2:1223685/1‑139 (MQ=255)
               ttttCTCTCGTCCTGAAATCAAGGACTTGCTGGCTTATCTGCGCGTGCTGACTAACCCGGACGATGACAGCGCATTTCTGCGTATCGTTAACACGCCGAAGCGAGAGATTGCCCCGGCTACGCTGAAAAAGCTGGGTGa                                                                                                          <  1:990851/139‑1 (MQ=255)
                     ctcGTCCTGAAATCAAGGACTTGCTGGCTTATCTGCGCGTGCTGACTAACCCGGACGATGACAGCGCATTTCTGCGTATCGTTAACACGCCGAAGCGAGAGATTGCCCCga                                                                                                                                <  2:1327527/111‑2 (MQ=255)
                     ctcGTCCTGAAATCAAGGACTTGCTGGCTTATCTGCGCGTGCTGACTAACCCGGACGATGACAGCGCATTTCTGCGTATCGTTAACACGCCGAAGCGAGAGATTGCCCCga                                                                                                                                >  1:1327527/1‑110 (MQ=255)
                        gTCCTGAAATCAAGGACTTGCTGGCTTATCTGCGCGTGCTGACTAACCCGGACGATGACAGCGCATTTCTGCGTATCGTTAACACGCCGAAGCGAGAGATTGCCCCGGCTACGCTGAAAAAGCTGGGTGAGTGGGCGAt                                                                                                 >  1:541276/1‑139 (MQ=255)
                        gTCCTGAAATCAAGGACTTGCTGGCTTATCTGCGCGTGCTGACTAACCCGGACGATGACAGCGCATTTCTGCGTATCGTTAACACGCCGAAGCGAGAGATTGCCCCGGCTACGCTGAAAAAGCTGGGTGAGTGGGCGAt                                                                                                 >  2:487407/1‑139 (MQ=255)
                         tCCTGAAATCAAGGACTTGCTGGCTTATCTGCGCGTGCTGACTAACCCGGACGATGACAGCGCATTTCTGCGTATCGTTAACACGCTGAAGCGAGAGATTGCCCCGGCTACGCTGAAAAAGCTGGGTGAGTGGGCGATg                                                                                                >  1:572741/1‑139 (MQ=255)
                            tGAAATCGAGGACTTGCTGGCTTATCTGCGCGTGCTGACTAACCCGGACGATGACAGCGCATTTCTGCGTATCGTTAACACGCCGAAGCGAGAGATTGCCCCGGCTACGCTGAAAAAGCTGGGTGAGTGGGCGATGAcg                                                                                             <  1:1223685/139‑1 (MQ=255)
                             gAAATCAAGGACTTGCTGGCTTATCTGCGCGTGCTGACTAACCCGGACGATGACAGCGCATTTCTGCGTATCGTTAACACGCTGAAGCGAGAGATTGCCCCGGCTACGCTGAAAAAGCTGGGTGAGTGGGCGATGAcgc                                                                                            <  2:572741/139‑1 (MQ=255)
                             gAAATCAAGGACTTGCTGGCTTATCTGCGCGTGCTGACTAACCCGGACGATGACAGCGCATTTCTGCGTATCGTTAACACGCCGAAGCGAGAGATTGCCCCGGCTAc                                                                                                                            <  1:1195507/107‑1 (MQ=255)
                             gAAATCAAGGACTTGCTGGCTTATCTGCGCGTGCTGACTAACCCGGACGATGACAGCGCATTTCTGCGTATCGTTAACACGCCGAAGCGAGAGATTGCCCCGGCTACGCTGAAAAAGCTGGGTGAGTGGGCGATGAcgc                                                                                            <  2:541276/139‑1 (MQ=255)
                             gAAATCAAGGACTTGCTGGCTTATCTGCGCGTGCTGACTAACCCGGACGATGACAGCGCATTTCTCCGTATCGTTAACACGCCGAAGCGAGAGATTGCCCCGGCTAc                                                                                                                            >  2:1195507/1‑107 (MQ=255)
                                aTCAAGGACTTGCTGGCTTATCTGCGCGTGCTGACTAACCCGGACGATGACAGCGCATTTCTGCGTATCGTTAACACGCCGAAGCGAGAGATTGCCCCGGCTACGCTGAAAAAGCTGGGTGAGTGGGCGATGACGCGCa                                                                                         >  2:356013/1‑139 (MQ=255)
                                                    tCTGCGCGTGCTGACTAACCCGGACGATGACAGCGCATTTCTGCGTATCGTTAACACGCCGAAGCGAGAGATTGCCCCGGCTACGCTGAAAAAGCTGGGTGAGTGGGCGATGACGCGCAATAAAAGCATGTTTACCGcc                                                                     >  2:1292944/1‑139 (MQ=255)
                                                       gcgcGTGCTGACTAACCCGGACGATGACAGCGCATTTCTGCGTATCGTTAACACGCCGAAGCGAGAGATTGCCCCGGCTACGCTGAAAAAGCTGGGTGAGTGGGCGATGAcg                                                                                             <  2:749347/112‑1 (MQ=255)
                                                       gcgcGTGCTGACTAACCCGGACGATGACAGCGCATTTCTGCGTATCGTTAACACGCCGAAGCGAGAGATTGCCCCGGCTACGCTGAAAAAGCTGGGTGAGTGGGCGATGAcg                                                                                             >  1:749347/1‑112 (MQ=255)
                                                         gcgTGCTGACTAACCCGGACGATGACAGCGCATTTCTGCGTATCGTTAACACGCCGAAGCGAGAGATTGCCCCGGCTACGCTGa                                                                                                                       >  2:967278/1‑84 (MQ=255)
                                                         gcgTGCTGACTAACCCGGACGATGACAGCGCATTTCTGCGTATCGTTAACACGCCGAAGCGAGAGATTGCCCCGGCTACGCTGa                                                                                                                       <  1:967278/84‑1 (MQ=255)
                                                         gcgTGCTGACTAACCCGGACGATGACAGCGCATTTCTGCGTATCGTTAACACGCCGAAGCGAGAGATTGCCCCGGCTACGCTGAAAAAGCTGGGTGAGTGGGCGATGACGCGCAATa                                                                                      >  1:1120197/1‑117 (MQ=255)
                                                         gcgTGCTGACTAACCCGGACGATGACAGCGCATTTCTGCGTATCGTTAACACGCCGAAGCGAGAGATTGCCCCGGCTACGCTGAAAAAGCTGGGTGAGTGGGCGATGACGCGCAATa                                                                                      <  2:1120197/117‑1 (MQ=255)
                                                         gcgTGCTGACTAACCCGGACGATGACAGCGCATTTCTGCGTATCGTTAACACGCCGAAGCGAGAGATTGCCCCGGCTACGCTGAAAAAGCTGGGTGAGTGGGCGATGACGCGCAATAAAAGCATGTTTACCGCCAGCtt                                                                <  1:887593/139‑1 (MQ=255)
                                                          cgTGCTGACTAACCCGGACGATGACAGCGCATTTCTGCGTATCGTTAACACGCCGAAGCGAGAGATTGCCCCGGCTACGCTGAAAAAGCTGGGTGAGTGGGCGATGACGCGCAATAAAAGCATGTTTACCGCCAGCttt                                                               >  1:90379/1‑139 (MQ=255)
                                                             gCTGACTAACCCGGACGATGACAGCGCATTTCTGCGTATCGTTAACACGCCGAAGCGAGAGATTGCCCCGGCTACGCTGAAAAAGTTGGGTGAGTGGGCGATGACGCGCAATAAAAGCATGTTTACCGCCAGCTTTGat                                                            >  2:113641/1‑139 (MQ=255)
                                                             gCTGACTAACCCGGACGATGACAGCGCATTTCTGCGTATCGTTAACACGCCGAAGCGAGAGATTGCCCCGGCTACGCTGAAAAAGCTGGGTGAGTGGGCGATGACGCGCAATAAAAGCATGTTTACCGCCAGCTTTGat                                                            >  2:855442/1‑139 (MQ=255)
                                                             gCTGACTAACCCGGACGATGACAGCGCATTTCTGCGTATAGTTAACACGCCGAAGCGAGAGATTGCCCCGGCTACGCTGAAAAAGCTGGGTGAGTGGGCGATGACGCGCAATAAATGCATGTTTACCGCCAGCTTTGat                                                            >  2:993860/1‑139 (MQ=255)
                                                              cTGACTAACCCGGACGATGACAGCGCATTTCTGCGTATCGTTAACACGCCGAAGCGAGAGATTGCCCCGGCTACGCTGAAAAAGCTGGGTGAGTGGGCGATGACGCGCAATAAAAGCATGTTTACCGCCAGCTTTGata                                                           <  1:356013/139‑1 (MQ=255)
                                                                       ccGGACGATGACAGCGCATTTCTGCGTATCGTTAACACGCCGAAGCGAGAGATTGCCCCGGCTACGCTGAAAAAGCTGGGTGAGTGGGCGATGACGCGCAATAAAAGCATGTTTACCGCCAGCTTTGATATGGGCCTGa                                                  >  1:133259/1‑139 (MQ=255)
                                                                           aCGATGACAGCGCATTTCTGCGTATCGTTAACACGCCGAAGCGAGAGATTGCCCCGGCTACGCTGAAAAAGCTGGGTGAGTGGGCGATGACGCGCAATAAAAGCATGTTTACCGCCAGCTTTGATATGGGCCTGAGTCa                                              >  2:337031/1‑139 (MQ=255)
                                                                           aCGATGACAGCGCATTTCTGCGTATCGTTAACACGCCGAAGCGAGAGATTGCCCCGGCTACGCTGAAAAAGCTGGGTGAGTGGGCGATGACGCGCAATAAAAGCATGTTTACCGCCAGCTTTGATATGGGCCTGAGTCa                                              >  2:489894/1‑139 (MQ=255)
                                                                                gACAGCGCATTTCTGCGTATCGTTAACACGCCGAAGCGAGAGATTGCCCCGGCTACGCTGAAAAAGCTGGGTGAGTGGGCGATGACGCGCAATAAAAGCATGTTTACCGCCAGCtt                                                                <  1:383509/116‑1 (MQ=255)
                                                                                gACAGCGCATTTCTGCGTATCGTTAACACGCCGAAGCGAGAGATTGCCCCGGCTACGCTGAAAAAGCTGGGTGAGTGGGCGATGACGCGCAATAAAAGCATGTTTACCGCCAGCtt                                                                >  2:383509/1‑116 (MQ=255)
                                                                                     cgcATTTCTGCGTATCGTTAACACGCCGAAGCGAGAGATTGCCCCGGCTACGCTGAAAAAGCTGGGTGAGTGGGCGATGACGCGCAATAAAAGCATGTTTACCGCCAGCTTTGATATGGGCCTGAGTCa                                              >  2:71652/1‑129 (MQ=255)
                                                                                     cgcATTTCTGCGTATCGTTAACACGCCGAAGCGAGAGATTGCCCCGGCTACGCTGAAAAAGCTGGGTGAGTGGGCGATGACGCGCAATAAAAGCATGTTTACCGCCAGCTTTGATATGGGCCTGAGTCa                                              <  1:71652/129‑1 (MQ=255)
                                                                                     cgcATTTCTGCGTATCGTTAACACGCCGAAGCGAGAGATTGCCCCGGCTACGCTGAAAAAGCTGGGTGAGTGGGCGATGACGCGCAATAAAAGCATGTTTACCGCCAGCTTTGATATGGGCCTGAGTCAGACGCTTAGc                                    >  2:473516/1‑139 (MQ=255)
                                                                                        aTTTCTGCGTATCGTTAACACGCCGAAGCGAGAGATTGCCCCGGCTACGCTGAAAAAGCTGGGTGAGTGGGCGATGACGCGCAATAAAAGCATGTTTACCGCCAGCTTTGATATGGGCCTGAGTCAGACGCTTAGCGGa                                 <  1:1134887/139‑1 (MQ=255)
                                                                                          ttCTGCGTATCGTTAACACGCCGAAGCGAGAGATTGCCCCGGCTACGCTGAAAAAGCTGGGTGAGTGGGCGATGACGCGCAATAAAAGCATGTTTACCGCCAGCTTTGATATGGGCCTGAGTCAGACGCTTAGCGGACg                               <  2:90379/139‑1 (MQ=255)
                                                                                           tCTGCGTATCGTTAACACGCCGAAGCGAGAGATTGCCCCGGCTACGCTGAAAAAGCTGGGTGAGTGGGCGATGACGCGCAATAAAAGCATGTTTACCGCCAGCTTTGat                                                            <  2:854519/109‑1 (MQ=255)
                                                                                           tCTGCGTATCGTTAACACGCCGAAGCGAGAGATTGCCCCGGCTACGCTGAAAAAGCTGGGTGAGTGGGCGATGACGCGCAATAAAAGCATGTTTACCGCCAGCTTTGat                                                            >  1:854519/1‑109 (MQ=255)
                                                                                           tCTGCGTATCGTTAACACGCCGAAGCGAGAGATTGCCCCGGCTACGCTGAAAAAGCTGGGTGAGTGGGCGATGACGCGCAATAAAAGCATGTTTACCGCCAGCTTTGATATGGGCCTGAGTCAGACGCTTAGCGGACGt                              <  2:133259/139‑1 (MQ=255)
                                                                                            cTGCGTATCGTTAACACGCCGAAGCGAGAGATTGCCCCGGCTACGCTGAAAAAGCTGGGTGAGTGGGCGATGACGCGCAATa                                                                                      <  2:488685/82‑1 (MQ=255)
                                                                                            cTGCGTATCGTTAACACGCCGAAGCGAGAGATTGCCCCGGCTACGCTGAAAAAGCTGGGTGAGTGGGCGATGACGCGCAATa                                                                                      >  1:488685/1‑82 (MQ=255)
                                                                                                    cGTTAACACGCCGAAGCGAGAGATTGCCCCGGCTACGCTGAAAAAGCTGGGTGAGTGGGCGATGAcgcg                                                                                           >  1:3985/1‑69 (MQ=255)
                                                                                                    cGTTAACACGCCGAAGCGAGAGATTGCCCCGGCTACGCTGAAAAAGCTGGGTGAGTGGGCGATGAcgcg                                                                                           <  2:3985/69‑1 (MQ=255)
                                                                                                       tAACACGCCGAAGCGAGAGATTGCCCCGGCTACGCTGAAAAAGCTGGGTGAGTGGGCGATGACGCGCAATAAAAGCATGTTTACCGCCAGCTTTGATATGGGCCTGAGTCAGACGCTTAGCGGACGTGGTTATGAAGCa                  <  1:1292944/139‑1 (MQ=255)
                                                                                                             gCCGAAGCGAGAGATTGCCCCGGCTACGCTGAAAAAGCTGGGTGAGTGGGCGATGACGCGCAATAAAAGCATGTTTACCGCCAGCTTTGATATGGGCCTGAGTCAGACGCTTAg                                     <  2:309205/114‑1 (MQ=255)
                                                                                                             gCCGAAGCGAGAGATTGCCCCGGCTACGCTGAAAAAGCTGGGTGAGTGGGCGATGACGCGCAATAAAAGCATGTTTACCGCCAGCTTTGATATGGGCCTGAGTCAGACGCTTAg                                     >  1:309205/1‑114 (MQ=255)
                                                                                                             gCCGAAGCGAGAGATTGCCCCGGCTACGCTGAAAAAGCTGGGTGAGTGGGCGATGACGCGCAATAAAAGCATGTTTACCGCCAGCTTTGATATGGGCCTGAGTCAGACGCTTAGCGGACGTGGtt                          >  2:1235005/1‑125 (MQ=255)
                                                                                                             gCCGAAGCGAGAGATTGCCCCGGCTACGCTGAAAAAGCTGGGTGAGTGGGCGATGACGCGCAATAAAAGCATGTTTACCGCCAGCTTTGATATGGGCCTGAGTCAGACGCTTAGCGGACGTGGtt                          <  1:1235005/125‑1 (MQ=255)
                                                                                                             gCCGAAGCGAGAGATTGCCCCGGCTACGCTGAAAAAGCTGGGTGAGTGGGCGATGACGCGCAATAAAAGCATGTTTACCGCCAGCTTTGATATGGGCCTGAGTCAGACGCTTAGCGGACGTGGTTATGAAGCATTGAcc            >  1:948076/1‑139 (MQ=255)
                                                                                                              ccGAAGCGAGAGATTGCCCCGGCTACGCTGAAAAAGCTGGGTGAGTGGGCGATGAcg                                                                                             <  2:417353/57‑1 (MQ=255)
                                                                                                              ccGAAGCGAGAGATTGCCCCGGCTACGCTGAAAAAGCTGGGTGAGTGGGCGATGAcg                                                                                             >  1:417353/1‑57 (MQ=255)
                                                                                                              ccGAAGCGAGAGATTGCCCCGGCTACGCTGAAAAAGCTGGGTGAGTGGGCGATGACGCGCAATAAAAGCATGTTTACCGc                                                                      <  2:1367353/80‑1 (MQ=255)
                                                                                                              ccGAAGCGAGAGATTGCCCCGGCTACGCTGAAAAAGCTGGGTGAGTGGGCGATGACGCGCAATAAAAGCATGTTTACCGc                                                                      >  1:1367353/1‑80 (MQ=255)
                                                                                                              ccGAAGCGAGAGATTGCCCCGGCTACGCTGAAAAAGCTGGGTGAGTGGGCGATGACGCGCAATAAAAGCATGTTTACCGCCAGCTTTGATATGGGCCTGAGTCAGACGCtt                                       >  1:844400/1‑111 (MQ=255)
                                                                                                              ccGAAGCGAGAGATTGCCCCGGCTACGCTGAAAAAGCTGGGTGAGTGGGCGATGACGCGCAATAAAAGCATGTTTACCGCCAGCTTTGATATGGGCCTGAGTCAGACGCtt                                       <  2:844400/111‑1 (MQ=255)
                                                                                                              ccGAAGCGAGAGATTGCCCCGGCTACGCTGAAAAAGCTGGGTGAGTGGGCGATGACGCGCAATAAAAGCATGTTTACCGCCAGCTTTGATATGGGCCTGAGTCAGACGCTTAGCGGACGTGGTTATGAAGCATTGAccc           >  2:1159578/1‑139 (MQ=255)
                                                                                                              ccGAAGCGAGAGATTGCCCCGGCTACGCTGAAAAAGCTGGGTGAGTGGGCGATGACGCGCAATAAAAGCATGTTTACCGCCAGCTTTGATATGGGCCTGAGTCAGACGCTTAGCGGACGTGGTTATGAAGCATTGAccc           >  1:1382317/1‑139 (MQ=255)
                                                                                                              ccGAAGCGAGAGATTGCCCCGGCTACGCTGAAAAAGCTGGGTGAGTGGGCGATGACGCGCAATAAAAGCATGTTTACCGCCAGCTTTGATATGGGCCTGAGTCAGACGCTTAGCGGACGTGGTTATGAAGCATTGAccc           >  2:1034232/1‑139 (MQ=255)
                                                                                                               cGAAGCGAGAGATTGCCCCGGCTACGCTGAAAAAGCTGGGTGAGTGGGCGATGACGCGCAATAAAAGCATGTTTACCGCCAGCTTTGATATGGGCCTGAGTCAGACGCTTAGCGGACg                               >  1:1125341/1‑118 (MQ=255)
                                                                                                               cGAAGCGAGAGATTGCCCCGGCTACGCTGAAAAAGCTGGGTGAGTGGGCGATGACGCGCAATAAAAGCATGTTTACCGCCAGCTTTGATATGGGCCTGAGTCAGACGCTTAGCGGACGTGGTTATGAAGCATTGACCCg          >  2:1041136/1‑139 (MQ=255)
                                                                                                               cGAAGCGAGAGATTGCCCCGGCTACGCTGAAAAAGCTGGGTGAGTGGGCGATGACGCGCAATAAAAGCATGTTTACCGCCAGCTTTGATATGGGCCTGAGTCAGACGCTTAGCGGACGTGGTTATGAAGCATTGACCCg          >  1:266494/1‑139 (MQ=255)
                                                                                                               cGAAGCGAGAGATTGCCCCGACTACGCTGAAAAAGCTGGGTGAGTGGGCGATGACGCGCAATAAAAGCATGTTTACCGCCAGCTTTGATATGGGCCTGAGTCAGACGCTTAGCGGACg                               <  2:1125341/118‑1 (MQ=255)
                                                                                                                  aGCGAGAGATTGCCCCGGCTACGCTGAAAAAGCTGGGTGAGTGGGCGATGACGCGCAATAAAAGCATGTTTACCGCCAGCTTTGATATGGGCCTGAGTCAGACGCTTAGCGGACGTGGTTATGAAGCATTGACCCGCtt       <  2:266494/139‑1 (MQ=255)
                                                                                                                       gagaTTGCCCCGGCTACGCTGAAAAAGCTGGGTGAGTGGGCGATGACGCGCAATAAAAGCATGTTTACCGCCAGCTTTGATATGGGCCTGAGTCAGACGCTTAGCGGACGTGGTTATGAAGCATTGACCCGCTtcactc  >  1:1475198/1‑139 (MQ=255)
                                                                                                                              |                                                                                                                                   
CTGGTGGTACGTCGTTTTTCTCTCGTCCTGAAATCAAGGACTTGCTGGCTTATCTGCGCGTGCTGACTAACCCGGACGATGACAGCGCATTTCTGCGTATCGTTAACACGCCGAAGCGAGAGATTGGCCCGGCTACGCTGAAAAAGCTGGGTGAGTGGGCGATGACGCGCAATAAAAGCATGTTTACCGCCAGCTTTGATATGGGCCTGAGTCAGACGCTTAGCGGACGTGGTTATGAAGCATTGACCCGCTTCACTC  >  NC_000913/3961791‑3962048

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ 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