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 I2 R1 766 55.6 2631458 94.7% 2491990 109.9

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,240,984 (G)7→8 coding (1041/1245 nt) sstT → sodium:serine/threonine symporter

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,240,9771.G94.0% 162.8 / 3.2 50coding (1034/1245 nt)sstTsodium:serine/threonine symporter
Reads supporting (aligned to +/- strand):  ref base . (2/1);  new base G (22/25);  total (24/26)
Fisher's exact test for biased strand distribution p-value = 6.02e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.12e-01

TATGGCGGGCGCAGCAATCACTATTACCGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGC‑‑GGG‑GGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGCCATGCAGGTGGTTGCCGTCGGCTTTATCATCGGCGTATTGCAGGACTCTTGCGAAACCGCG  >  NC_000913/3240840‑3241101
                                                                                                                                          |                                                                                                                              
tatGGCGGGCGCCGCAATCACCTTATCCGTGTTCACCCTGGCTGCGGTTTATACGCTGGGTGTTCCGGTCGATGTCCCCACGGTGCTGGTGTTGAGCGTGGAGGCTTCTCTGTGTGCCTGAGTGGCATCcggcgcggc‑‑g                                                                                                                              >  2:889701/1‑139 (MQ=255)
    gcgggcgCAGCAATCACTATTACCGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGC‑‑ggg‑gg                                                                                                                         >  1:1002599/1‑139 (MQ=255)
       ggcgCAGCAATCACTATTACCGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGC‑‑ggg‑ggggg                                                                                                                      >  2:1311344/1‑138 (MQ=255)
        gcgcAGCAATCACTATTACCGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGC‑‑ggg‑gggggt                                                                                                                     <  1:1311344/139‑3 (MQ=255)
        gcgcAGCAATCACTATTACCGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGC‑‑ggg‑gggggt                                                                                                                     <  1:251350/139‑3 (MQ=255)
        gcgcAGCAATCACTATTACCGTGTTGACCCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCCCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGC‑‑ggg‑gggggt                                                                                                                     >  1:746186/1‑137 (MQ=255)
                  cACTATTACCGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCG‑GGG‑GGGGTCTctgctgct                                                                                                            <  2:1002599/139‑1 (MQ=255)
                    cTATTACCGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCG‑GGG‑GGGGTCTCTGCTGCTGa                                                                                                          <  1:766322/139‑1 (MQ=255)
                        tACCGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCG‑GGG‑GGGGTCTCTGCTGCTGATccc                                                                                                      >  1:860308/1‑139 (MQ=255)
                            gtgtTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCG‑GGG‑GGGGTCTCTGCTGCTGATCCCACTg                                                                                                  <  2:725826/139‑1 (MQ=255)
                             tgtTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGC‑‑ggg‑gggggt                                                                                                                     >  1:1143267/1‑116 (MQ=255)
                             tgtTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGC‑‑ggg‑gggggt                                                                                                                     <  2:1143267/118‑3 (MQ=255)
                             tgtTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGC‑‑ggg‑g                                                                                                                          <  1:1235517/113‑1 (MQ=255)
                             tgtTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGC‑‑ggg‑g                                                                                                                          >  2:1235517/1‑113 (MQ=255)
                              gtTGGCGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCG‑GGG‑GGGGTCTCTGCTGCTGATCCCACTGGc                                                                                                <  1:106525/139‑1 (MQ=255)
                              gtTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCG‑GGG‑GGGGTCTCTGCTGCTGATCCCa                                                                                                     <  1:968639/134‑1 (MQ=255)
                              gtTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCG‑GGG‑GGGGTCTCTGCTGCTGATCCCa                                                                                                     >  2:968639/1‑134 (MQ=255)
                              gtTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCG‑GGG‑GGGGTCTCTGCTGCTGATCCCACTGGc                                                                                                <  2:52176/139‑1 (MQ=255)
                               ttGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCG‑GGG‑GGGGTCTCTGCTGCTGATCCCACTGGcc                                                                                               >  1:1195911/1‑139 (MQ=255)
                               ttGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCG‑GGG‑GGGGTCTCTGCTGCTGATCCCACTGGcc                                                                                               >  1:1193031/1‑139 (MQ=255)
                                           gCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCG‑GGG‑GGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTc                                                                                   <  2:26140/139‑1 (MQ=255)
                                                         gggTATTCTGGTCGATCTGCCCACGGCGCTGCCGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGCCGTGGC‑‑GGGCGGCGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGa                                                                     >  2:87022/1‑139 (MQ=255)
                                                         gggTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCG‑GGG‑GGGGTCTCTGCTGCTGATCCCa                                                                                                     <  1:38038/107‑1 (MQ=255)
                                                         gggTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCG‑GGG‑GGGGTCTCTGCTGCTGATCCCa                                                                                                     >  2:38038/1‑107 (MQ=255)
                                                         gggTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCG‑GGG‑GGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGa                                                                     >  1:1041828/1‑139 (MQ=255)
                                                         gggTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGC‑‑ggg‑gggg                                                                                                                       <  1:404025/88‑1 (MQ=255)
                                                         gggTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGC‑‑ggg‑gggg                                                                                                                       >  2:404025/1‑88 (MQ=255)
                                                         gggTATTCCGGCCGTTCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCG‑GGG‑GGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGa                                                                     <  2:746186/139‑1 (MQ=255)
                                                           gTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGC‑‑ggg‑gggggt                                                                                                                     <  1:536729/88‑3 (MQ=255)
                                                           gTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGC‑‑ggg‑gggggt                                                                                                                     >  2:536729/1‑86 (MQ=255)
                                                              ttCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCG‑GGG‑GGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCg                                                                >  2:230854/1‑139 (MQ=255)
                                                              ttCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCG‑GGG‑GGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCg                                                                <  2:1193031/139‑1 (MQ=255)
                                                               tCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCG‑GGG‑GGGGTCTctgctgct                                                                                                            <  2:211748/94‑1 (MQ=255)
                                                               tCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCG‑GGG‑GGGGTCTctgctgct                                                                                                            >  1:211748/1‑94 (MQ=255)
                                                               tCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCG‑GGG‑GGGGTCTctgctg                                                                                                              >  1:1281256/1‑92 (MQ=255)
                                                               tCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCG‑GGG‑GGGGTCTctgctg                                                                                                              <  2:1281256/92‑1 (MQ=255)
                                                                   gTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCG‑GGG‑GGGGTCTCTGCTGCTGATCCCACt                                                                                                   <  2:622302/99‑1 (MQ=255)
                                                                   gTCGATCTGCCCACAGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCG‑GGG‑GGGGTCTCTGCTGCTGATCCCACt                                                                                                   >  1:622302/1‑99 (MQ=255)
                                                                    tCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCG‑GGG‑GGGGTCTCTGCTGCTGATCCCACt                                                                                                   >  2:692570/1‑98 (MQ=255)
                                                                    tCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCG‑GGG‑GGGGTCTCTGCTGCTGATCCCACt                                                                                                   <  1:692570/98‑1 (MQ=255)
                                                                    tCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCG‑GGG‑GGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATACCGCCATGc                                                          >  1:781497/1‑139 (MQ=255)
                                                                    tCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGAATCCGGCGTGGCG‑GGG‑GGGGACTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAAAGATATCGCCATGc                                                          >  2:678269/1‑139 (MQ=255)
                                                                             ccACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGGGCATCCGGCGTGGCG‑GGG‑GGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCg                                                                          >  2:502378/1‑114 (MQ=255)
                                                                             ccACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGGGCATCCGGCGTGGCG‑GGG‑GGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCg                                                                          <  1:502378/114‑1 (MQ=255)
                                                                                cGGCGCTGCTGTTGAGCGTGGTGGCTTCTC‑‑TGTGCCTGTGGCGCATCCGGCGTGGCG‑GGG‑GGGGTCTCTGCTGCTGATCCCACTgg                                                                                                 >  2:1300986/1‑86 (MQ=255)
                                                                                cGGCGCTGCTGTTGAGCGTGGTGGCTTCTC‑‑TGTGCCTGTGGCGCATCCGGCGTGGCG‑GGG‑GGGGTCTCTGCTGCTGATCCCACTgg                                                                                                 <  1:1300986/86‑1 (MQ=255)
                                                                                 ggCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCG‑GGG‑GGGGTCTCTGCTGCTGATCCCa                                                                                                     <  2:653785/83‑1 (MQ=255)
                                                                                 ggCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCG‑GGG‑GGGGTCTCTGCTGCTGATCCCa                                                                                                     >  2:378512/1‑83 (MQ=255)
                                                                                 ggCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCG‑GGG‑GGGGTCTCTGCTGCTGATCCCa                                                                                                     >  1:653785/1‑83 (MQ=255)
                                                                                 ggCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCG‑GGG‑GGGGTCTCTGCTGCTGATCCCa                                                                                                     <  1:378512/83‑1 (MQ=255)
                                                                                 ggCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCG‑GGG‑GGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGCCATGCAGGTGGTTGCCGt                                             <  2:1304459/139‑1 (MQ=255)
                                                                                          gTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCG‑GGG‑GGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGCCATGCAGGTGGTTGCCGTCGGCTTTat                                    <  2:1195911/139‑1 (MQ=255)
                                                                                                  tggtggCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCG‑GGG‑GGGGTCTCTTCTGTTGATCCCa                                                                                                     >  1:561731/1‑66 (MQ=255)
                                                                                                  tggtggCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCG‑GGG‑GGGGTCTCTGCTGTTGATCCCa                                                                                                     <  2:561731/66‑1 (MQ=255)
                                                                                                  tggtggCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCG‑GGG‑GGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGCCATGCAGGTGGTTGCCGTCGGCTTTATCATCGGCg                            <  2:860308/139‑1 (MQ=255)
                                                                                                  tggtggCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGCG‑GGG‑GGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGCCATGCAGGTGGTTGCCGTCGGCTTTATCATCGGCg                            >  1:998359/1‑139 (MQ=255)
                                                                                                                   gCCTGTGGCGCATCCGGCGTGGC‑‑GGG‑GGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGCCATGCAGGTGGTTGCCGTCGGCTTTATCATCGGCGTATTGCAGGACTCTTGCg          >  2:1039289/1‑139 (MQ=255)
                                                                                                                        tgGCGCATCCGGCGTGGCGGGGG‑GGGGTCTCTGCTGCTGATCCCACTGGc                                                                                                >  2:154554/1‑50 (MQ=255)
                                                                                                                        tgGCGCATCCGGCGTGGCGGGGG‑GGGGTCTCTGCTGCTGATCCCACTGGc                                                                                                <  1:154554/50‑1 (MQ=255)
                                                                                                                           cgcATCCGGCGTGGC‑‑GGG‑GGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGCCATGCAGGTGGTTGCCGTCGGCTTTATCATCGGCGTATTGCAGGACTCTTGCGAAACcgcg  <  1:1039289/139‑1 (MQ=255)
                                                                                                                               tCCGGCGTGGCG‑GGG‑GGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGCCATGCAGGTGGTTGCCGTCGGCTTTatcat                                 <  2:1241243/105‑1 (MQ=255)
                                                                                                                               tCCGGCGTGGCG‑GGG‑GGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGCCATGCAGGTGGTTGCCGTCGGCTTTatcat                                 >  1:1241243/1‑105 (MQ=255)
                                                                                                                                    cGTGGCG‑GGG‑GGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGaa                                                                        <  1:963097/61‑1 (MQ=255)
                                                                                                                                    cGTGGCG‑GGG‑GGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGaa                                                                        >  2:963097/1‑61 (MQ=255)
                                                                                                                                          |                                                                                                                              
TATGGCGGGCGCAGCAATCACTATTACCGTGTTGACGCTGGCTGCGGTTAATACGCTGGGTATTCCGGTCGATCTGCCCACGGCGCTGCTGTTGAGCGTGGTGGCTTCTCTGTGTGCCTGTGGCGCATCCGGCGTGGC‑‑GGG‑GGGGTCTCTGCTGCTGATCCCACTGGCCTGTAATATGTTCGGTATTTCGAACGATATCGCCATGCAGGTGGTTGCCGTCGGCTTTATCATCGGCGTATTGCAGGACTCTTGCGAAACCGCG  >  NC_000913/3240840‑3241101

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A