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
A17 F60 I1 R1 14 51.9 1820130 99.3% 1807389 139.1

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,577,646 T→C intergenic (‑54/+85) gntK ← / ← gntR D‑gluconate kinase, thermostable/DNA‑binding transcriptional repressor GntR

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,577,6460TC97.5% 144.0 / NA 40intergenic (‑54/+85)gntK/gntRD‑gluconate kinase, thermostable/DNA‑binding transcriptional repressor GntR
Reads supporting (aligned to +/- strand):  ref base T (0/0);  major base C (19/20);  minor base G (0/1);  total (19/21)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

ACTTCACTGGCGACCGCAGATTTGCCGCTGCCCGATACGCCCATCAAGACGTAAATGTGGTGATCATGGTTAGTCGTGCTCAAAGTGGTGCCCCCACAATACAAGAATTAAAAATGTTACGGGTAACTGTTATCGGTAACATTGTCCAGCCGGACAATATCAGAAGCAATATCCATCCATGCCTTAAGTGTATAAGTGTGAGCTACTTCAAATTTGTGGGCTTAAATAGATCCGCCCGGTGACAAGGTGAAACCTAAATCTAACAT  >  NC_000913/3577510‑3577775
                                                                                                                                        |                                                                                                                                 
aCTTCACTGGCGACCGCAGATTTGCCGCTGCCCGATACGCCCATCAAGACGTAAATGTGGTGATCATGGTTAGTCGTGCTCAAAGTGGTGCTCCCACAATCCAAGAATAAAAAATGTAACGGTTAACTGTTATCGGCAAc                                                                                                                                >  2:353304/1‑140 (MQ=255)
           gACCGCAGATTTGCCGCTGCCCGATACGCCCATCAAGACGTAAATGTGGTGATCATGGTTAGTCGTGCTCAAAGTGGTGCCCCCACAATACAAGAATTAAAAATGTTACGGGTAACTGTTATCGGCAACATTGTCCAGcc                                                                                                                     >  2:23580/1‑140 (MQ=255)
            aCCGCAGATTTGCCGCTGCCCGATACGCCCATCAAGACGTAAATGTGGTGATCATGGTTAGTCGTGCTCAAAGTGGTGCCCCCACAATACAAGAATTAAAAATGTTACGGGTAACTGTTATCGGCAACATTGTCCAGCCg                                                                                                                    <  1:142994/140‑1 (MQ=255)
                          gCTGCCCGATACGCCCATCAAGACGTAAATGTGGTGATCATGGTTAGTCGTGCTCAAAGTGGTGCCCCCACAATACAAGAATTAAAAATGTTACGGGTAACTGTTATCGGCAACATTGTCCAGCCGGACAATATCAGAAg                                                                                                      <  2:91195/140‑1 (MQ=255)
                          gCTGCCCGATACGCCCATCAAGACGTAAATGTGGTGATCATGGTTAGTCGTGCTCAAAGTGGTGCCCCCACAATACAAGAATTAAAAATGTTACGGGTAACTGTTATCGGCAACATTGTCCAGCCGGACAATATCAGAAg                                                                                                      <  1:573360/140‑1 (MQ=255)
                            tGCCCGATACGCCCATCAAGACGTAAATGTGGTGATCATGGTTAGTCGTGCTCAAAGTGGTGCCCCCACAATACAAGAATTAAAAATGTTACGGGTAACTGTTATCGGCAACATTGTCCAGCCGGACAATATCAGAAGCa                                                                                                    <  1:191005/140‑1 (MQ=255)
                            tGCCCGATACGCCCATCAAGACATACATGTGGTGATCATGGTTAGTCGTGCTCAAAGTGGTGCCCCCACAATACAAGAATTAAAAATGTTACGGGTAACTGTTATCGGCAACATTGTCCAGCCGGACAATATCAGAAGCa                                                                                                    <  1:263022/140‑1 (MQ=255)
                                       cccATCAAGACGTAAATGTGGTGATCATGGTTAGTCGTGCTCAAAGTGGTGCCCCCACAATACAAGAATTAAAAATGTTACGGGTAACTGTTATCGGCAACATTGTCCAGCCGGACAATATCAGAAGCAATAtccatcca                                                                                         >  2:64970/1‑140 (MQ=255)
                                           tCAAGACGTAAATGTGGTGATCCTGGTTAGTCGTGCTCAAAGTGGTGCCCCCACAATACAAGAATTAAAAATGTTACGGGTAACTGTTATCGGCAACATTGTCCAGCCGGACAATATCAGAAGCAATATCCATCCATGcc                                                                                     <  1:353304/140‑1 (MQ=255)
                                             aaGACGTAAATGTGGTGATCATGGTTAGTCGTGCTCAAAGTGGTGCCCCCACAATACAAGAATTAAAAATGTTACGGGTAACTGTTATCGGCAACATTGTCCAGCCGGACAATATCAGAAGCAATATCCATCCATGCCtt                                                                                   <  1:118093/140‑1 (MQ=255)
                                             aaGACGTAAATGTGGTGATCATGGTTAGTCGTGCTCAAAGTGGTGCCCCCACAATACAAGAATTAAAAATGTTACGGGTAACTGTTATCGGCAACATTGTCCAGCCGGACAATATCAGAAGCAATATCCATCCATGCCtt                                                                                   <  2:553239/140‑1 (MQ=255)
                                             aaGACGTAAATGTGGTGATCATGGTTAGTCGTGCTCAAAGTGGTGCCCCCACAATACAAGAATTAAAAATGTTACGGGTAACTGTTATCGGCAACATTGTCCAGCCGGACAATATCAGAAGCAATATCCATCCATGCCtt                                                                                   <  1:457769/140‑1 (MQ=255)
                                             aaGACGTAAATGTGGTGATCATGGTTAGTCGTGCTCAAAGTGGTGCCCCCACAATACAAGAATTAAAAATGTTACGGGTAACTGTTATCGCCAACATTGTACAGTCGGCCAATATCAGAAGCAATATCCATCCATGCCtt                                                                                   >  2:332880/1‑140 (MQ=255)
                                               gACGTAAATGTGGTGATCATGGTTAGTCGTGCTCAAAGTGGTGCCCCCACAATACAAGAATTAAAAATGTTACGGGTAACTGTTATCGGCAACATTGTCCAGCCGGACAATATCAGAAGCAATATCCATCCATGCCTTaa                                                                                 <  1:461350/140‑1 (MQ=255)
                                               gACGTAAATGTGGTGATCATGGTTAGTCGTGCTCAAAGTGGTGCCCCCACAATACAAGAATTAAAAATGTTACGGGTAACTGTTATCGGCAACATTGTCCAGCCGGACAATATCAGAAGCAATATCCATCCATGCCTTaa                                                                                 <  2:54550/140‑1 (MQ=255)
                                                      aTGTGGTGATCATGGTTAGTCGTGCTCAAAGTGGTGCCCCCACAATACAAGAATTAAAAATGTTACGGGTAACTGTTATCGGCAACATTGTCCAGCCGGACAATATCAGAAGCAATATCCATCCATGCCTTAAGTGtata                                                                          >  2:158511/1‑140 (MQ=255)
                                                          ggtgATCATGGTTAGTCGTGCTCAAAGTGGTGCCCCCACAATACAAGAATTAAAAATGTTACGGGTAACTGTTATCGGCAACATTGTCCAGCCGGACAATATCAGAAGCAATATCCATCCATGCCTTAAGTGTATAAgtg                                                                      <  1:64970/140‑1 (MQ=255)
                                                           gtgATCATGGTTAGTCGTGCTCAAAGTGGTGCCCCCACAATACAAGAATTAAAAATGTTACGGGTAACTGTTATCGGCAACATTGTCCAGCCGGACAATATCAGAAGCAATATCCATCCATGCCTTAAGTGTATAAgtgt                                                                     >  1:877754/1‑140 (MQ=255)
                                                            tgATCATGGTTAGTCGTGCTCAAAGTGGTGCCCCCACAATACAAGAATTAAAAATGTTACGGGTAACTGTTATCGGCAACATTGTCCAGCCGGACAATATCAGAAGCAATATCCATCCATGCCTTAAGTGTATAAGtgtg                                                                    >  1:514895/1‑140 (MQ=255)
                                                              aTCATGGTTAGTCGTGCTCAAAGTGGTGCCCCCACAATACAAGAATTAAAAATGTTACGGGTAACTGTTATCGGCAACATTGTCCAGCCGGACAATATCAGAAGCAATATCCATCCATGCCTTaa                                                                                 <  2:819981/125‑1 (MQ=255)
                                                              aTCATGGTTAGTCGTGCTCAAAGTGGTGCCCCCACAATACAAGAATTAAAAATGTTACGGGTAACTGTTATCGGCAACATTGTCCAGCCGGACAATATCAGAAGCAATATCCATCCATGCCTTaa                                                                                 >  1:819981/1‑125 (MQ=255)
                                                                        gTCGTGCTCAAAGTGGTGCCCCCACAATACAAGAATTAAAAATGTTACGGGTAACTGTTATCGGCAACATTGTCCAGCCGGACAATATCAGAAGCAATATCCATCCATGCCTTAAGTGTATAAGTGTGAg                                                                  <  1:456722/130‑1 (MQ=255)
                                                                        gTCGTGCTCAAAGTGGTGCCCCCACAATACAAGAATTAAAAATGTTACGGGTAACTGTTATCGGCAACATTGTCCAGCCGGACAATATCAGAAGCAATATCCATCCATGCCTTAAGTGTATAAGTGTGAg                                                                  >  2:456722/1‑130 (MQ=255)
                                                                        gTCGTGCTCAAAGTGGTGCCCCCACAATACAAGAATTAAAAATGTTACGGGTAACTGTTATCGGCAACATTGTCCAGCCGGACAATATCAGAAGCAATATCCATCCATGCCTTAAGTGTATAAGTGTGAGCGACTTCaaa                                                        >  2:763507/1‑140 (MQ=255)
                                                                         tCGTGCTCAAAGTGGTGCCCCCACAATACAAGAATTAAAAATGTTACGGGTAACTGTTATCGGCAACATTGTCCAGCCGGACAATATCAGAAGCAATATCCATCCATGCCTTAAGTGTATAAGTGTGAGCTACTTCAAAt                                                       >  1:773028/1‑140 (MQ=255)
                                                                              cTCAAAGTGGTGCCCCCACAATACAAGAATTAAAAATGTTACGGGTAACTGTTATCGGCAACATTGTCCAGCCGGACAATATCAGAAGCAATATCCATCCATGCCTTAAGTGTATAAGTGTGAGCTACTTCAAATTtgt                                                   <  2:175007/139‑1 (MQ=255)
                                                                              cTCAAAGTGGTGCCCCCACAATACAAGAATTAAAAATGTTACGGGTAACTGTTATCGGCAACATTGTCCAGCCGGACAATATCAGAAGCAATATCCATCCATGCCTTAAGTGTATAAGTGTGAGCTACTTCAAATTtgt                                                   >  1:175007/1‑139 (MQ=255)
                                                                               tCAAAGTGGTGCCCCCACAATACAAGAATTAAAAATGTTACGGGTAACTGTTATCGGCAACATTGTCCAGCCGGACAATATCAGAAGCAATATCCATCCATGCCTTAAGTGTATAAGTGTGAGCTACTTCAAATTTGTgg                                                 >  1:27852/1‑140 (MQ=255)
                                                                                 aaaGTGGTGCCCCCACAATACAAGAATTAAAAATGTTACGGGTAACTGTTATCGGCAACATTGTCCAGCCGGACAATATCAGAAGCAATATCCATCCATGCCTTAAGTGTATAAGTGTGAGCTACTTCAAATTTGTGGGc                                               <  2:12405/140‑1 (MQ=255)
                                                                                 aaaGTGGTGCCCCCACAATACAAGAATTAAAAATGTTACGGGTAACTGTTATCGGCAACATTGTCCAGCCGGACAATATCAGAAGCAATATCCATCCATGCCTTAAGTGTATAAGTGTGAGCTACTTCAAATTTGTGGGc                                               <  2:877754/140‑1 (MQ=255)
                                                                                   aGTGGTGCCCCCACAATACAAGAATTAAAAATGTTACGGGTAACTGTTATCGGCAACATTGTCCAGCCGGACAATATCAGAAGCAATATCCATCCATGCCTTAAGTGTATAAGTGTGAGCTACTTCAAATTtg                                                    <  1:881969/133‑1 (MQ=255)
                                                                                   aGTGGTGCCCCCACAATACAAGAATTAAAAATGTTACGGGTAACTGTTATCGGCAACATTGTCCAGCCGGACAATATCAGAAGCAATATCCATCCATGCCTTAAGTGTATAAGTGTGAGCTACTTCAAATTtg                                                    >  2:881969/1‑133 (MQ=255)
                                                                                          cccccACAATACAAGAATTAAAAATGTTACGGGTAACTGTTATCGGCAACATTGTCCAGCCGGACAATATCAGAAGCAATATCCATCCATGCCTTAAGTGAATAGGTGTGAGCTACTACAAACTTGTGGGCTTAAATAGa                                      >  2:327495/1‑140 (MQ=255)
                                                                                                  aTACAAGAATTAAAAATGTTACGGGTAACTGTTATCGGCAACATTGTCCAGCCGGACAATATCAGAAGCAATATCCATCCATGCCTTAAGTGTATAAGTGTGAGCTACTTCAAATTTGTGGGCTTAAATAGATCCGCCCg                              >  1:733673/1‑140 (MQ=255)
                                                                                                       aGAATTAAAAATGTTACGGGTAACTGTTATCGGCAACATTGTCCAGCCGGACAATATCAGAAGCAATATCCATCCATGCCTTAAGTGTATAAGTGTGAGCTACTTCAAATTTGTGGGCTTAAATAGATCCGCCCGGTGAc                         <  2:894493/140‑1 (MQ=255)
                                                                                                        gAATTAAAAATGTTACGGGTAACTGTTATCGGCAACATTGTCCAGCCGGACAATATCAGAAGCAATATCCATCCATGCCTTAAGTGTATAAGTGTGAGCTACTTCAAATTTGTGGGCTTAAATAGATCCGCCCGGTGACa                        <  2:733673/140‑1 (MQ=255)
                                                                                                        gAATTAAAAATGTTACGGGTAACTGTTATCGGCAACATTGTCCAGCCGGACAATATCAGAAGCAATATCCATCCATGCCTTAAGTGTATAAGTGTGAGCTACCTCAAATTAGTGAGCTTAAATATATCCGCCCGGTGACa                        >  1:297565/1‑140 (MQ=255)
                                                                                                                       cGGGTAACTGTTATCGGCAACATTGTCCAGCCGGACAATATCAGAAGCAATATCCATCCATGCCTTAAGTGTATAAGTGTGAGCTACTTCAAATTTGTGGGCTTAAATAGATCCGCCCGGTGACAAGGTGAAACCTAAAt         >  1:730867/1‑140 (MQ=255)
                                                                                                                         ggTAACTGTTATCGCGAACATTATCCAGCTGGACAATATCAGAAGCAATATCCATCCATGCCTTAAGTGTATAAGTGTGAGCTACTTCAAATTTGTGGGCTTAAATAGATCCGCCCGGTGACAAGGTGAAACCTAAATCt       <  1:332880/140‑1 (MQ=255)
                                                                                                                              cTGTTATCGGCAACATTGTCCAGCCGGACAATATCAGAAGCAATATCCATCCATGCCTTAAGTGTATAAGTGTGAGCTACTTCAAATTTGTGGGCTTAAATAGATCCGCCCGGTGACAAGGTGAAACCTAAATCTAACAt  >  1:107750/1‑140 (MQ=255)
                                                                                                                                        |                                                                                                                                 
ACTTCACTGGCGACCGCAGATTTGCCGCTGCCCGATACGCCCATCAAGACGTAAATGTGGTGATCATGGTTAGTCGTGCTCAAAGTGGTGCCCCCACAATACAAGAATTAAAAATGTTACGGGTAACTGTTATCGGTAACATTGTCCAGCCGGACAATATCAGAAGCAATATCCATCCATGCCTTAAGTGTATAAGTGTGAGCTACTTCAAATTTGTGGGCTTAAATAGATCCGCCCGGTGACAAGGTGAAACCTAAATCTAACAT  >  NC_000913/3577510‑3577775

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A