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
A2 F28 I1 R1 155 60.3 2039550 99.3% 2025273 138.7

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,477,402 T→C K76K (AAA→AAG)  dsdC ← DNA‑binding transcriptional dual regulator DsdC

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,477,4020TC95.6% 144.4 / ‑2.2 45K76K (AAA→AAG) dsdCDNA‑binding transcriptional dual regulator DsdC
Reads supporting (aligned to +/- strand):  ref base T (1/1);  new base C (25/18);  total (26/19)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.98e-01

GCACCAACCAGCATTGGGCGATAGAGGGCCGGGAATACAGAGTTAACGTTCCCGATAACTCCTGATTTTTGATATCAAGAATTTCCTGGTTCAGGGTATCCAGCGACGATTTTAGCGCCCAATAAACACGTTTCCCCTCGTGCGTTAATTCCACTTTGCGATGGGAACGAACAAACAACTGAATGCCCAATTCTTCTTCCAGCTGATTGATACGGTGACTTACCGCACTGGGGCTCAGCGACAATTCCTCTGCCGCCAGGGCG  >  NC_000913/2477272‑2477534
                                                                                                                                  |                                                                                                                                    
gCACCAACCAGCATTGGGCGATAGAGGGCCGGGAATACAGAGTTAACGTTCCCGATAACTCCTGATTTTTGATATCAAGAATTTCCTGGTTCAGGGTATCCAGCGACGTTTTTAGCGCCCAATAAACACGCTTCCCCTCg                                                                                                                             <  1:906608/140‑1 (MQ=255)
gCACCAACCAGCATTGGGCGATAGAGGGCCGGGAATACAGAGTTAACGTTCCCGATAACTCCTGATTTTTGATATCAAGAATTTCCTGGTTCAGGGTATCCAGCGACGATTTTAGCGCCCAATAAACACGCTTCCCCTCg                                                                                                                             <  1:430396/140‑1 (MQ=255)
 cACCAACCAGCATTGGGCGATAGAGGGCCGGGAATACAGAGTTAACGTTCCCGATAACTCCTGATTTTTGATATCAAGAATTTCCTGGTTCAGGGTATCCAGCGACGATTTTAGCGCCCAATAAACACGCTTCCCCTCGt                                                                                                                            >  2:303275/1‑140 (MQ=255)
   ccaaccaGCATTGGGCGATAGAGGGCCGGGAATACAGAGTTAACGTTCCCGATAACTCCTGATTTTTGATATCAAGAATTTCCTGGTTCAGGGTATCCAGCGACGATTTTAGCGCCCAATAAACACGCTTCCCCTCGTGc                                                                                                                          <  1:501844/140‑1 (MQ=255)
      accaGCATTGGGCGATAGAGGGCCGGGAATACAGAGTTAACGTTCCCGATAACTCCTGATTTTTGATATCAAGAATTTCCTGGTTCAGGGTATCCAGCGACGATTTTAGCGCCCAATAAACACGCTTCCCCTCGTGCGtt                                                                                                                       >  2:773813/1‑140 (MQ=255)
                ggCGATAGAGGGCCGGGAATACAGAGTTAACGTTCCCGATAACTCCTGATTTTTGATATCAAGAATTTCCTGGTTCAGGGTATCCAGCGACGATTTTAGCGCCCAATAAACACGCTTCCCCTCGTGCGTTAATTCCACtt                                                                                                             >  2:93412/1‑140 (MQ=255)
                     tAGAGGGCCGGGAATACAGAGTTAACGTTCCCGATAACTCCTGATTTTTGATATCAAGAATTTCCTGGTTCAGGGTATCCAGCGACGATTTTAGCGCCCAATAAACACGCTTCCCCTCGTGCg                                                                                                                         >  2:583981/1‑123 (MQ=255)
                     tAGAGGGCCGGGAATACAGAGTTAACGTTCCCGATAACTCCTGATTTTTGATATCAAGAATTTCCTGGTTCAGGGTATCCAGCGACGATTTTAGCGCCCAATAAACACGCTTCCCCTCGTGCg                                                                                                                         <  1:583981/123‑1 (MQ=255)
                     tAGAGGGCCGGGAATACAGAGTTAACGTTCCCGATAACTCCTGATTTTTGATATCAAGAATTTCCTGGTTCAGGGTATCCAGCGACGATTTTAGCGCCCAATAAACACGCTTCCCCTCGTGCGTTAATTCCACTTTGCGa                                                                                                        >  2:616255/1‑140 (MQ=255)
                     tAGAGGGCCGGGAATACAGAGTTAACGTTCCCGATAACTCCTGATTTTTGATATCAAGAATTTCCTGGTTCAGGGTATCCAGCGACGATTTTAGCGCCCAATAAACACGCTTCCCCTCGTGCGTTAATTCCACTTTGCGa                                                                                                        >  2:152452/1‑140 (MQ=255)
                      agagGGCCGGGAATACAGAGTTAACGTTCCCGATAACTCCTGATTTTTGATATCAAGAATTTCCTGGTTCAGGGTATCCAGCGACGATTTTAGCGCCCAATAAACACGCTTCCCCTCGTGCGTTAATTCCACTTTGCGAt                                                                                                       <  1:303275/140‑1 (MQ=255)
                         gggCCGGGAATACAGAGTTAACGTTCCCGATAACTCCTGATTTTTGATATCAAGAATTTCCTGGTTCAGGGTATCCAGCGACGATTTTAGCGCCCAATAAACACGCTTCCCCTCGTGCGTTAATTCCACTTTGCGATggg                                                                                                    <  1:415972/140‑1 (MQ=255)
                          ggCCGGGAATACAGAGTTAACGTTCCCGATAACTCCTGATTTTTGATATCAAGAATTTCCTGGTTCAGGGTATCCAGCGACGATTTTAGCGCCCAATAAACACGTTTCCCCTCGTGCGTTAATTCCACTTTGCGATGGga                                                                                                   >  2:162170/1‑140 (MQ=255)
                          ggCCGGGAATACAGAGTTAACGTTCCCGATAACTCCTGATTTTTGATATCAAGAATTTCCTGGTTCAGGGTATCCAGCGACGATTTTAGCGCCCAATAAACACGCTTCCCCTCGTGCGTTAATTCCACTTTGCGATGGga                                                                                                   >  2:99470/1‑140 (MQ=255)
                            ccGGGAATACAGAGTTAACGTTCCCGATAACTCCTGATTTTTGATATCAAGAATTTCCTGGTTCAGGGTATCCAGCGACGATTTTAGCGCCCAATAAACACGCTTCCCCTCGTGCGTTAATTCCACTTTGCGATGGgaac                                                                                                 <  1:99470/140‑1 (MQ=255)
                                 aaTACAGAGTTAACGTTCCCGATAACTCCTGATTTTTGATATCAAGAATTTCCTGGTTCAGGGTATCCAGCGACGATTTTAGCGCCCAATAAACACGCTTCCCCTCGTGCGTTAATTCCACTTTGCGATGGGAACGaaca                                                                                            <  1:184887/140‑1 (MQ=255)
                                          ttAACGTTCCCGATAACTCCTGATTTTTGATATCAAGAATTTCCTGGTTCAGGGTATCCAGCGACGATTTTAGCGCCCAATAAACACGCTTCCCCTCGTGCGTTAATTCCACTTTGCGATGGGAACGAACAAACAACTGa                                                                                   >  2:525453/1‑140 (MQ=255)
                                          ttAACGTTCCCGATAACTCCTGATTTTTGATATCAAGAATTTCCTGGTTCAGGGTATCCAGCGACGATTTTAGCGCCCAATAAACACGCTTCCCCTCGTGCGTTAATTCCACTTTGCGATGGGAACGAACAAACAACTGa                                                                                   >  1:340919/1‑140 (MQ=255)
                                                  cccGATAACTCCTGATTTTTGATATCAAGAATTTCCTGGTTCAGGGTATCCAGCGACGATTTTAGCGCCCAATAAACACGCTTCCCCTCGTGCGTTAATTCCACTTTGCGATGGGAACGAACAAACAACTGAATGCCCaa                                                                           >  2:625820/1‑140 (MQ=255)
                                                  cccGATAACTCCTGATTTTTGATATCAAGAATTTCCTGGTTCAGGGTATCCAGCGACGATTTTAGCGCCCAATAAACACGCTTCCCCTCGTGCGTTAATTCCACTTTGCGATGGGAACGAACAAACAACTGAATGCCCaa                                                                           >  1:656321/1‑140 (MQ=255)
                                                  cccGATAACTCCTGATTTTTGATATCAAGAATTTCCTGGTTCAGGGTATCCAGCGACGATTTTAGCGCCCAATAAACACGCTTCCCCTCGTGCGTTAATTCCACTTTGCGATGGGAACGAACAAACAACTGAATGCCCaa                                                                           >  1:605803/1‑140 (MQ=255)
                                                  cccGATAACTCCTGATTTTTGATATCAAGAATTTCCTGGTTCAGGGTATCCAGCGACGATTTTAGCGCCCAATAAACACGCTTCCCCTCGTGCGTTAATT‑CACTTTGCGGTGGGGACGAACCAACAACTGAATGCCCAAt                                                                          >  1:651968/1‑140 (MQ=255)
                                                    cGATAACTCCTGATTTTTGATATCAAGAATTTCCTGGTTCAGGGTATCCAGCGACGATTTTAGCGCCCAATAAACACGCTTCCCCTCGTGCGTTAATTCCACTTTGCGATGGGAACGAACAAACAACTGAATGCCCAAtt                                                                         >  2:303080/1‑140 (MQ=255)
                                                      aTAACTCCTGATTTTTGATATCAAGAATTTCCTGGTTCAGGGTATCCAGCGACGATTTTAGCGCCCAATAAACACGCTTCCCCTCGTGCGTTAATTCCACTTTGCGATGGGAACGAACAAACAACTGAATGCCCAAttct                                                                       <  1:93412/140‑1 (MQ=255)
                                                             cTGATTTTTGATATCAAGAATTTCCTGGTTCAGGGTATCCAGCGACGATTTTAGCGCCCAATAAACACGCTTCCCCTCGTGCGTTAATTCCACTTTGCGATGGGAACGAACAAACAACTGAATGccc                                                                             >  1:620022/1‑127 (MQ=255)
                                                             cTGATTTTTGATATCAAGAATTTCCTGGTTCAGGGTATCCAGCGACGATTTTAGCGCCCAATAAACACGCTTCCCCTCGTGCGTTAATTCCACTTTGCGATGGGAACGAACAAACAACTGAATGccc                                                                             <  2:620022/127‑1 (MQ=255)
                                                             cTGATTTTTGATATCAAGAATTTCCTGGTTCAGGGTATCCAGCGACGATTTTAGCGCCCAATAAACACGCTTCCCCTCGTGCGTTAATTCCACTTTGCGATGGGAACGAACAAACAACTGAATGCCCAATTCTTCTTCCa                                                                >  1:470275/1‑140 (MQ=255)
                                                               gATTTTTGATATCAAGAATTTCCTGGTTCAGGGTATCCAGCGACGATTTTAGCGCCCAATAAACACGCTTCCCCTCGTGCGTTAATTCCACTTTGCGATGGGAACGAACAAACAACTGAATGCCCAATTCTTCTTCCAGc                                                              >  2:44806/1‑140 (MQ=255)
                                                                   tttGATATCAAGAATTTCCTGGTTCAGGGTATCCAGCGACGATTTTAGCGCCCAATAAACACGCTTCCCCTCGTGCGTTAATTCCACTTTGCGATGGGAACGAACAAACAACTGAATGCCCAATTCTTCTTCCAGCtgat                                                          >  2:135102/1‑140 (MQ=255)
                                                                     tGATATCAAGAATTTCCTGGTTCAGGGTATCCAGCGACGATTTTAGCGCCCAATAAACACGCTTCCCCTCGTGCGTTAATTCCACTTTGCGATGGGAACGAACAAACAACTGAATGCCCAATTCTTCTTCCAGCtgattg                                                        >  1:175685/1‑140 (MQ=255)
                                                                        tatCAAGAATTTCCTGGTTCAGGGTATCCAGCGACGATTTTAGCGCCCAATAAACACGCTTCCCCTCGTGCGTTAATTCCACTTTGCGATGGGAACGAACAAACAACTGAATGCCCAATTCTTCTTCCAGCTGATTGATa                                                     <  2:470275/140‑1 (MQ=255)
                                                                          tCAAGAATTTCCTGGTTCAGGGTATCCAGCGACGATTTTAGCGCCCAATAAACACGCTTCCCCTCGTGCGTTAATTCCACTTTGCGATGGGAACGAACAAACAACTGAATGCCCAATTCTTCTTCCAGCTGATTGATACg                                                   >  2:636273/1‑140 (MQ=255)
                                                                          tCAAGAATTTCCTGGTTCAGGGTATCCAGCGACGATTTTAGCGCCCAATAAACACGCTTCCCCTCGTGCGTTAATTCCACTTTGCGATGGGAACGAACAAACAACTGAATGCCCAATTCTTCTTCCAGCTGATTGATACg                                                   <  1:625820/140‑1 (MQ=255)
                                                                            aaGAATTTCCTGGTTCAGGGTATCCAGCGACGATTTTAGCGCCCAATAAACACGCTTCCCCTCGTGCGTTAATTCCACTTTGCGATGGGAACGAACAAACAACTGAATGCCCAATTCTTCTTCCAGCTGATTGATACGGt                                                 <  2:605803/140‑1 (MQ=255)
                                                                                   tCCTGGTTCAGGGTATCCAGCGACGATTTTAGCGCCCAATAAACACGTTTCCCCTCGTGCGTTAATTCCACTTTGCGATGGGAACGAACAAACAACTGAATGCCCAATTCTTCTTCCAGCTGATTGATACGGTGACTTAc                                          <  1:162170/140‑1 (MQ=255)
                                                                                                  tCCAGCGACGATTTTAGCGCCCAATAAACACGCTTCCCCTCGTGCGTTAATTCCACTTTGCGATGGGAACGAACAAACAACTGAATGCCCAATTCTTCTTCCAGCTGATTGATACGGTGACTTACCGCACTGGGGCTCAg                           >  2:210218/1‑140 (MQ=255)
                                                                                                   ccAGCGACGATTTTAGCGCCCAATAAACACGCTTCCCCTCGTGCGTTAATTCCACTTTGCGATGGGAACGAACAAACAACTGAATGCCCAATTCTTCTTCCAGCTGATTGATACGGTGACTTACCGCACTGGGGCTCAGc                          <  2:70121/140‑1 (MQ=255)
                                                                                                        gacgaTTTTAGCGCCCAATAAACACGCTTCCCCTCGTGCGTTAATTCCACTTTGCGATGGGAACGAACAAACAACTGAATGCCCAATTCTTCTTCCAGCTGATTGATACGGTGACTTACCGCACTGGGGCTCAGCGa                        >  1:634181/1‑137 (MQ=255)
                                                                                                        gacgaTTTTAGCGCCCAATAAACACGCTTCCCCTCGTGCGTTAATTCCACTTTGCGATGGGAACGAACAAACAACTGAATGCCCAATTCTTCTTCCAGCTGATTGATACGGTGACTTACCGCACTGGGGCTCAGCGa                        <  2:634181/137‑1 (MQ=255)
                                                                                                            aTTTTAGCGCCCAATAAACACGCTTCCCCTCGTGCGTTAATTCCACTTTGCGATGGGAACGAACAAACAACTGAATGCCCAATTCTTCTTCCAGCTGATTGATACGGTGACTTACCGCACTGGGGCTCAGCGACAATTcc                 >  1:539307/1‑140 (MQ=255)
                                                                                                            aTTTTAGCGCCCAATAAACACGCTTCCCCTCGTGCGTTAATTCCACTTTGCGATGGGAACGAACAAACAACTGAATGCCCAATTCTTCTTCCAGCTGATTGATACGGTGACTTACCGCACTGGGGCTCAGCGACAATTcc                 >  1:606068/1‑140 (MQ=255)
                                                                                                                      ccAATAAACACGCTTCCCCTCGTGCGTTAATTCCACTTTGCGATGGGAACGAACAAACAACTGAATGCCCAATTCTTCTTCCAGCTGATTGATACGGTGACTTACCGCACTGGGGCTCAGCGACAATTCCTCTGCCGCCa       >  1:313741/1‑140 (MQ=255)
                                                                                                                      ccAATAAACACGCTTCCCCTCGTGCGTTAATTCCACTTTGCGATGGGAACGAACAAACAACTGAATGCCCAATTCTTCTTCCAGCTGATTGATACGGTGACTTACCGCACTGGGGCTCAGCGACAATTCCTCTGCCGCCa       <  1:773813/140‑1 (MQ=255)
                                                                                                                        aaTAAACACGCTTCCCCTCGTGCGTTAATTCCACTTTGCGATGGGAACGAACAAACAACTGAATGCCCAATTCTTCTTCCAGCTGATTGATACGGTGACTTACCGCACTGGGGCTCAGCGACAATTCCTCTGCCGCCAgg     <  1:682341/140‑1 (MQ=255)
                                                                                                                           aaaCACGCTTCCCCTCGTGCGTTAATTCCACTTTGCGATGGGAACGAACAAACAACTGAATGCCCAATTCTTCTTCCGGCTGATTGATACGGTGACTTACCGCACTGGGGCTCAGCGACAATTCCTCTGCCGCCAGGGCg  <  1:210218/140‑1 (MQ=255)
                                                                                                                                  |                                                                                                                                    
GCACCAACCAGCATTGGGCGATAGAGGGCCGGGAATACAGAGTTAACGTTCCCGATAACTCCTGATTTTTGATATCAAGAATTTCCTGGTTCAGGGTATCCAGCGACGATTTTAGCGCCCAATAAACACGTTTCCCCTCGTGCGTTAATTCCACTTTGCGATGGGAACGAACAAACAACTGAATGCCCAATTCTTCTTCCAGCTGATTGATACGGTGACTTACCGCACTGGGGCTCAGCGACAATTCCTCTGCCGCCAGGGCG  >  NC_000913/2477272‑2477534

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