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 F1 I0 R1 4577 57.4 3436498 77.7% 2670158 63.4

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA minE 1,576,207 G→A 77.6% G279G (GGC→GGT)  xapB ← xanthosine transporter

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,576,2070GA77.6% 103.7 / 23.8 80G279G (GGC→GGT) xapBxanthosine transporter
Reads supporting (aligned to +/- strand):  ref base G (11/7);  new base A (52/10);  total (63/17)
Fisher's exact test for biased strand distribution p-value = 5.16e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.93e-01

GCCATAGGCGAAGAAGCCAAAGCGCAGCGTCCAGGCCACCATACTCATCAGCATGACGGTTTTAATGCCAAATCGCTTTAAAAAGAATGGGATAGTCAGTATAAAGCCCACTTCTGCCATCTGTGAAA  >  minE/1576141‑1576268
                                                                  |                                                             
gCCATAGGCGAAGAAGCCAAAGCGCAGCGTCCAGGCCACCATACTCATCAGCATGACGGTTTTAATGc                                                              >  1:1276088/1‑68 (MQ=255)
gCCATAGGCGAAGAAGCCAAAGCGCAGCGTCCAGGCCACCATACTCATCAGCATGACGCTTTTAATGc                                                              >  1:3136816/1‑68 (MQ=255)
     aGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATAccga                                                           >  1:45313/1‑64 (MQ=255)
     aGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATAccga                                                           >  1:1694877/1‑64 (MQ=255)
     aGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATAccga                                                           >  1:2092086/1‑64 (MQ=255)
     aGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATAccga                                                           >  1:293713/1‑64 (MQ=255)
     aGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATAccga                                                           >  1:3048902/1‑64 (MQ=255)
     aGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATAccga                                                           >  1:3321130/1‑64 (MQ=255)
     aGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATAccga                                                           >  1:1369850/1‑64 (MQ=255)
     aGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATAccga                                                           >  1:460814/1‑64 (MQ=255)
     aGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATAccga                                                           >  1:471413/1‑64 (MQ=255)
     aGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATAccga                                                           >  1:559691/1‑64 (MQ=255)
     aGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATAccga                                                           >  1:766413/1‑64 (MQ=255)
     aGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATAccga                                                           >  1:836047/1‑64 (MQ=255)
     aGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATAccga                                                           >  1:901355/1‑64 (MQ=255)
     aGGCAAAGAAGCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATAccga                                                           >  1:1123922/1‑64 (MQ=255)
     aGGCAAAGAAGCCAAAGCGCAGCGTCAACGCCACCATACTCATCAGCATGACGGTTTTAATAccga                                                           >  1:2616232/1‑64 (MQ=255)
      ggCGAAGAAGCCAAAGCGCAGCGTCCAGGCCACCATACTCATCAGCATGACGGTTTTAATGCCAAATCg                                                       >  1:971656/1‑69 (MQ=255)
      ggCGAAGAAGCCAAAGCGCAGCGTCCAGGCCACCATACTCATCAGCATGACGGTTTTAATGCCAAATCg                                                       >  1:447414/1‑69 (MQ=255)
              agCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCaaaa                                               <  1:1417020/69‑1 (MQ=255)
              agCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCaaaa                                               <  1:3425575/69‑1 (MQ=255)
              agCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCaaaa                                               <  1:1292676/69‑1 (MQ=255)
              agCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCaaaa                                               <  1:1474478/69‑1 (MQ=255)
              agCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCaaaa                                               <  1:307447/69‑1 (MQ=255)
              agCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCaaaa                                               <  1:2457768/69‑1 (MQ=255)
              agCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCaaaa                                               <  1:2410078/69‑1 (MQ=255)
              agCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCaaaa                                               <  1:2436243/69‑1 (MQ=255)
                ccAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCaaaa                                               <  1:1293577/67‑1 (MQ=255)
                 cAAAGCGCAGCGTCCAGGCCACCATACTCATCAGCATGACGGTTTTAATGCCGAATCGCTTTAAAAAGa                                            >  1:1796625/1‑69 (MQ=255)
                 cAAAGCGCAGCGTCCAGGCCACCATACTCATCAGCATGACGGTTTTAATGCCAAATCGCTTTAAAAAGa                                            >  1:1642719/1‑69 (MQ=255)
                 cAAAGCGCAGCGTCCAGGCCACCATACTCATCAGCATGACGGTTTTAATGCCAAATCGCTTTAAAAAGa                                            >  1:299675/1‑69 (MQ=255)
                 cAAAGCGCAGCGTCCAGGCCACCATACTCATCAGCATGACGGTTTTAATGCCAAATCGCTTTAAAAAGa                                            >  1:2745226/1‑69 (MQ=255)
                 cAAAGCGCAGCGTCCAGGCCACCATACTCATCAGCATGACGGTTTTAATGCCAAATCGCTTTAAAAAGa                                            >  1:2576754/1‑69 (MQ=255)
                 cAAAGCGCAGCGTCCAGGCCACCATACTCATCAGCATGACGGTTTTAATGCCAAATCGCTTTAAAAAGa                                            >  1:1130899/1‑69 (MQ=255)
                  aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa                                           >  1:2530902/1‑69 (MQ=255)
                  aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa                                           >  1:1313507/1‑69 (MQ=255)
                  aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa                                           >  1:178617/1‑69 (MQ=255)
                  aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa                                           >  1:483524/1‑69 (MQ=255)
                  aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa                                           >  1:1878450/1‑69 (MQ=255)
                  aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa                                           >  1:533103/1‑69 (MQ=255)
                  aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa                                           >  1:3177114/1‑69 (MQ=255)
                  aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa                                           >  1:1979483/1‑69 (MQ=255)
                  aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa                                           >  1:3074580/1‑69 (MQ=255)
                  aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa                                           >  1:1558652/1‑69 (MQ=255)
                  aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa                                           >  1:3014563/1‑69 (MQ=255)
                  aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa                                           >  1:2254404/1‑69 (MQ=255)
                  aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa                                           >  1:1562002/1‑69 (MQ=255)
                  aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa                                           >  1:2798880/1‑69 (MQ=255)
                  aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa                                           >  1:83008/1‑69 (MQ=255)
                  aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa                                           >  1:2699936/1‑69 (MQ=255)
                  aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa                                           >  1:585433/1‑69 (MQ=255)
                  aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa                                           >  1:601121/1‑69 (MQ=255)
                  aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa                                           >  1:807654/1‑69 (MQ=255)
                  aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa                                           >  1:709589/1‑69 (MQ=255)
                  aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa                                           >  1:793250/1‑69 (MQ=255)
                          gCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCaaaa                                               <  1:164067/57‑1 (MQ=255)
                                  gCCACCATACTCATCAGCATGACGGTTTTAATGCCAAATCGCTTTAAAAAGAATGGGATAGTCAGtata                           <  1:2884267/69‑1 (MQ=255)
                                  gCCACCATACTCATCAGCATGACGGTTTTAATGCCAAATCGCTTTAAAAAGAATGGGATAGTCAGtata                           <  1:2690014/69‑1 (MQ=255)
                                  gCCACCATACTCATCAGCATGACGGTTTTAATGCCAAATCGCTTTAAAAAGAATGGGATAGTCAGtata                           <  1:2361101/69‑1 (MQ=255)
                                  gCCACCATACTCATCAGCATGACGGTTTTAATGCCAAATCGCTTTAAAAAGAATGGGATAGTAAGtata                           <  1:441364/69‑1 (MQ=255)
                                  gCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGAACGGTAtc                                    >  1:1036540/1‑59 (MQ=255)
                                  gCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGAACGGTATCGTCAg                               >  1:697944/1‑65 (MQ=255)
                                  gCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGAACGGTATCGTCAGaat                            >  1:1311485/1‑68 (MQ=255)
                                  gCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGAACGGTATCGTCAGaat                            >  1:532439/1‑68 (MQ=255)
                                  gCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGAACGGTATCGTCAGaat                            >  1:1435194/1‑68 (MQ=255)
                                  gCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGAACGGTATCGTCAGaat                            >  1:3161728/1‑68 (MQ=255)
                                  gCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGAACGGTATCGTCAGaat                            >  1:1615956/1‑68 (MQ=255)
                                  gCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGAACGGTATCGTCAGaat                            >  1:602423/1‑68 (MQ=255)
                                  gCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGAACGGTATCGTCAGaat                            >  1:665773/1‑68 (MQ=255)
                                  gCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGAACGGTATCGTCAGaat                            >  1:2556439/1‑68 (MQ=255)
                                  gCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGAACGGTATCGTCAGaat                            >  1:1182347/1‑68 (MQ=255)
                                  gCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGAACGGTATCGTCAGaat                            >  1:2536945/1‑68 (MQ=255)
                                  gCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGAACGGTATCGTCAGaat                            >  1:886772/1‑68 (MQ=255)
                                  gCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGAACGGTATCGTCAGaat                            >  1:2299568/1‑68 (MQ=255)
                                  gCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGAACGGTATCGTCAGaat                            >  1:1143667/1‑68 (MQ=255)
                                  gCCACCATACTCATCAGCATGACGGTTTTAATACAGAAACGCTTCAAAAAGAACGGTATCGTCAGaat                            >  1:1970310/1‑68 (MQ=255)
                                                       aCGGTTTTAATGCCAAATCGCTTTAAAAAGAATGGGATAGTCAGTATAAAGCCCACTTCTGCCATCtg       >  1:3429267/1‑68 (MQ=255)
                                                           ttttAATGCCAAATCGCTTTAAAAAGAATGGGATAGTCAGTATAAAGCCCACTTCTGCCATCTGTGaaa  <  1:235661/69‑1 (MQ=255)
                                                           ttttAATGCCAAATCGCTTTAAAAAGAATGGGATAGTCAGTATAAAGCCCACTTCTGCCATCTGTGaaa  <  1:2650624/69‑1 (MQ=255)
                                                           ttttAATGCCAAATCGCTTTAAAAAGAATGGGATAGTCAGTATAAAGCCCACTTCTGCCATCTGTGaaa  <  1:1784649/69‑1 (MQ=255)
                                                                  |                                                             
GCCATAGGCGAAGAAGCCAAAGCGCAGCGTCCAGGCCACCATACTCATCAGCATGACGGTTTTAATGCCAAATCGCTTTAAAAAGAATGGGATAGTCAGTATAAAGCCCACTTCTGCCATCTGTGAAA  >  minE/1576141‑1576268

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A