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 451,698 A→G 42.4% N112N (AAT→AAC)  kdpA ← potassium translocating ATPase, subunit A

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE451,6980AG42.4% 19.8 / 54.5 73N112N (AAT→AAC) kdpApotassium translocating ATPase, subunit A
Reads supporting (aligned to +/- strand):  ref base A (27/15);  new base G (24/7);  total (51/22)
Fisher's exact test for biased strand distribution p-value = 3.04e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.68e-01

AAGCCCGCCATCTGGCTGAAATAGCTCAACGTGGTTTCACCGCTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTG  >  minE/451636‑451762
                                                              |                                                                
aaGCCCGCCATCTGGCTGAAATAGCTCAACGTGGTTTCACCGCTATAAGATTGCCAGTTGGTATTGGt                                                             >  1:1127702/1‑68 (MQ=255)
aaGCCCGCCATCTGGCTGAAATAGCTCAACGTGGTTTCACCGCTATAAGATTGCCAGTTGGTATTGGt                                                             >  1:1268997/1‑68 (MQ=255)
aaGCCCGCCATCTGGCTGAAATAGCTCAACGTGGTTTCACCGCTATAAGATTGCCAGTTGGTATTGGt                                                             >  1:837821/1‑68 (MQ=255)
aaGCCCGCCATCTGGCTGAAATAGCTCAACGTGGTTTCACCGCTATAAGATTGCCAGTTGGTATTGGt                                                             >  1:823254/1‑68 (MQ=255)
aaGCCCGCCATCTGGCTGAAATAGCTCAACGTGGTTTCACCGCTATAAGATTGCCAGTTGGTATTGGt                                                             >  1:3302136/1‑68 (MQ=255)
aaGCCCGCCATCTGGCTGAAATAGCTCAACGTGGTTTCACCGCTATAAGATTGCCAGTTGGTATTGGt                                                             >  1:3346555/1‑68 (MQ=255)
aaGCCCGCCATCTGGCTGAAATAGCTCAACGTGGTTTCACCGCTATAAGATTGCCAGTTGGTATTGGt                                                             >  1:1339488/1‑68 (MQ=255)
            tGGCTGAAATAGCTCAACGTGGTTTCACCGCTATAAGATTGCCAGTTGGTAtt                                                                >  1:848251/1‑53 (MQ=255)
            tGGCTGAAATAGCTCAACGTGGTTTCACCGCTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGAcg                                                >  1:1167090/1‑69 (MQ=255)
            tGGCTGAAATAGCTCAACGTGGTTTCACCGCTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGAcg                                                >  1:2882626/1‑69 (MQ=255)
            tGGCTGAAATAGCTCAACGTGGTTTCACCGCTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGAcg                                                >  1:2019526/1‑69 (MQ=255)
            tGGCTGAAATAGCTCAACGTGGTTTCACCGCTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGAcg                                                >  1:1633162/1‑69 (MQ=255)
                       gCTCAACGTGGTTTCACCGCTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAg                                     >  1:2344205/1‑69 (MQ=255)
                          cAACGTGGTTTCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                  <  1:1577947/69‑1 (MQ=255)
                          cAACGTGGTTTCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                  <  1:3384919/69‑1 (MQ=255)
                          cAACGTGGTTTCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                  <  1:335408/69‑1 (MQ=255)
                          cAACGTGGTTTCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                  <  1:3345661/69‑1 (MQ=255)
                          cAACGTGGTTTCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                  <  1:80522/69‑1 (MQ=255)
                          cAACGTGGTTTCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                  <  1:2713434/69‑1 (MQ=255)
                                 gTTTCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                  <  1:1299379/62‑1 (MQ=255)
                                 gTTTCACCGCTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATcc                           <  1:724761/69‑1 (MQ=255)
                                 gTTTCACCGCTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATcc                           >  1:634185/1‑69 (MQ=255)
                                 gTTTCACCGCTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATcc                           <  1:1371061/69‑1 (MQ=255)
                                 gTTTCACCGCTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATcc                           >  1:3067735/1‑69 (MQ=255)
                                   ttCACCGCTATAAGATTGCCAGTTGGTATTGGTGa                                                           >  1:272086/1‑35 (MQ=255)
                                   ttCACCGCTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATccc                          >  1:2726726/1‑68 (MQ=255)
                                   ttCACCGCTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATccc                          >  1:2425639/1‑68 (MQ=255)
                                   ttCACCGCTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATccc                          >  1:1290318/1‑68 (MQ=255)
                                   ttCACCGCTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATccc                          >  1:1964040/1‑68 (MQ=255)
                                   ttCACCGCTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATccc                          >  1:1807783/1‑68 (MQ=255)
                                    tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                  >  1:2737932/1‑59 (MQ=255)
                                    tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                  >  1:2805821/1‑59 (MQ=255)
                                    tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                  >  1:2806931/1‑59 (MQ=255)
                                    tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                  >  1:3214660/1‑59 (MQ=255)
                                    tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                  >  1:2816069/1‑59 (MQ=255)
                                    tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                  >  1:2820109/1‑59 (MQ=255)
                                    tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                  >  1:851504/1‑59 (MQ=255)
                                    tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                  >  1:3095959/1‑59 (MQ=255)
                                    tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                  >  1:3134601/1‑59 (MQ=255)
                                    tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                  >  1:779736/1‑59 (MQ=255)
                                    tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                  >  1:3267730/1‑59 (MQ=255)
                                    tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                  >  1:772293/1‑59 (MQ=255)
                                    tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                  >  1:2606397/1‑59 (MQ=255)
                                    tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                  >  1:2735297/1‑59 (MQ=255)
                                    tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                  >  1:2476641/1‑59 (MQ=255)
                                    tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                  >  1:2343177/1‑59 (MQ=255)
                                    tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                  >  1:1269005/1‑59 (MQ=255)
                                    tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                  >  1:139578/1‑59 (MQ=255)
                                    tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                  >  1:1475109/1‑59 (MQ=255)
                                    tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                  >  1:158874/1‑59 (MQ=255)
                                    tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                  >  1:1793545/1‑59 (MQ=255)
                                    tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                  >  1:1942945/1‑59 (MQ=255)
                                    tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATT‑Agcgc                                  >  1:2466374/1‑58 (MQ=255)
                                    tCACCGCTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCAc                        >  1:121223/1‑69 (MQ=255)
                                    tCACCGCTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCAc                        <  1:849708/69‑1 (MQ=255)
                                    tCACCGCTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCAc                        <  1:1291993/69‑1 (MQ=255)
                                    tCACCGCTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCAc                        <  1:2116362/69‑1 (MQ=255)
                                    tCACCGCTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCAc                        >  1:296466/1‑69 (MQ=255)
                                    tCACCGCTATAAGATTGCAAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                  >  1:2229700/1‑59 (MQ=255)
                                          cTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGc                  <  1:1956415/69‑1 (MQ=255)
                                          cTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGc                  <  1:3258410/69‑1 (MQ=255)
                                          cTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGc                  <  1:1627980/69‑1 (MQ=255)
                                          cTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGc                  <  1:699022/69‑1 (MQ=255)
                                          cTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGc                  <  1:2240347/69‑1 (MQ=255)
                                          cTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGc                  <  1:2324143/69‑1 (MQ=255)
                                          cTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGc                  <  1:1284649/69‑1 (MQ=255)
                                          cTATAACATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGc                  <  1:1246540/69‑1 (MQ=255)
                                              aaGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGc                  <  1:1688248/65‑1 (MQ=255)
                                                       aGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGc                  <  1:1853787/56‑1 (MQ=255)
                                                          tGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCtgtg  >  1:2500505/1‑69 (MQ=255)
                                                          tGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCtgtg  >  1:2428071/1‑69 (MQ=255)
                                                          tGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCtgtg  >  1:345354/1‑69 (MQ=255)
                                                          tGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCtgtg  >  1:1882251/1‑69 (MQ=255)
                                                              |                                                                
AAGCCCGCCATCTGGCTGAAATAGCTCAACGTGGTTTCACCGCTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTG  >  minE/451636‑451762

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A