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 451,701 G→A 40.2% T111T (ACC→ACT)  kdpA ← potassium translocating ATPase, subunit A

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE451,7010GA40.2% 33.9 / 51.7 77T111T (ACC→ACT) kdpApotassium translocating ATPase, subunit A
Reads supporting (aligned to +/- strand):  ref base G (26/20);  new base A (24/7);  total (50/27)
Fisher's exact test for biased strand distribution p-value = 8.79e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.82e-01

AAGCCCGCCATCTGGCTGAAATAGCTCAACGTGGTTTCACCGCTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTAAG  >  minE/451636‑451769
                                                                 |                                                                    
aaGCCCGCCATCTGGCTGAAATAGCTCAACGTGGTTTCACCGCTATAAGATTGCCAGTTGGTATTGGt                                                                    >  1:1127702/1‑68 (MQ=255)
aaGCCCGCCATCTGGCTGAAATAGCTCAACGTGGTTTCACCGCTATAAGATTGCCAGTTGGTATTGGt                                                                    >  1:3302136/1‑68 (MQ=255)
aaGCCCGCCATCTGGCTGAAATAGCTCAACGTGGTTTCACCGCTATAAGATTGCCAGTTGGTATTGGt                                                                    >  1:3346555/1‑68 (MQ=255)
aaGCCCGCCATCTGGCTGAAATAGCTCAACGTGGTTTCACCGCTATAAGATTGCCAGTTGGTATTGGt                                                                    >  1:823254/1‑68 (MQ=255)
aaGCCCGCCATCTGGCTGAAATAGCTCAACGTGGTTTCACCGCTATAAGATTGCCAGTTGGTATTGGt                                                                    >  1:837821/1‑68 (MQ=255)
aaGCCCGCCATCTGGCTGAAATAGCTCAACGTGGTTTCACCGCTATAAGATTGCCAGTTGGTATTGGt                                                                    >  1:1339488/1‑68 (MQ=255)
aaGCCCGCCATCTGGCTGAAATAGCTCAACGTGGTTTCACCGCTATAAGATTGCCAGTTGGTATTGGt                                                                    >  1:1268997/1‑68 (MQ=255)
            tGGCTGAAATAGCTCAACGTGGTTTCACCGCTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGAcg                                                       >  1:2019526/1‑69 (MQ=255)
            tGGCTGAAATAGCTCAACGTGGTTTCACCGCTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGAcg                                                       >  1:1167090/1‑69 (MQ=255)
            tGGCTGAAATAGCTCAACGTGGTTTCACCGCTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGAcg                                                       >  1:2882626/1‑69 (MQ=255)
            tGGCTGAAATAGCTCAACGTGGTTTCACCGCTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGAcg                                                       >  1:1633162/1‑69 (MQ=255)
                       gCTCAACGTGGTTTCACCGCTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAg                                            >  1:2344205/1‑69 (MQ=255)
                          cAACGTGGTTTCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                         <  1:335408/69‑1 (MQ=255)
                          cAACGTGGTTTCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                         <  1:2713434/69‑1 (MQ=255)
                          cAACGTGGTTTCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                         <  1:3345661/69‑1 (MQ=255)
                          cAACGTGGTTTCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                         <  1:80522/69‑1 (MQ=255)
                          cAACGTGGTTTCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                         <  1:1577947/69‑1 (MQ=255)
                          cAACGTGGTTTCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                         <  1:3384919/69‑1 (MQ=255)
                                 gTTTCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                         <  1:1299379/62‑1 (MQ=255)
                                 gTTTCACCGCTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATcc                                  <  1:724761/69‑1 (MQ=255)
                                 gTTTCACCGCTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATcc                                  <  1:1371061/69‑1 (MQ=255)
                                 gTTTCACCGCTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATcc                                  >  1:634185/1‑69 (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                                 >  1:1807783/1‑68 (MQ=255)
                                   ttCACCGCTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATccc                                 >  1:1964040/1‑68 (MQ=255)
                                   ttCACCGCTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATccc                                 >  1:1290318/1‑68 (MQ=255)
                                    tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                         >  1:2606397/1‑59 (MQ=255)
                                    tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                         >  1:1269005/1‑59 (MQ=255)
                                    tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                         >  1:3095959/1‑59 (MQ=255)
                                    tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                         >  1:2476641/1‑59 (MQ=255)
                                    tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                         >  1:2805821/1‑59 (MQ=255)
                                    tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                         >  1:2820109/1‑59 (MQ=255)
                                    tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                         >  1:2816069/1‑59 (MQ=255)
                                    tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                         >  1:2735297/1‑59 (MQ=255)
                                    tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                         >  1:2806931/1‑59 (MQ=255)
                                    tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                         >  1:2737932/1‑59 (MQ=255)
                                    tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                         >  1:3134601/1‑59 (MQ=255)
                                    tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                         >  1:851504/1‑59 (MQ=255)
                                    tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                         >  1:139578/1‑59 (MQ=255)
                                    tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                         >  1:3267730/1‑59 (MQ=255)
                                    tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                         >  1:1475109/1‑59 (MQ=255)
                                    tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                         >  1:158874/1‑59 (MQ=255)
                                    tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                         >  1:2343177/1‑59 (MQ=255)
                                    tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                         >  1:1793545/1‑59 (MQ=255)
                                    tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                         >  1:3214660/1‑59 (MQ=255)
                                    tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                         >  1:779736/1‑59 (MQ=255)
                                    tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                         >  1:1942945/1‑59 (MQ=255)
                                    tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                         >  1:772293/1‑59 (MQ=255)
                                    tCACCGCTATAAGATTGCCAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATT‑Agcgc                                         >  1:2466374/1‑58 (MQ=255)
                                    tCACCGCTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCAc                               <  1:2116362/69‑1 (MQ=255)
                                    tCACCGCTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCAc                               >  1:121223/1‑69 (MQ=255)
                                    tCACCGCTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCAc                               <  1:849708/69‑1 (MQ=255)
                                    tCACCGCTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCAc                               <  1:1291993/69‑1 (MQ=255)
                                    tCACCGCTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCAc                               >  1:296466/1‑69 (MQ=255)
                                    tCACCGCTATAAGATTGCAAGTTGGTGTTAGTGACAAAGCTGACGGCGGTATTGAgcgc                                         >  1:2229700/1‑59 (MQ=255)
                                          cTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGc                         <  1:1284649/69‑1 (MQ=255)
                                          cTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGc                         <  1:3258410/69‑1 (MQ=255)
                                          cTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGc                         <  1:699022/69‑1 (MQ=255)
                                          cTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGc                         <  1:2324143/69‑1 (MQ=255)
                                          cTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGc                         <  1:2240347/69‑1 (MQ=255)
                                          cTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGc                         <  1:1956415/69‑1 (MQ=255)
                                          cTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGc                         <  1:1627980/69‑1 (MQ=255)
                                          cTATAACATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGc                         <  1:1246540/69‑1 (MQ=255)
                                              aaGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGc                         <  1:1688248/65‑1 (MQ=255)
                                                       aGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGc                         <  1:1853787/56‑1 (MQ=255)
                                                          tGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCtgtg         >  1:345354/1‑69 (MQ=255)
                                                          tGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCtgtg         >  1:2500505/1‑69 (MQ=255)
                                                          tGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCtgtg         >  1:2428071/1‑69 (MQ=255)
                                                          tGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCtgtg         >  1:1882251/1‑69 (MQ=255)
                                                               ttGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTa    <  1:3112563/69‑1 (MQ=255)
                                                               ttGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTa    <  1:923869/69‑1 (MQ=255)
                                                               ttGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTa    <  1:1330983/69‑1 (MQ=255)
                                                               ttGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTa    <  1:3247816/69‑1 (MQ=255)
                                                               ttGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTa    <  1:1681746/69‑1 (MQ=255)
                                                                 ggTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGGCAGCCCTGGCAACTGCTGTGGATTAAg  >  1:3014776/1‑69 (MQ=255)
                                                                 ggTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTAAg  >  1:2224943/1‑69 (MQ=255)
                                                                 ggTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTAAg  >  1:94975/1‑69 (MQ=255)
                                                                 ggTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTAAg  >  1:1302430/1‑69 (MQ=255)
                                                                 ggTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTAAg  >  1:1469992/1‑69 (MQ=255)
                                                                 ggTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTAAg  >  1:1538014/1‑69 (MQ=255)
                                                                 ggTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTAAg  >  1:81630/1‑69 (MQ=255)
                                                                 ggTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTAAg  >  1:2321017/1‑69 (MQ=255)
                                                                 ggTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTAAg  >  1:1119906/1‑69 (MQ=255)
                                                                 ggTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTAAg  >  1:386164/1‑69 (MQ=255)
                                                                 ggTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTAAg  >  1:295441/1‑69 (MQ=255)
                                                                 ggTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTAAg  >  1:3208618/1‑69 (MQ=255)
                                                                 ggTGACAAAGCTGACGCCGGTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTAAg  >  1:515123/1‑69 (MQ=255)
                                                                 |                                                                    
AAGCCCGCCATCTGGCTGAAATAGCTCAACGTGGTTTCACCGCTATAAGATTGCCAGTTGGTATTGGTGACAAAGCTGACGGCGGTATTCAGCGCCAGATCCCACGACAGCCCTGGCAACTGCTGTGGATTAAG  >  minE/451636‑451769

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