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 1,330,293 G→C 47.8% R431R (CGC→CGG)  cpsG ← phosphomannomutase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,330,2930GC47.8% 14.2 / 157.0 129R431R (CGC→CGG) cpsGphosphomannomutase
Reads supporting (aligned to +/- strand):  ref base G (26/41);  new base C (26/35);  total (52/77)
Fisher's exact test for biased strand distribution p-value = 7.20e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.14e-01

Only 100 of 129 total aligned reads displayed.

CAGAGTTCGCGTTCGCGCTTCCATCAGCGGCACATCACCGCGCGATTCCACATTCAGGCGCACCACCGGTTCGGTATTGGAGGTGCGCAGGTTAAAGCGCCAGTCGGCAAAGGTCATGCTGAT  >  minE/1330236‑1330358
                                                         |                                                                 
cagAGTTCGCGTTCGCGCTTCCATCAGCGGCACATCACCGCGCGATTCCACATTCAGGCGCACCACCgg                                                        >  1:582077/1‑69 (MQ=255)
cagAGTTCGCGTTCGCGCTTCCATCAGCGGCACATCACCGCGCGATTCCACATTCAGGCGCACCACCg                                                         >  1:945190/1‑68 (MQ=255)
cagAGTTCGCGTTCGCGCTTCCATCAGCGGCACATCACCGCGCGATTCCACATTCAGGCGCACCACCg                                                         >  1:3086243/1‑68 (MQ=255)
cagAGTTCGCGTTCGCGCTTCCATCAGCGGCACATCACCGCGCGATTCCACATTCAGGCGCACCACCg                                                         >  1:1501596/1‑68 (MQ=255)
    gttcgcgttcgcGCTTCCATCAGCGGCACATCACCGCGCGATTCCACATTCAGGCGCACCACCGGtt                                                      >  1:42286/1‑67 (MQ=255)
    gttcgcgttcgcGCTTCCATCAGCGGCACATCACCGCGCGATTCCACATTCAGGCGCACCACCGGTTc                                                     >  1:37881/1‑68 (MQ=255)
    gttcgcgttcgcGCTTCCATCAGCGGCACATCACCGCGCGATTCCACATTCAGGCGCACCACCGGTTc                                                     >  1:494396/1‑68 (MQ=255)
    gttcgcgttcgcGCTTCCATCAGCGGCACATCACCGCGCGATTCCACATTCAGGCGCACCACCGGTTc                                                     >  1:2824646/1‑68 (MQ=255)
    gttcgcgttcgcGCTTCCATCAGCGGCACATCACCGCGCGATTCCACATTCAGGCGCACCACCGGTTc                                                     >  1:1548775/1‑68 (MQ=255)
    gttcgcgttcgcGCTTCCATCAGCGGCACATCACCGCGCGATTCCACATTCAGGCGCACCACCGGTTc                                                     >  1:773716/1‑68 (MQ=255)
     ttcgcgttcgcgCTTCCATCAGCGGCACATCACCGCGCGATTCCACATTCAGGCGCACCACCGGTTctg                                                   <  1:3214736/69‑3 (MQ=255)
     ttcgcgttcgcgCTTCCATCAGCGGCACATCACCGCGCGATTCCACATTCAGGCGCACCACCGGTTCgg                                                   <  1:2416623/69‑1 (MQ=255)
     ttcgcgttcgcgCTTCCATCAGCGGCACATCACCGCGCGATTCCACATTCAGGCGCACCACCGGTTCgg                                                   <  1:719405/69‑1 (MQ=255)
     ttcgcgttcgcgCTTCCATCAGCGGCACATCACCGCGCGATTCCACATTCAGGCGCACCACCGGTTCgg                                                   <  1:171280/69‑1 (MQ=255)
     ttcgcgttcgcgCTTCCATCAGCGGCACATCACCGCGCGATTCCACATTCAGGCGCACCACCGGTTCgg                                                   >  1:1968814/1‑69 (MQ=255)
     ttcgcgttcgcgCTTCCATCAGCGGCACATCACCGCGCGATTCCACATTCAGGCGCACCACCGGTTCgg                                                   <  1:2660502/69‑1 (MQ=255)
     ttcgcgttcgcgCTTCCATCAGCGGCACATCACCGCGCGATTCCACATTCAGGCGCACCACCGGTTCgg                                                   <  1:656948/69‑1 (MQ=255)
     ttcgcgttcgcgCTTCCATCAGCGGCACATCACCGCGCGATTCCACATTCAGGCGCACCACCGGTTCgg                                                   <  1:2527699/69‑1 (MQ=255)
     ttcgcgttcgcgCTTCCATCAGCGGCACATCACCGCGCGATTCCACATTCAGGCGCACCACCGGTTCgg                                                   <  1:1544138/69‑1 (MQ=255)
     ttcgcgttcgcgCTTCCATCAGCGGCACATCACCGCGCGATTCCACATTCAGGCGCACCACCGGTTCgg                                                   <  1:1485831/69‑1 (MQ=255)
     ttcgcgttcgcgCTTCCATCAGCGGCACATCACCGCGCGATTCCACATTCAGGCGCACCACCGGTTCgg                                                   <  1:787169/69‑1 (MQ=255)
     ttcgcgttcgcgCTTCCATCAGCGGCACATCACCGCGCGATTCCACATTCAGGCGCACCACCGGTTCgg                                                   <  1:2254057/69‑1 (MQ=255)
     ttcgcgttcgcgCTTCCATCAGCGGCACATCACCGCGCGATTCCACATTCAGGCGCACCACCGGTTCgg                                                   <  1:1158180/69‑1 (MQ=255)
     ttcgcgttcgcgCTTCCATCAGCGGCACATCACCGCGCGATTCCACATTCAGGCGCACCACCGGTTCgg                                                   <  1:2279158/69‑1 (MQ=255)
     ttcgcgttcgcgCTTCCATCAGCGGCACATCACCGCGCGATTCCACATTCAGGCGCACCACCGGTTCg                                                    >  1:489769/1‑68 (MQ=255)
      tcgcgttcgcgCTTCCATCAGCGGCACATCACCGCGCGATTCCACATTCAGTCGCACCACCGGTTCGGt                                                  <  1:1583030/69‑1 (MQ=255)
      tcgcgttcgcgCTTCCATCAGCGGCACATCACCGCGCGATTCCACATTCAGGCGCACCACCGGTTCGGt                                                  <  1:525867/69‑1 (MQ=255)
      tcgcgttcgcgCTTCCATCAGCGGCACATCACCGCGCGATTCCACATTCAGGCGCACCACCGGTTCGGt                                                  <  1:2359460/69‑1 (MQ=255)
       cgcgttcgcgCTTCCATCAGCGGCACATCACCGCGCGATTCCACATTCAGGCGCACCACCGGTTCGGt                                                  <  1:2074473/68‑1 (MQ=255)
            tcgcgCTTCCATCAGCGGCAGATCACCGCGTGATTCCACATTCAACCGCACCACCGGTTCGGTGTTGGa                                            <  1:3253008/69‑1 (MQ=255)
            tcgcgCTTCCATCAGCGGCACATCACCGCGTGATTCCACATTCAACCGCACCACCGGTTGGGTGTTGGa                                            <  1:2711020/69‑1 (MQ=255)
            tcgcgCTTCCATCAGCGGCACATCACCGCGTGATTCCACATTCAACCGCACCACCGGTTCGGTGTTGGa                                            <  1:2280865/69‑1 (MQ=255)
            tcgcgCTTCCATCAGCGGCACATCACCGCGTGATTCCACATTCAACCGCACCACCGGTTCGGTGTTGGa                                            <  1:2682390/69‑1 (MQ=255)
            tcgcgCTTCCATCAGCGGCACATCACCGCGTGATTCCACATTCAACCGCACCACCGGTTCGGTGTTGGa                                            <  1:3295237/69‑1 (MQ=255)
            tcgcgCTTCCATCAGCGGCACATCACCGCGTGATTCCACATTCAACCGCACCACCGGTTCGGTGTTGGa                                            <  1:2173541/69‑1 (MQ=255)
            tcgcgCTTCCATCAGCGGCACATCACCGCGTGATTCCACATTCAACCGCACCACCGGTTCGGTGTTGGa                                            <  1:2697082/69‑1 (MQ=255)
            tcgcgCTTCCATCAGCGGCACATCACCGCGTGATTCCACATTCAACCGCACCACCGGTTCGGTGTTGGa                                            <  1:2728727/69‑1 (MQ=255)
            tcgcgCTTCCATCAGCGGCACATCACCGCGTGATTCCACATTCAACCGCACCACCGGTTCGGTGTTGGa                                            <  1:2820640/69‑1 (MQ=255)
            tcgcgCTTCCATCAGCGGCACATCACCGCGTGATTCCACATTCAACCGCACCACCGGTTCGGTGTTGGa                                            <  1:2953898/69‑1 (MQ=255)
            tcgcgCTTCCATCAGCGGCACATCACCGCGTGATTCCACATTCAACCGCACCACCGGTTCGGTGTTGGa                                            <  1:2967059/69‑1 (MQ=255)
            tcgcgCTTCCATCAGCGGCACATCACCGCGTGATTCCACATTCAACCGCACCACCGGTTCGGTGTTGGa                                            <  1:2186149/69‑1 (MQ=255)
            tcgcgCTTCCATCAGCGGCACATCACCGCGTGATTCCACATTCAACCGCACCACCGGTTCGGTGTTGGa                                            <  1:1267697/69‑1 (MQ=255)
            tcgcgCTTCCATCAGCGGCACATCACCGCGTGATTCCACATTCAACCGCACCACCGGTTCGGTGTTGGa                                            <  1:816503/69‑1 (MQ=255)
            tcgcgCTTCCATCAGCGGCACATCACCGCGTGATTCCACATTCAACCGCACCACCGGTTCGGTGTTGGa                                            <  1:787765/69‑1 (MQ=255)
            tcgcgCTTCCATCAGCGGCACATCACCGCGTGATTCCACATTCAACCGCACCACCGGTTCGGTGTTGGa                                            <  1:757745/69‑1 (MQ=255)
            tcgcgCTTCCATCAGCGGCACATCACCGCGTGATTCCACATTCAACCGCACCACCGGTTCGGTGTTGGa                                            <  1:1604972/69‑1 (MQ=255)
            tcgcgCTTCCATCAGCGGCACATCACCGCGTGATTCCACATTCAACCGCACCACCGGTTCGGTGTTGGa                                            <  1:1785917/69‑1 (MQ=255)
            tcgcgCTTCCATCAGCGGCACATCACCGCGTGATTCCACATTCAACCGCACCACCGGTTCGGTGTTGGa                                            <  1:693399/69‑1 (MQ=255)
            tcgcgCTTCCATCAGCGGCACATCACCGCGTGATTCCACATTCAACCGCACCACCGGTTCGGTGTTGGa                                            <  1:663409/69‑1 (MQ=255)
            tcgcgCTTCCATCAGCGGCACATCACCGCGTGATTCCACATTCAACCGCACCACCGGTTCGGTGTTGGa                                            <  1:1890067/69‑1 (MQ=255)
            tcgcgCTTCCATCAGCGGCACATCACCGCGTGATTCCACATTCAACCGCACCACCGGTTCGGTGTTGGa                                            <  1:583703/69‑1 (MQ=255)
            tcgcgCTTCCATCAGCGGCACATCACCGCGTGATTCCACATTCAACCGCACCACCGGTTCGGTGTTGGa                                            <  1:2073922/69‑1 (MQ=255)
            tcgcgCTTCCATCAGCGGCACATCACCGCGTGATTCCACATTCAACCGCACCACCGGTTCGGTGTTGGa                                            <  1:2182274/69‑1 (MQ=255)
            tcgcgCTTCCATCAGCGGCACATCACCGCGTGATTCCACATTCAACCGCACCACCGGTTCGGTGTTGGa                                            <  1:2205092/69‑1 (MQ=255)
            tcgcgCTTCCATCAGCGGCACATCACCGCGTGATTCCACATTCAACCGCACCACAGGTTCGGTGTTGGa                                            <  1:3090356/69‑1 (MQ=255)
             cgcgCTTCCATCAGCGGCACATCACCGCGTGATTCCACATTCAACCGCACCACCGGTTCGGTGTTGGa                                            <  1:3364509/68‑1 (MQ=255)
             cgcgCTTCCATCAGCGGCACATCACCGCGTGATTCCACATTCAACCGCACCACCGGTTCGGTGTTGGa                                            <  1:2436783/68‑1 (MQ=255)
              gcgcTTCCATCAGCGGCACATCACCGCGTGATTCCACATTCAACCGCACCACCGGTTCGGTGTTGGa                                            <  1:1734240/67‑1 (MQ=255)
                   tCCATCAGCGGCACATCACCGCGTGATTCCACATTCAACCGCACCACCGGTTCGGTGTTTGAggag                                        >  1:2504417/1‑64 (MQ=255)
                   tCCATCAGCGGCACATCACCGCGTGATTCCACATTCAACCGCACCACCGGTTCGGTGTTGGAggag                                        >  1:596729/1‑64 (MQ=255)
                   tCCATCAGCGGCACATCACCGCGTGATTCCACATTCAACCGCACCACCGGTTCGGTGTTGGAggag                                        >  1:2558524/1‑64 (MQ=255)
                   tCCATCAGCGGCACATCACCGCGTGATTCCACATTCAACCGCACCACCGGTTCGGTGTTGGAggag                                        >  1:760706/1‑64 (MQ=255)
                   tCCATCAGCGGCACATCACCGCGTGATTCCACATTCAACCGCACCACCGGTTCGGTGTTGGAggag                                        >  1:790005/1‑64 (MQ=255)
                   tCCATCAGCGGCACATCACCGCGTGATTCCACATTCAACCGCACCACCGGTTCGGTGTTGGAggag                                        >  1:2979991/1‑64 (MQ=255)
                   tCCATCAGCGGCACATCACCGCGTGATTCCACATTCAACCGCACCACCGGTTCGGTGTTGGAggag                                        >  1:979566/1‑64 (MQ=255)
                   tCCATCAGCGGCACATCACCGCGTGATTCCACATTCAACCGCACCACCGGTTCGGTGTTGGAggag                                        >  1:1834874/1‑64 (MQ=255)
                   tCCATCAGCGGCACATCACCGCGTGATTCCACATTCAACCGCACCACCGGTTCGGTGTTGGAggag                                        >  1:2803474/1‑64 (MQ=255)
                   tCCATCAGCGGCACATCACCGCGTGATTCCACATTCAACCGCACCACCGGTTCGGTGTTGGAggag                                        >  1:2634682/1‑64 (MQ=255)
                   tCCATCAGCGGCACATCACCGCGTGATTCCACATTCAACCGCACCACCGGTTCGGTGTTGGAggag                                        >  1:1991307/1‑64 (MQ=255)
                   tCCATCAGCGGCACATCACCGCGTGATTCCACATTCAACCGCACCACCGGTTCGGTGTTGGAggag                                        >  1:1078622/1‑64 (MQ=255)
                   tCCATCAGCGGCACATCACCGCGTGATTCCACATTCAACCGCACCACCGGTTCGGTGTTGGAggag                                        >  1:1289451/1‑64 (MQ=255)
                   tCCATCAGCGGCACATCACCGCGTGATTCCACATTCAACCGCACCACCGGTTCGGTGTTGGAggag                                        >  1:1377872/1‑64 (MQ=255)
                   tCCATCAGCGGCACATCACCGCGTGATTCCACATTCAACCGCACCACCGGTTCGGTGTTGGAggag                                        >  1:2010533/1‑64 (MQ=255)
                   tCCATCAGCGGCACATCACCGCGTGATTCCACATTCAACCGCACCACCGGTTCGGTGTTGGAggag                                        >  1:1547909/1‑64 (MQ=255)
                   tCCATCAGCGGCACATCACCGCGTGATTCCACATTCAACCGCACCACCGGTTCGGTGTTGGAggag                                        >  1:2465076/1‑64 (MQ=255)
                   tCCATCAGCGGCACATCACCGCGTGATTCCACATTCAACCGCACCACCGGTTCGGTGTTGGAggag                                        >  1:2276657/1‑64 (MQ=255)
                   tCCATCAGCGGCACATCACCGCGTGATTCCACATTCAACCGCACCACCGGTTCGGTGTTGGAggag                                        >  1:1562179/1‑64 (MQ=255)
                   tCCATCAGCGGCACATCACCGCGTGATTCCACATTCAACCGCACCACCGGTTCGGTGTTGGAggag                                        >  1:1587933/1‑64 (MQ=255)
                            ggCACATCACCGCGCGATTCCACATTCAGGCGCACCACCGGTTCGGTATTGGAGGTGCGCAGGTTAAAg                            >  1:2710097/1‑69 (MQ=255)
                               acaTCACCGCGCGATTCCACATTCAGGCGCACCACCGGTTCGGTATTGGa                                            <  1:2835833/50‑1 (MQ=255)
                               acaTCACCGCGCGATTCCACATTCAGGCGCACCACCGGTTCGGTATTGGAGGTGCGCAGGTTAAAgcgc                         <  1:1483328/69‑1 (MQ=255)
                               acaTCACCGCGCGATTCCACATTCAGGCGCACCACCGGTTCGGTATTGGAGGTGCGCAGGTTAAAgcgc                         <  1:2551808/69‑1 (MQ=255)
                               acaTCACCGCGCGATTCCACATTCAGGCGCACCACCGGTTCGGTATTGGAGGTGCGCAGGTTAAAgcgc                         <  1:824081/69‑1 (MQ=255)
                               acaTCACCGCGCGATTCCACATTCAGGCGCACCACCGGTTCGGTATTGGAGGTGCGCAGGTTAAAgcgc                         <  1:3010089/69‑1 (MQ=255)
                                caTCACCGCGCGATTCCACATTCAGGCGCACCACCGGTTCGGTATTGGAGGTGCGCAGGTTAAAgcgc                         <  1:2003240/68‑1 (MQ=255)
                                    aCCGCGCGATTCCACATTCAGGCGCACCACCGGTTCGGTATTGGAGGTGCGCAGGTTAAAGCGCCAGTc                    >  1:665537/1‑69 (MQ=255)
                                    aCCGCGCGATTCCACATTCAGGCGCACCACCGGTTCGGTATTGGAGGTGCGCAGGTTAAAGCGCCAGTc                    >  1:391454/1‑69 (MQ=255)
                                    aCCGCGCGATTCCACATTCAGGCGCACCACCGGTTCGGTATTGGAGGTGCGCAGGTTAAAGCGCCAGTc                    >  1:831511/1‑69 (MQ=255)
                                    aCCGCGCGATTCCACATTCAGGCGCACCACCGGTTCGGTATTGGAGGTGCGCAGGTTAAAGCGCCAGTc                    >  1:1156901/1‑69 (MQ=255)
                                    aCCGCGCGATTCCACATTCAGGCGCACCACCGGTTCGGTATTGGAGGTGCGCAGGTTAAAGCGCCAGTc                    >  1:950078/1‑69 (MQ=255)
                                             ttCCACATTCAGGCGCACCACCGGTTCGGTATTGGAGGTGCGCAGGTTAAAGCGCCAGTCGGCAAAGGt           <  1:1443364/69‑1 (MQ=255)
                                               ccACATTCAGGCGCACCACCGGTTCGGTATTGGAGGTGCGCAGGTTAAAGCGCCAGTCGGCAAAGGt           <  1:1858743/67‑1 (MQ=255)
                                               ccACATTCAGGCGCACCACCGGTTCGGTATTGGAGGTGCGCAGGTTAAAGCGCCAGTCGGCAAAGGt           <  1:2045885/67‑1 (MQ=255)
                                               ccACATTCAGGCGCACCACCGGTTCGGTATTGGAGGTGCGCAGGTTAAAGCGCCAGTCGGCAAAGGt           <  1:2175386/67‑1 (MQ=255)
                                               ccACATTCAGGCGCACCACCGGTTCGGTATTGGAGGTGCGCAGGTTAAAGCGCCAGTCGGCAAAGGt           <  1:2511927/67‑1 (MQ=255)
                                               ccACATTCAGGCGCACCACCGGTTCGGTATTGGAGGTGCGCAGGTTAAAGCGCCAGTCGGCAAAGGt           <  1:378901/67‑1 (MQ=255)
                                               ccACATTCAGGCGCACCACCGGTTCGGTATTGGAGGTGCGCAGGTTAAAGCGCCAGTCGGCAAAGGt           <  1:2517321/67‑1 (MQ=255)
                                               ccACATTCAGGCGCACCACCGGTTCGGTATTGGAGGTGCGCAGGTTAAAGCGCCAGTCGGCAAAGGt           <  1:2562586/67‑1 (MQ=255)
                                               ccACATTCAGGCGCACCACCGGTTCGGTATTGGAGGTGCGCAGGTTAAAGCGCCAGTCGGCAAAGGt           <  1:1096843/67‑1 (MQ=255)
                                                      cAGGCGCACCACCGGTTCGGTATTGGAGGTGCGCAGGTTAAAGCGCCAGTCGGCAAAGGTCATGc      >  1:1696470/1‑65 (MQ=255)
                                                         |                                                                 
CAGAGTTCGCGTTCGCGCTTCCATCAGCGGCACATCACCGCGCGATTCCACATTCAGGCGCACCACCGGTTCGGTATTGGAGGTGCGCAGGTTAAAGCGCCAGTCGGCAAAGGTCATGCTGAT  >  minE/1330236‑1330358

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A