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 1,876,368 A→G 27.0% T352T (ACT→ACC)  eno ← enolase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,876,3680AG27.0% 145.8 / 55.6 133T352T (ACT→ACC) enoenolase
Reads supporting (aligned to +/- strand):  ref base A (29/68);  new base G (12/24);  total (41/92)
Fisher's exact test for biased strand distribution p-value = 8.33e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 135 total aligned reads displayed.

TTCGCCAGAACGGTGAGAGATAACTGCAGTGTAGCCAGCATCTTTCGCCATCTTGATTGCAGCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTTGATCAGGATGGAGTTAGCGATACCTTTTTCGATACC  >  minE/1876302‑1876436
                                                                  |                                                                    
ttCGCCAGAACGGTGAGAGATAACTGCAGTGTAGCCAGCATCTTTCGCCATCTTGATTGCAGCCAGAGt                                                                    >  1:1445991/1‑69 (MQ=255)
               agagaTAACTGCAGTGTAGCCAGCGTCTTTCGCCATCTTAATAGCAGCCAGGGTTTCGGt                                                              <  1:1876623/60‑1 (MQ=255)
               agagaTAACTGCAGTGTAGCCAGCGTCTTTCGCCATCTTAATAGCAGCCAGGGTTTCGGt                                                              <  1:2395280/60‑1 (MQ=255)
               agagaTAACTGCAGTGTAGCCAGCGTCTTTCGCCATCTTAATAGCAGCCAGGGTTTCGGt                                                              <  1:1734726/60‑1 (MQ=255)
               agagaTAACTGCAGTGTAGCCAGCGTCTTTCGCCATCTTAATAGCAGCCAGGGTTTCGGt                                                              <  1:2273455/60‑1 (MQ=255)
               agagaTAACTGCAGTGTAGCCAGCGTCTTTCGCCATCTTAATAGCAGCCAGGGTTTCGGt                                                              <  1:2583812/60‑1 (MQ=255)
               agagaTAACTGCAGTGTAGCCAGCGTCTTTCGCCATCTTAATAGCAGCCAGGGTTTCGGt                                                              <  1:1801120/60‑1 (MQ=255)
               agagaTAACTGCAGTGTAGCCAGCGTCTTTCGCCATCTTAATAGCAGCCAGGGTTTCGGt                                                              <  1:2740610/60‑1 (MQ=255)
               agagaTAACTGCAGTGTAGCCAGCGTCTTTCGCCATCTTAATAGCAGCCAGGGTTTCGGt                                                              <  1:2905728/60‑1 (MQ=255)
               agagaTAACTGCAGTGTAGCCAGCGTCTTTCGCCATCTTAATAGCAGCCAGGGTTTCGGt                                                              <  1:2301444/60‑1 (MQ=255)
               agagaTAACTGCAGTGTAGCCAGCGTCTTTCGCCATCTTAATAGCAGCCAGGGTTTCGGt                                                              <  1:3144923/60‑1 (MQ=255)
               agagaTAACTGCAGTGTAGCCAGCGTCTTTCGCCATCTTAATAGCAGCCAGGGTTTCGGt                                                              <  1:1331990/60‑1 (MQ=255)
               agagaTAACTGCAGTGTAGCCAGCGTCTTTCGCCATCTTAATAGCAGCCAGGGTTTCGGt                                                              <  1:372551/60‑1 (MQ=255)
               agagaTAACTGCAGTGTAGCCAGCGTCTTTCGCCATCTTAATAGCAGCCAGGGTTTCGGt                                                              <  1:1257693/60‑1 (MQ=255)
               agagaTAACTGCAGTGTAGCCAGCGTCTTTCGCCATCTTAATAGCAGCCAGGGTTTCGGt                                                              <  1:1878094/60‑1 (MQ=255)
               agagaTAACTGCAGTGTAGCCAGCGTCTTTCGCCATCTTAATAGCAGCCAGGGTTTCGGt                                                              <  1:766802/60‑1 (MQ=255)
               agagaTAACTGCAGTGTAGCCAGCGTCTTTCGCCATCTTAATAGCAGCCAGGGTTTCGGt                                                              <  1:826317/60‑1 (MQ=255)
               agagaTAACTGCAGTGTAGCCAGCGTCTTTCGCCATCTTAATAGCAGCCAGGGCTTCGGt                                                              <  1:438216/60‑1 (MQ=255)
                gagaTAACTGCAGTGTAGCCAGCGTCTTTCGCCATCTTAATAGCAGCCAGGGTTTCGGt                                                              <  1:590673/59‑1 (MQ=255)
                 agaTAACTGCAGTGTAGCCAGCATCTTTCGCCATCTTGATTGCAGCCAGAGTTTCGGTCAGAGAACCg                                                    <  1:597209/68‑1 (MQ=255)
                 agaTAACTGCAGTGTAGCCAGCATCTTTCGCCATCTTGATTGCAGCCAGAGTTTCGGTCAGAGAACCg                                                    <  1:2049076/68‑1 (MQ=255)
                 agaTAACTGCAGTGTAGCCAGCATCTTTCGCCATCTTGATTGCAGCCAGAGTTTCGGTCAGAGAACCg                                                    <  1:804237/68‑1 (MQ=255)
                 agaTAACTGCAGTGTAGCCAGCATCTTTCGCCATCTTGATTGCAGCCAGAGTTTCGGTCAGAGAACCg                                                    <  1:1904490/68‑1 (MQ=255)
                     aaCTGCAGTGTAGCCAGCATCTTTCGCCATCTTGATTGCAGCCAGAGTTTCGGTCAGAGAACCGATCTg                                               >  1:1414452/1‑69 (MQ=255)
                     aaCTGCAGTGTAGCCAGCATCTTTCGCCATCTTGATTGCAGCCAGAGTTTCGGTCAGAGAACCGATCTg                                               >  1:3166068/1‑69 (MQ=255)
                     aaCTGCAGTGTAGCCAGCATCTTTCGCCATCTTGATTGCAGCCAGAGTTTCGGTCAGAGAACCGATCTg                                               >  1:1183545/1‑69 (MQ=255)
                             tgtAGCCAGCGTCTTTCGCCATCTTAATAGCAGCCAGGGTTTCGGTCAGAGAACCGATCTGGTTGAAt                                        >  1:2199138/1‑68 (MQ=255)
                             tgtAGCCAGCGTCTTTCGCCATCTTAATAGCAGCCAGGGTTTCGGTCAGAGAACCGATCTGGTTGAAt                                        >  1:2154485/1‑68 (MQ=255)
                             tgtAGCCAGCGTCTTTCGCCATCTTAATAGCAGCCAGGGTTTCGGTCAGAGAACCGATCTGGTTGAAt                                        >  1:1007080/1‑68 (MQ=255)
                             tgtAGCCAGCGTCTTTCGCCATCTTAATAGCAGCCAGGGTTTCGGTCAGAGAACCGATCTGGTTGAAt                                        >  1:2405456/1‑68 (MQ=255)
                             tgtAGCCAGCGTCTTTCGCCATCTTAATAGCAGCCAGGGTTTCGGTCAGAGAACCGATCTGGTTGAAt                                        >  1:2436807/1‑68 (MQ=255)
                             tgtAGCCAGCGTCTTTCGCCATCTTAATAGCAGCCAGGGTTTCGGTCAGAGAACCGATCTGGTTGAAt                                        >  1:2703956/1‑68 (MQ=255)
                             tgtAGCCAGCGTCTTTCGCCATCTTAATAGCAGCCAGGGTTTCGGTCAGAGAACCGATCTGGTTGAAt                                        >  1:928691/1‑68 (MQ=255)
                             tgtAGCCAGCGTCTTTCGCCATCTTAATAGCAGCCAGGGTTTCGGTCAGAGAACCGATCTGGTTGAAt                                        >  1:2133811/1‑68 (MQ=255)
                             tgtAGCCAGCGTCTTTCGCCATCTTAATAGCAGCCAGGGTTTCGGTCAGAGAACCGATCTGGTTGAAt                                        >  1:1095071/1‑68 (MQ=255)
                              gtAGCCAGCATCTTTCGCCATCTTGATTGCAGCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAAttt                                      <  1:627555/69‑1 (MQ=255)
                              gtAGCCAGCATCTTTCGCCATCTTGATTGCAGCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAAttt                                      <  1:296716/69‑1 (MQ=255)
                               tAGCCAGCATCTTTCGCCATCTTGATTGCAGCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTTg                                     <  1:1001729/69‑1 (MQ=255)
                               tAGCCAGCATCTTTCGCCATCTTGATTGCAGCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTTg                                     >  1:3335871/1‑69 (MQ=255)
                               tAGCCAGCATCTTTCGCCATCTTGATTGCAGCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTTg                                     >  1:2853494/1‑69 (MQ=255)
                                    aGCATCTTTCGCCATCTTGATTGCAGCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTTGATCAg                                <  1:883792/69‑1 (MQ=255)
                                    aGCATCTTTCGCCATCTTGATTGCAGCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTTGATCAg                                <  1:2011525/69‑1 (MQ=255)
                                    aGCATCTTTCGCCATCTTGATTGCAGCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTTGATCAg                                <  1:868922/69‑1 (MQ=255)
                                       aTCTTTCGCCATCTTGATTGCAGCCAGAGTTTCGGTCAgaga                                                        >  1:3068952/1‑42 (MQ=255)
                                       aTCTTTCGCCATCTTGATTGCAGCCAGAGTTTCGGTCAgaga                                                        >  1:2570030/1‑42 (MQ=255)
                                       aTCTTTCGCCATCTTGATTGCAGCCAGAGTTTCGGTCAgaga                                                        >  1:524215/1‑42 (MQ=255)
                                       aTCTTTCGCCATCTTGATTGCAGCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTTGATCAGGa                              >  1:2952894/1‑68 (MQ=255)
                                       aTCTTTCGACATCTTGATTGCAGCCAGAGTTTCGGTCAgaga                                                        >  1:1810599/1‑42 (MQ=255)
                                          tttCGCCATCTTGATTGCAGCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTTGATCAGGATgg                           <  1:1691163/68‑1 (MQ=255)
                                          tttCGCCATCTTGATTGCAGCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTTGATCAGGATgg                           <  1:788746/68‑1 (MQ=255)
                                          tttCGCCATCTTGATTGCAGCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTTGATCAGGATgg                           <  1:3252607/68‑1 (MQ=255)
                                          tttCGCCATCTTGATTGCAGCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTTGATCAGGATgg                           <  1:3105312/68‑1 (MQ=255)
                                              gCCATCTTGATTGCAGCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTTGATCAGGATGGAGtt                       <  1:589984/68‑1 (MQ=255)
                                              gCCATCTTGATTGCAGCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTTGATCAGGATGGAGtt                       <  1:2668444/68‑1 (MQ=255)
                                              gCCATCTTGATTGCAGCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTTGATCAGGATGGAGtt                       <  1:2532836/68‑1 (MQ=255)
                                              gCCATCTTGATTGCAGCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTTGATCAGGATGGAGtt                       <  1:2255828/68‑1 (MQ=255)
                                                cATCTTGATTGCAGCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTTGATCAGGATGGAGTTAGc                    <  1:1387316/69‑1 (MQ=255)
                                                cATCTTGATTGCAGCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTTGATCAGGATGGAGTTAGc                    <  1:2874266/69‑1 (MQ=255)
                                                cATCTTGATTGCAGCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTTGATCAGGATGGAGTTAGc                    <  1:3083836/69‑1 (MQ=255)
                                                cATCTTGATTGCAGCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTTGATCAGGATGGAGTTAGc                    <  1:883622/69‑1 (MQ=255)
                                                cATCTTGATTGCAGCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTTGATCAGGATGGAGTTAGc                    <  1:527949/69‑1 (MQ=255)
                                                   cTTGATTGCAGCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTTGATCAGGATGGAGTTAGCGAt                 <  1:1406289/69‑1 (MQ=255)
                                                   cTTGATTGCAGCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTTGATCAGGATGGAGTTAGCGAt                 <  1:32477/69‑1 (MQ=255)
                                                   cTTGATTGCAGCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTTGATCAGGATGGAGTTAGCGAt                 <  1:339787/69‑1 (MQ=255)
                                                   cTTGATTGCAGCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTTGATCAGGATGGAGTTAGCGAt                 <  1:1166781/69‑1 (MQ=255)
                                                   cTTGATTGCAGCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTTGATCAGGATGGAGTTAGCGAt                 <  1:691914/69‑1 (MQ=255)
                                                   cTTGATTGCAGCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTTGATCAGGATGGAGTTAGCGAt                 <  1:79773/69‑1 (MQ=255)
                                                   cTTGATTGCAGCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTTGATCAGGATGGAGTTAGCGAt                 <  1:2778501/69‑1 (MQ=255)
                                                   cTTGATTGCAGCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTTGATCAGGATGGAGTTAGCGAt                 <  1:1483505/69‑1 (MQ=255)
                                                   cTTGATTGCAGCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTTGATCAGGATGGAGTTAGCGAt                 <  1:1192875/69‑1 (MQ=255)
                                                   cTTGATTGCAGCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTTGATCAGGATGGAGTTAGCGAt                 <  1:1009434/69‑1 (MQ=255)
                                                   cTTGATTGCAGCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTTGATCAGGATGGAGTTAGCGAt                 <  1:2569472/69‑1 (MQ=255)
                                                   cTTGATTGCAGCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTTGATCAGGATGGAGTTAGCGAt                 <  1:1665121/69‑1 (MQ=255)
                                                   cTTGATTGCAGCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTTGATCAGGATGGAGTTAGCGAt                 <  1:419921/69‑1 (MQ=255)
                                                   cTTGATTGCAGCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTTGATCAGGATGGAGTTAGCAAt                 <  1:421538/69‑1 (MQ=255)
                                                    ttGATTGCAGCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTTGATCAg                                >  1:1069396/1‑53 (MQ=255)
                                                    ttGATTGCAGCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTTGATCAGGATGGAGTTAGc                    >  1:1571478/1‑65 (MQ=255)
                                                    ttGATTGCAGCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTTGATCAGGATGGAGTTAGc                    >  1:915965/1‑65 (MQ=255)
                                                    ttGATTGCAGCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTTGATCAGGATGGAGTTAGCGAt                 <  1:2183059/68‑1 (MQ=255)
                                                    ttGATTGCAGCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTTGATCAGGATGGAGTTAGCGAt                 <  1:1781604/68‑1 (MQ=255)
                                                    ttGATTGCAGCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTTGATCAGGATGGAGTTAGCGATa                >  1:35409/1‑69 (MQ=255)
                                                    ttGATTGCAGCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTTGATCAGGATGGAGTTAGCGATa                >  1:2595503/1‑69 (MQ=255)
                                                    ttGATTGCAGCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTTGATCAGGATGGAGTTAGCGATa                >  1:781148/1‑69 (MQ=255)
                                                    ttGATTGCAGCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTTGATCAGGATGGAGTTAGCGATa                >  1:3046917/1‑69 (MQ=255)
                                                    ttGATTGCAGCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTTGATCAGGATGGAGTTAGCGATa                >  1:1133409/1‑69 (MQ=255)
                                                    ttGATTGCAGCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTAGATCAGGATGGAGTTAGCGATa                >  1:159495/1‑69 (MQ=255)
                                                             gCCAGAGTTTCGGTCAGAGAACCTATCTGGTTGAATTTGATCAGGATGGAGTTAGCGATACCTTTTTc        <  1:1464272/68‑1 (MQ=255)
                                                             gCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTTGATCAGGATGGAGTTAGCGATACCTTTTTc        <  1:3051903/68‑1 (MQ=255)
                                                             gCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTTGATCAGGATGGAGTTAGCGATACCTTTTTc        <  1:2063430/68‑1 (MQ=255)
                                                             gCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTTGATCAGGATGGAGTTAGCGATACCTTTTTc        <  1:650924/68‑1 (MQ=255)
                                                             gCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTTGATCAGGATGGAGTTAGCGATACCTTTTTc        <  1:3367726/68‑1 (MQ=255)
                                                             gCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTTGATCAGGATGGAGTTAGCGATACCTTTTTc        <  1:2976125/68‑1 (MQ=255)
                                                             gCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTTGATCAGGATGGAGTTAGCGATACCTTTTTc        <  1:345821/68‑1 (MQ=255)
                                                             gCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTTGATCAGGATGGAGTTAGCGATACCTTTTTc        <  1:2858731/68‑1 (MQ=255)
                                                             gCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTTGATCAGGATGGAGTTAGCGATACCTTTTTc        <  1:1315255/68‑1 (MQ=255)
                                                             gCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTTGATCAGGATGGAGTTAGCGATACCTTTTTc        <  1:2470151/68‑1 (MQ=255)
                                                             gCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTTGATCAGGATGGAGTTAGCGATACCTTTTTc        <  1:2396592/68‑1 (MQ=255)
                                                             gCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTTGATCAGGATGGAGTTAGCGATACCTTTTTc        <  1:2370504/68‑1 (MQ=255)
                                                             gCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTTGATCAGGATGGAGTTAGCGATACCTTTTTc        <  1:2144334/68‑1 (MQ=255)
                                                                  agTTTCGGTCAGAGAACCGATCTGGTTGAATTTGATCAGGATGGAGTTAGCGATACCTTTTTCGATAcc  <  1:2893355/69‑1 (MQ=255)
                                                                  |                                                                    
TTCGCCAGAACGGTGAGAGATAACTGCAGTGTAGCCAGCATCTTTCGCCATCTTGATTGCAGCCAGAGTTTCGGTCAGAGAACCGATCTGGTTGAATTTGATCAGGATGGAGTTAGCGATACCTTTTTCGATACC  >  minE/1876302‑1876436

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