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 465,500 C→T 34.7% L114L (CTG→TTG)  sucA → 2‑oxoglutarate decarboxylase, thiamin‑requiring

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE465,5000CT34.7% 87.8 / 65.2 115L114L (CTG→TTG) sucA2‑oxoglutarate decarboxylase, thiamin‑requiring
Reads supporting (aligned to +/- strand):  ref base C (58/17);  new base T (26/14);  total (84/31)
Fisher's exact test for biased strand distribution p-value = 1.88e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 115 total aligned reads displayed.

CCTGCAGCTCATTAACGCATACCGCTTCCGTGGTCACCAGCATGCGAATCTCGATCCGCTGGGACTGTGGCAGCAAGATAAAGTGGCCGATCTGGATCCGTCTTTCCACGATCTGACCGAAGCAGACTTC  >  minE/465436‑465565
                                                                |                                                                 
ccTGCAGCTCATTAACGCATACCGCTTCCGTGGTCACCAGCATGCGAATCTCGATCCGCTGGGACtgt                                                                >  1:515493/1‑68 (MQ=255)
ccTGCAGCTCATTAACGCATACCGCTTCCGTGGTCACCAGCATGCGAATCTCGATCCGCTGGGACtgt                                                                >  1:1516778/1‑68 (MQ=255)
ccTGCAGCTCATTAACGCATACCGCTTCCGTGGTCACCAGCATGCGAATCTCGATCCGCTGGGACtgt                                                                >  1:2461262/1‑68 (MQ=255)
ccTGCAGCTCATTAACGCATACCGCTTCCGTGGTCACCAGCATGCGAATCTCGATCCGCTGGGACtgt                                                                >  1:509294/1‑68 (MQ=255)
ccTGCAGCTCATTAACGCATACCGCTTCCGTGGTCACCAGCATGCGAATCTCGATCCGCTGGGACtgt                                                                >  1:2424092/1‑68 (MQ=255)
ccTGCAGCTCATTAACGCATACCGCTTCCGTGGTCACCAGCATGCGAATCTCGATCCGCTGGGACtgt                                                                >  1:1801866/1‑68 (MQ=255)
ccTGCAGCTCATTAACGCATACCGCTTCCGTGGTCACCAGCATGCGAATCTCGATCCGCTGGGACtgt                                                                >  1:1996668/1‑68 (MQ=255)
ccTGCAGCTCATTAACGCATACCGCTTCCGTGGTCACCAGCATGCGAATCTCGATCCGCTGGGACtgt                                                                >  1:332733/1‑68 (MQ=255)
ccTGCAGCTCATTAACGCATACCGCTTCCGTGGTCACCAGCATGCGAATCTCGATCCGCTGGGACtgt                                                                >  1:2167290/1‑68 (MQ=255)
ccTGCAGCTCATTAACGCATACCGCTTCCGTGGTCACCAGCATGCGAATCTCGATCCGCTGGGACtgt                                                                >  1:2137732/1‑68 (MQ=255)
  tGCAGCTCATTAACGCATACCGCTTCCGTGGTCACCAGCATGCGAATCTCGATCCGCTGGGACTGTGgc                                                             >  1:659991/1‑69 (MQ=255)
  tGCAGCTCATTAACGCATACCGCTTCCGTGGTCACCAGCATGCGAATCTCGATCCGCTGGGACTGTGgc                                                             >  1:2100977/1‑69 (MQ=255)
          aTTAACGCATACCGCTTCCGTGGTCACCAGCATGCGAATCTCGATCCGCTGGGATTGTGGCAGCAAGa                                                      >  1:416640/1‑68 (MQ=255)
          aTTAACGCATACCGCTTCCGTGGTCACCAGCATGCGAATCTCGATCCGCTGGGATTGTGGCAGCAAGa                                                      >  1:2294291/1‑68 (MQ=255)
          aTTAACGCATACCGCTTCCGTGGTCACCAGCATGCGAATCTCGATCCGCTGGGATTGTGGCAGCAAGa                                                      >  1:3081410/1‑68 (MQ=255)
          aTTAACGCATACCGCTTCCGTGGTCACCAGCATGCGAATCTCGATCCGCTGGGATTGTGGCAGCAAGa                                                      >  1:336617/1‑68 (MQ=255)
          aTTAACGCATACCGCTTCCGTGGTCACCAGCATGCGAATCTCGATCCGCTGGGATTGTGGCAGCAAGa                                                      >  1:1885418/1‑68 (MQ=255)
          aTTAACGCATACCGCTTCCGTGGTCACCAGCATGCGAATCTCGATCCGCTGGGATTGTGGCAGCAAGa                                                      >  1:499072/1‑68 (MQ=255)
          aTTAACGCATACCGCTTCCGTGGTCACCAGCATGCGAATCTCGATCCGCTGGGATTGTGGCAGCAAGa                                                      >  1:2403291/1‑68 (MQ=255)
          aTTAACGCATACCGCTTCCGTGGTCACCAGCATGCGAATCTCGATCCGCTGGGATTGTGGCAGCAAGa                                                      >  1:3037854/1‑68 (MQ=255)
          aTTAACGCATACCGCTTCCGTGGTCACCAGCATGCGAATCTCGATCCGCTGGGATTGTGGCAGCAAGa                                                      >  1:2909955/1‑68 (MQ=255)
          aTTAACGCATACCGCTTCCGTGGTCACCAGCATGCGAATCTCGATCCGCTGGGATTGTGGCAGCAAGa                                                      >  1:1687167/1‑68 (MQ=255)
          aTTAACGCATACCGCTTCCGTGGTCACCAGCATGCGAATCTCGATCCGCTGGGATTGTGGCAGCAAGa                                                      >  1:1613895/1‑68 (MQ=255)
          aTTAACGCATACCGCTTCCGTGGTCACCAGCATGCGAATCTCGATCCGCTGGGATTGTGGCAGCAAGa                                                      >  1:2746041/1‑68 (MQ=255)
          aTTAACGCATACCGCTTCCGTGGTCACCAGCATGCGAATCTCGATCCGCTGGGATTGTGGCAGCAAGa                                                      >  1:1559416/1‑68 (MQ=255)
          aTTAACGCATACCGCTTCCGTGGTCACCAGCATGCGAATCTCGATCCGCTGGGATTGTGGCAGCAAGa                                                      >  1:1005903/1‑68 (MQ=255)
          aTTAACGCATACCGCTTCCGTGGTCACCAGCATGCGAATCTCGATCCGCTGGGATTGTGGCAGCAAGa                                                      >  1:1160418/1‑68 (MQ=255)
          aTTAACGCATACCGCTTCCGTGGTCACCAGCATGCGAATCTCGATCCGCTGGGATTGTGGCAGCAAGa                                                      >  1:116272/1‑68 (MQ=255)
          aTTAACGCATACCGCTTCCGTGGTCACCAGCATGCGAATCTCGATCCGCTGGGATTGTGGCAGCAAGa                                                      >  1:652707/1‑68 (MQ=255)
          aTTAACGCATACCGCTTCCGTGGTCACCAGCATGCGAATCTCGATCCGCTGGGATTGTGGCAGCAAGa                                                      >  1:557195/1‑68 (MQ=255)
          aTTAACGCATACCGCTTCCGTGGTCACCAGCATGCGAATCTCGATCCGCTGGGATTGTGGCAGCAAGa                                                      >  1:1572761/1‑68 (MQ=255)
          aTTAACGCATACCGCTTCCGTGGTCACCAGCATGCGAATCTCGATCCGCTGGGATTGTGGCAGCAAGa                                                      >  1:551102/1‑68 (MQ=255)
          aTTAACGCATACCGCTTCCGTGGTCACCAGCATGCGAATCTCGATCCGCTGAGATTGTGGCAGCAAGa                                                      >  1:2596059/1‑68 (MQ=255)
            tAACGCATACCGCTTCCGTGGTCACCAGCATGCGAATCTCGATCCGCTGGGACTGTGGCAGCAAGATaa                                                   <  1:2130152/69‑1 (MQ=255)
            tAACGCATACCGCTTCCGTGGTCACCAGCATGCGAATCTCGATCCGCTGGGACTGTGGCAGCAAGATaa                                                   <  1:2045846/69‑1 (MQ=255)
             aaCGCATACCGCTTCCGTGGTCACCAGCATGCGAATCTCGATCCGCTGGGACTGTGGCAGCAAGATaa                                                   <  1:2150516/68‑1 (MQ=255)
             aaCGCATACCGCTTCCGTGGTCACCAGCATGCGAATCTCGATCCGCTGGGACTGTGGCAGCAAGATaa                                                   <  1:622300/68‑1 (MQ=255)
                   tACCGCTTCCGTGGTCACCAGCATGCGAATCTCGATCCGCTGGGACTGTGgc                                                             >  1:2919535/1‑52 (MQ=255)
                   tACCGCTTCCGTGGTCACCAGCATGCGAATCTCGATCCGCTGGGACTGTGGCAGCAAGATAAAGTGGcc                                            >  1:180483/1‑69 (MQ=255)
                   tACCGCTTCCGTGGTCACCAGCATGCGAATCTCGATCCGCTGGGACTGTGGCAGCAAGATAAAGTGGcc                                            >  1:1328396/1‑69 (MQ=255)
                   tACCGCTTCCGTGGTCACCAGCATGCGAATCTCGATCCGCTGGGACTGTGGCAGCAAGATAAAGTGGcc                                            >  1:921841/1‑69 (MQ=255)
                   tACCGCTTCCGTGGTCACCAGCATGCGAATCTCGATCCGCTGGGACTGTGGCAGCAAGATAAAGTGGcc                                            >  1:2888725/1‑69 (MQ=255)
                   tACCGCTTCCGTGGTCACCAGCATGCGAATCTCGATCCGCTGGGACTGTGGCAGCAAGATAAAGTGGcc                                            >  1:1146052/1‑69 (MQ=255)
                   tACCGCTTCCGTGGTCACCAGCATGCGAATCTCGATCCGCTGGGACTGTGGCAGCAAGATAAAGTGGcc                                            >  1:1529743/1‑69 (MQ=255)
                   tACCGCTTCCGTGGTCACCAGCATGCGAATCTCGATCCGCTGGGACTGTGGCAGCAAGATAAAGTGGc                                             >  1:2385422/1‑68 (MQ=255)
                     ccGCTTCCGTGGTCACCAGCATGCGAATCTCGATCCGCTGGGACTGTGGCAGCAAGATAAAGTGGCCGa                                          >  1:3139623/1‑69 (MQ=255)
                     ccGCTTCCGTGGTCACCAGCATGCGAATCTCGATCCGCTGGGACTGTGGCAGCAAGATAAAGTGGCCGa                                          >  1:149335/1‑69 (MQ=255)
                                gTCACCAGCATGCGAATCTCGATCCGCTGGGACTGTGGCAGCAAGATaa                                                   <  1:2853996/49‑1 (MQ=255)
                                gTCACCAGCATGCGAATCTCGATCCGCTGGGACTGTGGCAGCAAGATaa                                                   <  1:1222114/49‑1 (MQ=255)
                                gTCACCAGCATGCGAATCTCGATCCGCTGGGACTGTGGCAGCAAGATaa                                                   <  1:2578650/49‑1 (MQ=255)
                                gTCACCAGCATGCGAATCTCGATCCGCTGGGACTGTGGCAGCAAGATaa                                                   <  1:1397659/49‑1 (MQ=255)
                                gTCACCAGCATGCGAATCTCGATCCGCTGGGACTGTGGCAGCAAGATaa                                                   <  1:3166510/49‑1 (MQ=255)
                                gTCACCAGCATGCGAATCTCGATCCGCTGGGACTGTGGCAGCAAGATaa                                                   <  1:1393744/49‑1 (MQ=255)
                                gTCACCAGCATGCGAATCTCGATCCGCTGGGACTGTGGCAGCAAGATAAAGTGGCCGATCTGGATCCGt                               >  1:1177358/1‑69 (MQ=255)
                                gTCACCAGCATGCGAATCTCGATCCGCTGGGACTGTGGCAGCAAGATAAAGTGGCCGATCTGGATCCGt                               >  1:1108355/1‑69 (MQ=255)
                                gTCACCAGCATGCGAATCTCGATCCGCTGGGACTGTGGCAGCAAGATAAAGTGGCCGATCTGGATCCGt                               >  1:220236/1‑69 (MQ=255)
                                gTCACCAGCATGCGAATCTCGATCCGCTGGGACTGTGGCAGCAAGATAAAGTGGCCGATCTGGATCCGt                               >  1:2130079/1‑69 (MQ=255)
                                gTCACCAGCATGCGAATCTCGATCCGCTGGGACTGTGGCAGCAAGATAAAGTGGCCGATCTGGATCCGt                               >  1:2624541/1‑69 (MQ=255)
                                gTCACCAGCATGCGAATCTCGATCCGCTGGGACTGTGCCAGCAAGATaa                                                   <  1:947759/49‑1 (MQ=255)
                                          tGCGAATCTCGATCCGCTGGGACTGTGGCAGCAAGATAAAGTGGCCGATCTGGATCCGTCTTTCCACg                      >  1:2380397/1‑68 (MQ=255)
                                          tGCGAATCTCGATCCGCTGGGACTGTGGCAGCAAGATAAAGTGGCCGATCTGGATCCGTCTTTCCACg                      >  1:1298730/1‑68 (MQ=255)
                                          tGCGAATCTCGATCCGCTGGGACTGTGGCAGCAAGATAAAGTGGCCGATCTGGATCCGTCTTTCCACGa                     >  1:1102613/1‑69 (MQ=255)
                                          tGCGAATCTCGATCCGCTGGGACTGTGGCAGCAAGATAAAGTGGCCGATCTGGATCCGTCTTTCCACGa                     >  1:1710229/1‑69 (MQ=255)
                                          tGCGAATCTCGATCCGCTGGGACTGTGGCAGCAAGATAAAGTGGCCGATCTGGATCCGTCTTTCCACGa                     >  1:1806983/1‑69 (MQ=255)
                                          tGCGAATCTCGATCCGCTGGGACTGTGGCAGCAAGATAAAGTGGCCGATCTGGATCCGTCTTTCCACGa                     >  1:2495682/1‑69 (MQ=255)
                                          tGCGAATCTCGATCCGCTGGGACTGTGGCAGCAAGATAAAGTGGCCGATCTGGATCCGTCTTTCCACGa                     >  1:2491649/1‑69 (MQ=255)
                                          tGCGAATCTCGATCCGCTGGGACTGTGGCAGCAAGATAAAGTGGCCGATCTGGATCCGTCTTTCCACGa                     >  1:2449767/1‑69 (MQ=255)
                                          tGCGAATCTCGATCCGCTGGGACTGTGGCAGCAAGATAAAGTGGCCGATCTGGATCCGTCTTTCCACGa                     >  1:1207943/1‑69 (MQ=255)
                                          tGCGAATCTCGATCCGCTGGGACTGTGGCAGCAAGATAAAGTGGCCGATCTGGATCCGTCTTTCCACGa                     >  1:1816655/1‑69 (MQ=255)
                                          tGCGAATCTCGATCCGCTGGGACTGTGGCAGCAAGATAAAGTGGCCGATCTCGATCCGTCTTTCCACGa                     >  1:3361090/1‑69 (MQ=255)
                                            cGAATCTCGATCCGCTGGGACTGTGGCAGCAAGATAAAGTGGCCGATCTGGATCCGTCTTTCCACGAt                    >  1:972360/1‑68 (MQ=255)
                                            cGAATCTCGATCCGCTGGGACTGTGGCAGCAAGATAAAGTGGCCGATCTGGATCCGTCTTTCCACGAt                    >  1:43889/1‑68 (MQ=255)
                                            cGAATCTCGATCCGCTGGGACTGTGGCAGCAAGATAAAGTGGCCGATCTGGATCCGTCTTTCCACGAt                    >  1:1575530/1‑68 (MQ=255)
                                            cGAATCTCGATCCGCTGGGACTGTGGCAGCAAGATAAAGTGGCCGATCTGGATCCGTCTTTCCACGAt                    >  1:3352278/1‑68 (MQ=255)
                                            cGAATCTCGATCCGCTGGGACTGTGGCAGCAAGATAAAGTGGCCGATCTGGATCCGTCTTTCCACGAt                    >  1:2230287/1‑68 (MQ=255)
                                            cGAATCTCGATCCGCTGGGACTGTGGCAGCAAGATAAAGTGGCCGATCTGGATCCGTCTTTCCACGAt                    >  1:1355929/1‑68 (MQ=255)
                                            cGAATCTCGATCCGCTGGGACTGTGGCAGCAAGATAAAGTGGCCGATCTGGATCCGTCTTTCCACGAt                    >  1:808644/1‑68 (MQ=255)
                                            cGAATCTCGATCCGCTGGGACTGTGGCAGCAAGATAAAGTGGCCGATCTGGATCCGTCTTTCCACGAt                    >  1:2989839/1‑68 (MQ=255)
                                            cGAATCTCGATCCGCTGGGACTGTGGCAGCAAGATAAAGTGGCCGATCTGGATCCGTCTTTCCACGAt                    >  1:2534425/1‑68 (MQ=255)
                                                tctcGATCCGCTGGGACTGTGGCAGCAAGATAAAGTGGCCGATCTGGATCCGTCTTTCCACGATCTGa                >  1:1368228/1‑68 (MQ=255)
                                                tctcGATCCGCTGGGACTGTGGCAGCAAGATAAAGTGGCCGATCTGGATCCGTCTTTCCACGATCTGa                >  1:1963066/1‑68 (MQ=255)
                                                tctcGATCCGCTGGGACTGTGGCAGCAAGATAAAGTGGCCGATCTGGATCCGTCTTTCCACGATCTGa                >  1:3389789/1‑68 (MQ=255)
                                                tctcGATCCGCTGGGACTGTGGCAGCAAGATAAAGTGGCCGATCTGGATCCGTCTTTCCACGATCTGa                >  1:3402648/1‑68 (MQ=255)
                                                tctcGATCCGCTGGGACTGTGGCAGCAAGATAAAGTGGCCGATCTGGATCCGTCTTTCCAAGATCTGa                >  1:1452714/1‑68 (MQ=255)
                                                      tCCGCTGGGACTGTGGCAGCAAGATAAAGTGGCCGATCTGGATCCGTCTTTCCACGATTTGACCg             <  1:435037/65‑1 (MQ=255)
                                                      tCCGCTGGGACTGTGGCAGCAAGATAAAGTGGCCGATCTGGATCCGTCTTTCCACGATCTGACCg             <  1:900614/65‑1 (MQ=255)
                                                       ccGCTGGGATTGTGGCAGCAAGATAAAGTGGCCGATCTGGATCCGTCTTTCCACGATCTGACCGAAGCa        <  1:503965/69‑1 (MQ=255)
                                                       ccGCTGGGATTGTGGCAGCAAGATAAAGTGGCCGATCTGGATCCGTCTTTCCACGATCTGACCGAAGCa        <  1:2838949/69‑1 (MQ=255)
                                                       ccGCTGGGATTGTGGCAGCAAGATAAAGTGGCCGATCTGGATCCGTCTTTCCACGATCTGACCGAAGCa        <  1:34080/69‑1 (MQ=255)
                                                       ccGCTGGGATTGTGGCAGCAAGATAAAGTGGCCGATCTGGATCCGTCTTTCCACGATCTGACCGAAGCa        <  1:1370066/69‑1 (MQ=255)
                                                       ccGCTGGGATTGTGGCAGCAAGATAAAGTGGCCGATCTGGATCCGTCTTTCCACGATCTGACCGAAGCa        <  1:610608/69‑1 (MQ=255)
                                                       ccGCTGGGATTGTGGCAGCAAGATAAAGTGGCCGATCTGGATCCGTCTTTCCACGATCTGACCGAAGCa        <  1:2181296/69‑1 (MQ=255)
                                                       ccGCTGGGATTGTGGCAGCAAGATAAAGTGGCCGATCTGGATCCGTCTTTCCACGATCTGACCGAAGCa        <  1:638947/69‑1 (MQ=255)
                                                       ccGCTGGGATTGTGGCAGCAAGATAAAGTGGCCGATCTGGATCCGTCTTTCCACGATCTGACCGAAGCa        <  1:2286941/69‑1 (MQ=255)
                                                       ccGCTGGGATTGTGGCAGCAAGATAAAGTGGCCGATCTGGATCCGTCTTTCCACGATCTGACCGAAGCa        <  1:1332622/69‑1 (MQ=255)
                                                       ccGCTGGGATTGTGGCAGCAAGATAAAGTGGCCGATCTGGATCCGTCTTTCCACGATCTGACCGAAGCa        <  1:3092234/69‑1 (MQ=255)
                                                       ccGCTGGGATTGTGGCAGCAAGATAAAGTGGCCGATCTGGATCCGTCTTTCCACGATCTGACCGAAGCa        <  1:823185/69‑1 (MQ=255)
                                                       ccGCTGGGATTGTGGCAGCAAGATAAAGTGGCCGATCTGGATCCGTCTTTCCACGATCTGACCGAAGCa        <  1:1239082/69‑1 (MQ=255)
                                                       ccGCTGGGATTGTGGCAGCAAGATAAAGTGGCCGATCTGGATCCGTCTTTCCACGATCTGACCGAAGCa        <  1:2313522/69‑1 (MQ=255)
                                                               aCTGAGGCAGCAAGATAAAGTGGCCGATCTGGATCCGTCTTTCCACGATCTGACCGAAGCAGACTTc  <  1:270252/67‑1 (MQ=255)
                                                                |                                                                 
CCTGCAGCTCATTAACGCATACCGCTTCCGTGGTCACCAGCATGCGAATCTCGATCCGCTGGGACTGTGGCAGCAAGATAAAGTGGCCGATCTGGATCCGTCTTTCCACGATCTGACCGAAGCAGACTTC  >  minE/465436‑465565

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A