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 2,425,198 A→G 47.3% D298D (GAT→GAC)  rffG ← dTDP‑glucose 4,6‑dehydratase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,425,1980AG47.3% 5.8 / 98.3 110D298D (GAT→GAC) rffGdTDP‑glucose 4,6‑dehydratase
Reads supporting (aligned to +/- strand):  ref base A (36/22);  new base G (37/15);  total (73/37)
Fisher's exact test for biased strand distribution p-value = 4.19e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.07e-01

Only 100 of 111 total aligned reads displayed.

AAAGGTTTCCTGCGGCAGCCAGCCAAGTTCACGGGCAATTTTCGAAGCATCAATGGCATAACGCAGATCATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCCGTGCGG  >  minE/2425132‑2425260
                                                                  |                                                              
aaaGGTTTCCTGCGGCAGCCAGCCAAGTTCACGGGCAATTTTCGAAGCATCAATGGCATAACGCAGAt                                                               <  1:1933172/68‑1 (MQ=255)
aaaGGTTTCCTGCGGCAGCCAGCCAAGTTCACGGGCAATTTTCGAAGCATCAATGGCATAACGCAGAt                                                               <  1:2431154/68‑1 (MQ=255)
aaaGGTTTCCTGCGGCAGCCAGCCAAGTTCACGGGCAATTTTCGAAGCATCAATGGCATAACGCAGAt                                                               <  1:1393761/68‑1 (MQ=255)
aaaGGTTTCCTGCGGCAGCCAGCCAAGTTCACGGGCAATTTTCGAAGCATCAATGGCATAACGCAGAt                                                               <  1:2238063/68‑1 (MQ=255)
                            tCACGGGCAATTTTCGAAGCATCAATGGCATAGCGTAGGTCATGc                                                          >  1:3174250/1‑45 (MQ=25)
                            tCACGGGCAATTTTCGAAGCATCAATGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGt                                   >  1:2149608/1‑68 (MQ=255)
                            tCACGGGCAATTTTCGAAGCATCAATGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTg                                  >  1:3259737/1‑69 (MQ=255)
                            tCACGGGCAATTTTCGAAGCATCAATGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTg                                  >  1:963546/1‑69 (MQ=255)
                            tCACGGGCAATTTTCGAAGCATCAATGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTg                                  >  1:3238583/1‑69 (MQ=255)
                            tCACGGGCAATTTTCGAAGCATCAATGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTg                                  >  1:3191956/1‑69 (MQ=255)
                            tCACGGGCAATTTTCGAAGCATCAATGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTg                                  >  1:2103076/1‑69 (MQ=255)
                            tCACGGGCAATTTTCGAAGCATCAATGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTg                                  >  1:2106400/1‑69 (MQ=255)
                            tCACGGGCAATTTTCGAAGCATCAATGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTg                                  >  1:2109846/1‑69 (MQ=255)
                            tCACGGGCAATTTTCGAAGCATCAATGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTg                                  >  1:3096813/1‑69 (MQ=255)
                            tCACGGGCAATTTTCGAAGCATCAATGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTg                                  >  1:301394/1‑69 (MQ=255)
                            tCACGGGCAATTTTCGAAGCATCAATGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTg                                  >  1:2998530/1‑69 (MQ=255)
                            tCACGGGCAATTTTCGAAGCATCAATGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTg                                  >  1:2548801/1‑69 (MQ=255)
                            tCACGGGCAATTTTCGAAGCATCAATGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTg                                  >  1:2742933/1‑69 (MQ=255)
                            tCACGGGCAATTTTCGAAGCATCAATGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTg                                  >  1:2698946/1‑69 (MQ=255)
                            tCACGGGCAATTTTCGAAGCATCAATGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTg                                  >  1:2723860/1‑69 (MQ=255)
                            tCACGGGCAATTTTCGAAGCATCAATGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTg                                  >  1:1822067/1‑69 (MQ=255)
                            tCACGGGCAATTTTCGAAGCATCAATGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTg                                  >  1:1153642/1‑69 (MQ=255)
                            tCACGGGCAATTTTCGAAGCATCAATGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTg                                  >  1:1202312/1‑69 (MQ=255)
                            tCACGGGCAATTTTCGAAGCATCAATGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTg                                  >  1:754019/1‑69 (MQ=255)
                            tCACGGGCAATTTTCGAAGCATCAATGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTg                                  >  1:708868/1‑69 (MQ=255)
                            tCACGGGCAATTTTCGAAGCATCAATGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTg                                  >  1:3371803/1‑69 (MQ=255)
                            tCACGGGCAATTTTCGAAGCATCAATGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTg                                  >  1:474757/1‑69 (MQ=255)
                            tCACGGGCAATTTTCGAAGCATCAATGGCATAACGCAGATCATGCCCCGGACGGTCAGCGACAAAGGTg                                  <  1:2729314/69‑1 (MQ=255)
                            tCACGGGCAATTTTCGAAGCATCAATGGCATAACGCAGATCATGCCCCGGACGGTCAGCGACAAAGGTg                                  <  1:2278307/69‑1 (MQ=255)
                            tCACGGGCAATTTTCGAAGCATCAATGGCATAACGCAGATCATGCCCCGGACGGTCAGCGACAAAGGTg                                  <  1:3102146/69‑1 (MQ=255)
                            tCACGGG‑AATTTTCGAAGCATCAATGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTg                                  >  1:225904/1‑68 (MQ=255)
                                gggCAATTTTCGAAGCATCAATGGCATAACGCAGa                                                                <  1:76191/35‑1 (MQ=255)
                                   cAATTTTCGAAGCATCAATGGCATAACGCAGATCATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGt                           >  1:2904257/1‑69 (MQ=255)
                                   cAATTTTCGAAGCATCAATGGCATAACGCAGATCATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGt                           >  1:1116580/1‑69 (MQ=255)
                                    aaTTTTCGAAGCATCAATGGCATAACGCAGATCATGCCCCGGACGGTCAGCGACAAAgg                                    >  1:1870463/1‑59 (MQ=255)
                                    aaTTTTCGAAGCATCAATGGCATAACGCAGATCATGCCCCGGACGGTCAGCGACAAAGGt                                   <  1:3007018/60‑1 (MQ=255)
                                    aaTTTTCGAAGCATCAATGGCATAACGCAGATCATGCCCCGGACGGTCAGCGACAAAGGt                                   >  1:3312132/1‑60 (MQ=255)
                                    aaTTTTCGAAGCATCAATGGCATAACGCAGATCATGCCCCGGACGGTCAGCGACAAAGGt                                   >  1:2717823/1‑60 (MQ=255)
                                    aaTTTTCGAAGCATCAATGGCATAACGCAGATCATGCCCCGGACGGTCAGCGACAAAGGt                                   <  1:825403/60‑1 (MQ=255)
                                    aaTTTTCGAAGCATCAATGGCATAACGCAGATCATGCCCCGGACGGTCAGCGACAAAGGt                                   <  1:1109555/60‑1 (MQ=255)
                                    aaTTTTCGAAGCATCAATGGCATAACGCAGATCATGCCCCGGACGGTCAGCGACAAAGGt                                   >  1:2771915/1‑60 (MQ=255)
                                    aaTTTTCGAAGCATCAATGGCATAACGCAGATCATGCCCCGGACGGTCAGCGACAAAGGt                                   >  1:1701144/1‑60 (MQ=255)
                                    aaTTTTCGAAGCATCAATGGCATAACGCAGATCATGCCCCGGACGGTCAGCGACAAAGGt                                   >  1:2345012/1‑60 (MQ=255)
                                    aaTTTTCGAAGCATCAATGGCATAACGCAGATCATGCCCCGGACGGTCAGCGACAAAGGt                                   >  1:3136484/1‑60 (MQ=255)
                                    aaTTTTCGAAGCATCAATGGCATAACGCAGATCATGCCCCGGACGGTCAGCGACAAAGGt                                   >  1:1177112/1‑60 (MQ=255)
                                    aaTTTTCGAAGCATCAATGGCATAACGCAGATCATGCCCCGGACGGTCAGCGACAAAGGt                                   <  1:1884875/60‑1 (MQ=255)
                                    aaTTTTCGAAGCATCAATGGCATAACGCAGATCATGCCCCGGACGGTCAGCGACAAAGGt                                   >  1:1660492/1‑60 (MQ=255)
                                    aaTTTTCGAAGCATCAATGGCATAACGCAGATCATGCCCCGGACGGTCAGCGACAAAGGt                                   <  1:605739/60‑1 (MQ=255)
                                    aaTTTTCGAAGCATCAATGGCATAACGCAGATCATGCCCCGGACGGTCAGCGACAAAGGt                                   <  1:1360250/60‑1 (MQ=255)
                                    aaTTTTCGAAGCATCAATGGCATAACGCAGATCATGCCCCGGACGGTCAGCGACAAAGGt                                   <  1:588489/60‑1 (MQ=255)
                                    aaTTTTCGAAGCATCAATGGCATAACGCAGATCATGCCCCGGACGGTCAGCGACAAAGGt                                   <  1:3148413/60‑1 (MQ=255)
                                    aaTTTTCGAAGCATCAATGGCATAACGCAGATCATGCAACGGACGGTCAGCGACAAAGGt                                   >  1:1484186/1‑60 (MQ=255)
                                    aaTTTTCGAAGCATCAATGGCATAACGAAGATCATGCCCCGGACGGTCAGCGACAAAGGt                                   >  1:1042511/1‑60 (MQ=255)
                                    aaTTTTCGAAGCATCAATGCCATAACGCAGATCATGCCCCGGACGGTCAGCGACa                                        >  1:1213317/1‑55 (MQ=255)
                                    aaTTTTCCAAGCATCAATGGCATAACGCAGATCATGCCCCGGACGGTCAGCGACAAAGGt                                   >  1:3379313/1‑60 (MQ=255)
                                            aaGCATCAATGGCATAACGCAGATCATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAg                   <  1:1833509/68‑1 (MQ=255)
                                            aaGCATCAATGGCATAACGCAGATCATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAg                   <  1:2096901/68‑1 (MQ=255)
                                            aaGCATCAATGGCATAACGCAGATCATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAg                   <  1:2100792/68‑1 (MQ=255)
                                                 tCAATGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTGATCAGATCGCGATAGTGCGcc             <  1:964384/69‑1 (MQ=255)
                                                 tCAATGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTGATCAGATCGCGATAGTGCGcc             <  1:2733188/69‑1 (MQ=255)
                                                 tCAATGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTGATCAGATCGCGATAGTGCGcc             <  1:3325217/69‑1 (MQ=255)
                                                 tCAATGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTGATCAGATCGCGATAGTGCGcc             <  1:1850690/69‑1 (MQ=255)
                                                 tCAATGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTGATCAGATCGCGATAGTGCGcc             <  1:1246653/69‑1 (MQ=255)
                                                 tCAATGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTGATCAGATCGCGATAGTGCGcc             <  1:1057565/69‑1 (MQ=255)
                                                 tCAATGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTGATCAGATCGCGATAGTGCGcc             <  1:3092678/69‑1 (MQ=255)
                                                 tCAATGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTGATCAGATCGCGATAGTGCGcc             <  1:23131/69‑1 (MQ=255)
                                                 tCAATGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTGATCAGATCGCGATAGTGCGcc             <  1:2322592/69‑1 (MQ=255)
                                                 tCAATGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTGATCAGATCGCGATAGTGCGcc             <  1:2980844/69‑1 (MQ=255)
                                                 tCAATGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTGATCAGATCGCGATAGTGCGcc             <  1:2620529/69‑1 (MQ=255)
                                                  cAATGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTGATCAGATCGCGATAGTGCGcc             <  1:579176/68‑1 (MQ=255)
                                                   aaTGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTGATCAGATCGCGATAGTGCGcc             <  1:2880467/67‑1 (MQ=255)
                                                   aaTGGCATAACGCAGATCATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCAc           >  1:1118714/1‑69 (MQ=255)
                                                   aaTGGCATAACGCAGATCATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCAc           >  1:855390/1‑69 (MQ=255)
                                                   aaTGGCATAACGCAGATCATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCAc           >  1:386862/1‑69 (MQ=255)
                                                     tGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTGATCAGATCGCGATAGTGCGCCACGc         >  1:853196/1‑69 (MQ=255)
                                                     tGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTGATCAGATCGCGATAGTGCGCCACGc         >  1:877865/1‑69 (MQ=255)
                                                     tGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTGATCAGATCGCGATAGTGCGCCACGc         >  1:1003508/1‑69 (MQ=255)
                                                     tGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTGATCAGATCGCGATAGTGCGCCACGc         >  1:340253/1‑69 (MQ=255)
                                                     tGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTGATCAGATCGCGATAGTGCGCCACGc         >  1:3325856/1‑69 (MQ=255)
                                                     tGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTGATCAGATCGCGATAGTGCGCCACGc         >  1:2664793/1‑69 (MQ=255)
                                                     tGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTGATCAGATCGCGATAGTGCGCCACGc         >  1:330932/1‑69 (MQ=255)
                                                     tGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTGATCAGATCGCGATAGTGCGCCACGc         >  1:1963554/1‑69 (MQ=255)
                                                     tGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTGATCAGATCGCGATAGTGCGCCACGc         >  1:2868515/1‑69 (MQ=255)
                                                     tGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTGATCAGATCGCGATAGTGCGCCACGc         >  1:2978560/1‑69 (MQ=255)
                                                            aCGCAGGTCATGCCCCGGACGGTCAGCGACAAAGGTGATCTGGTCACGATAGTGCGCCACGCCGTGCgg  >  1:438073/1‑69 (MQ=255)
                                                            aCGCAGATCATGCCCCGGGCGGTCAGCGACAAAGGTGATCAGGTCACGATAGAGCGCCACGCCGTGCgg  >  1:911101/1‑69 (MQ=255)
                                                            aCGCAGATCATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATa                    >  1:1406410/1‑51 (MQ=255)
                                                            aCGCAGATCATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCCGTGCgg  >  1:2080346/1‑69 (MQ=255)
                                                            aCGCAGATCATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCCGTGCgg  >  1:2661973/1‑69 (MQ=255)
                                                            aCGCAGATCATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCCGTGCgg  >  1:937040/1‑69 (MQ=255)
                                                            aCGCAGATCATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCCGTGCgg  >  1:2547414/1‑69 (MQ=255)
                                                            aCGCAGATCATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCCGTGCgg  >  1:2201858/1‑69 (MQ=255)
                                                            aCGCAGATCATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCCGTGCgg  >  1:2102754/1‑69 (MQ=255)
                                                            aCGCAGATCATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCCGTGCgg  >  1:1413839/1‑69 (MQ=255)
                                                            aCGCAGATCATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCCGTGCgg  >  1:662708/1‑69 (MQ=255)
                                                            aCGCAGATCATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCCGTGCgg  >  1:1337762/1‑69 (MQ=255)
                                                            aCGCAGATCATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCCGTGCgg  >  1:1385443/1‑69 (MQ=255)
                                                            aCGCAGATCATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCCGTGCgg  >  1:500377/1‑69 (MQ=255)
                                                            aCGCAGATCATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCCGTGCgg  >  1:3333551/1‑69 (MQ=255)
                                                            aCGCAGATCATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCAGTGCgg  >  1:2096719/1‑69 (MQ=255)
                                                                  |                                                              
AAAGGTTTCCTGCGGCAGCCAGCCAAGTTCACGGGCAATTTTCGAAGCATCAATGGCATAACGCAGATCATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCCGTGCGG  >  minE/2425132‑2425260

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