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 2,499,173 C→T 60.8% D7D (GAC→GAT)  ilvN → acetolactate synthase I, small subunit

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,499,1730CT60.8% 46.6 / 69.9 102D7D (GAC→GAT) ilvNacetolactate synthase I, small subunit
Reads supporting (aligned to +/- strand):  ref base C (22/18);  new base T (27/35);  total (49/53)
Fisher's exact test for biased strand distribution p-value = 3.12e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.97e-01

Only 100 of 102 total aligned reads displayed.

GGTGCCGCCAGGTGCGGCGAATACTGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGACAACGTAATTCTGGAGCTCACCGTTCGCAACCATCCGGGCGTAATGACCCACGTTTGTGGCCTTTTTG  >  minE/2499107‑2499240
                                                                  |                                                                   
ggTGCCGCCAGGTGCGGCGAATACTGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGACaa                                                                   <  1:1748466/69‑1 (MQ=255)
ggTGCCGCCAGGTGCGGCGAATACTGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGACaa                                                                   <  1:424476/69‑1 (MQ=255)
ggTGCCGCCAGGTGCGGCGAATACTGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGACaa                                                                   <  1:2857466/69‑1 (MQ=255)
ggTGCCGCCAGGTGCGGCGAATACTGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGACaa                                                                   <  1:1508413/69‑1 (MQ=255)
       ccAGGTGCGGCGAATACTGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGAtt                                                            >  1:1415525/1‑69 (MQ=255)
       ccAGGTGCGGCGAATACTGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGAtt                                                            >  1:1691289/1‑69 (MQ=255)
       ccAGGTGCGGCGAATACTGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGAtt                                                            >  1:1827545/1‑69 (MQ=255)
       ccAGGTGCGGCGAATACTGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGAtt                                                            >  1:2258454/1‑69 (MQ=255)
       ccAGGTGCGGCGAATACTGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGAtt                                                            >  1:2398606/1‑69 (MQ=255)
       ccAGGTGCGGCGAATACTGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGAtt                                                            >  1:2584561/1‑69 (MQ=255)
       ccAGGTGCGGCGAATACTGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGAtt                                                            >  1:2592320/1‑69 (MQ=255)
       ccAGGTGCGGCGAATACTGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGAtt                                                            >  1:2690880/1‑69 (MQ=255)
       ccAGGTGCGGCGAATACTGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGAtt                                                            >  1:2740320/1‑69 (MQ=255)
       ccAGGTGCGGCGAATACTGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGAtt                                                            >  1:1412466/1‑69 (MQ=255)
       ccAGGTGCGGCGAATACTGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGAtt                                                            >  1:2793210/1‑69 (MQ=255)
       ccAGGTGCGGCGAATACTGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGAtt                                                            >  1:2813635/1‑69 (MQ=255)
       ccAGGTGCGGCGAATACTGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGAtt                                                            >  1:319136/1‑69 (MQ=255)
       ccAGGTGCGGCGAATACTGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGAtt                                                            >  1:3323559/1‑69 (MQ=255)
       ccAGGTGCGGCGAATACTGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGAtt                                                            >  1:575768/1‑69 (MQ=255)
       ccAGGTGCGGCGAATACTGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGAtt                                                            >  1:62829/1‑69 (MQ=255)
       ccAGGTGCGGCGAATACTGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGAtt                                                            >  1:1089139/1‑69 (MQ=255)
       ccAGGTGCGGCGAATACTGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGAtt                                                            >  1:644406/1‑69 (MQ=255)
       ccAGGTGCGGCGAATACTGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGAtt                                                            >  1:800747/1‑69 (MQ=255)
       ccAGGTGCGGCGAATACTGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGAtt                                                            >  1:801080/1‑69 (MQ=255)
                    aTACTGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGACaa                                                                   <  1:2754680/49‑1 (MQ=255)
                      aCTGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGACAACGTAATTc                                                           <  1:958278/55‑1 (MQ=255)
                      aCTGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGACAACGTAATTc                                                           <  1:23972/55‑1 (MQ=255)
                      aCTGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGACAACGTAATTc                                                           <  1:1748123/55‑1 (MQ=255)
                      aCTGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGACAACGTAATTc                                                           <  1:168135/55‑1 (MQ=255)
                      aCTGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGACAACGTAATTc                                                           <  1:1007858/55‑1 (MQ=255)
                       cTGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGACAACGTAAt                                                             >  1:1839674/1‑52 (MQ=255)
                       cTGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGACAACGTAATTCTGGAGCTCACCGtt                                             >  1:2744850/1‑68 (MQ=255)
                       cTGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGACAACGTAATTCTGGAGCTCACCGtt                                             >  1:2722072/1‑68 (MQ=255)
                       cTGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGACAACGTAATTCTGGAGCTCACCGtt                                             >  1:1539153/1‑68 (MQ=255)
                       cTGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGACAACGTAATTCTGGAGCTCACCGtt                                             >  1:3138310/1‑68 (MQ=255)
                       cTGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGACAACGTAATTCTGGAGCTCACCGtt                                             >  1:3192199/1‑68 (MQ=255)
                       cTGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGACAACGTAATTCTGGAGCTCACCGtt                                             >  1:1772236/1‑68 (MQ=255)
                        tGAAATGGTGGTGTAATAAGCCATGCAAAACACAACTCATGATAACGTGATTCTGGAACTCACCGt                                              <  1:886429/66‑1 (MQ=255)
                        tGAAATGGTGGGGGATTAAGCCATGCAAAACACAACTCATGATAACGTGATTCTGGAACTCACCGt                                              <  1:2789458/66‑1 (MQ=255)
                        tGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGATTCTGGAACTCACCGt                                              <  1:452429/66‑1 (MQ=255)
                        tGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGATTCTGGAACTCACCGt                                              <  1:1530582/66‑1 (MQ=255)
                        tGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGATTCTGGAACTCACCGt                                              <  1:2621958/66‑1 (MQ=255)
                        tGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGATTCTGGAACTCACCGt                                              <  1:278605/66‑1 (MQ=255)
                        tGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGATTCTGGAACTCACCGt                                              <  1:2479652/66‑1 (MQ=255)
                        tGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGATTCTGGAACTCACCGt                                              <  1:2729349/66‑1 (MQ=255)
                        tGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGATTCTGGAACTCACCGt                                              <  1:1547282/66‑1 (MQ=255)
                        tGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGATTCTGGAACTCACCGt                                              <  1:95261/66‑1 (MQ=255)
                        tGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGATTCTGGAACTCACCGt                                              <  1:1452635/66‑1 (MQ=255)
                        tGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGATTCTGGAACTCACCGt                                              <  1:3416282/66‑1 (MQ=255)
                        tGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGATTCTGGAACTCACCGt                                              <  1:371587/66‑1 (MQ=255)
                        tGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGATTCTGGAACTCACCGt                                              <  1:1225777/66‑1 (MQ=255)
                        tGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGATTCTGCAACTCACCGt                                              <  1:3311534/66‑1 (MQ=255)
                         gAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGATTCTGGAACTCACCGt                                              <  1:2974152/65‑1 (MQ=255)
                         gAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGATTCTGGAACTCACCGt                                              <  1:2847448/65‑1 (MQ=255)
                         gAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGATTCTGGAACTCACCGt                                              <  1:379791/65‑1 (MQ=255)
                                tggGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGATTCTGGAACt                                                    >  1:2958952/1‑52 (MQ=255)
                                tggGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGATTCTGGAACTCACCGTTCGCAACCATc                                   >  1:1715448/1‑69 (MQ=255)
                                tggGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGATTCTGGAACTCACCGTTCGCAACCATc                                   >  1:1155852/1‑69 (MQ=255)
                                tggGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGATTCTGGAACTCACCGTTCGCAACCATc                                   >  1:1240648/1‑69 (MQ=255)
                                tggGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGATTCTGGAACTCACCGTTCGCAACCATc                                   >  1:1002057/1‑69 (MQ=255)
                                tggGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGATTCTGGAACTCACCGTTCGCAACCATc                                   >  1:1544808/1‑69 (MQ=255)
                                tggGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGATTCTGGAACTCACCGTTCGCAACCATc                                   >  1:1465920/1‑69 (MQ=255)
                                      aaTAAGCCATGCAAAACACAACTCATGACAACGTAATTCTGGAGCTCACCGTTCGCAACCATCCGGGc                              >  1:419493/1‑68 (MQ=255)
                                         aaGCCATGCAAAACACAACTCATGATAACGTGATTCTGGAACTCACCGt                                              <  1:908172/49‑1 (MQ=38)
                                            ccATGCAAAACACAAATCATGATAACGTGATTCTTGAACTCACCGTTCGCAACCATCCGGGTGTAATGa                       <  1:1386885/69‑1 (MQ=255)
                                            ccATGCAAAACACAAATCATGATAACGTGATTCTGGAACTCACCGTTCGCAACCATCCGGGTGTAATGa                       <  1:2165481/69‑1 (MQ=255)
                                            ccATGCAAAACACAAATCATGATAACGTGATTCTGGAACTCACCGTTCGCAACCATCCGGGTGTAATGa                       <  1:1578105/69‑1 (MQ=255)
                                            ccATGCAAAACACAAATCATGATAACGTGATTCTGGAACTCACCGTTCGCAACCATCCGGGTGTAATGa                       <  1:1814379/69‑1 (MQ=255)
                                            ccATGCAAAACACAAATCATGATAACGTGATTCTGGAACTCACCGTTCGCAACCATCCGGGTGTAATGa                       <  1:157715/69‑1 (MQ=255)
                                            ccATGCAAAACACAAATCATGATAACGTGATTCTGGAACTCACCGTTCGCAACCATCCGGGTGTAATGa                       <  1:1972595/69‑1 (MQ=255)
                                            ccATGCAAAACACAAATCATGATAACGTGATTCTGGAACTCACCGTTCGCAACCATCCGGGTGTAATGa                       <  1:1048444/69‑1 (MQ=255)
                                            ccATGCAAAACACAAATCATGATAACGTGATTCTGGAACTCACCGTTCGCAACCATCCGGGTGTAATGa                       <  1:2074895/69‑1 (MQ=255)
                                            ccATGCAAAACACAAATCATGATAACGTGATTCTGGAACTCACCGTTCGCAACCATCCGGGTGTAATGa                       <  1:2112520/69‑1 (MQ=255)
                                            ccATGCAAAACACAAATCATGATAACGTGATTCTGGAACTCACCGTTCGCAACCATCCGGGTGTAATGa                       <  1:2184781/69‑1 (MQ=255)
                                            ccATGCAAAACACAAATCATGATAACGTGATTCTGGAACTCACCGTTCGCAACCATCCGGGTGTAATGa                       <  1:2188644/69‑1 (MQ=255)
                                            ccATGCAAAACACAAATCATGATAACGTGATTCTGGAACTCACCGTTCGCAACCATCCGGGTGTAATGa                       <  1:2586378/69‑1 (MQ=255)
                                            ccATGCAAAACACAAATCATGATAACGTGATTCTGGAACTCACCGTTCGCAACCATCCGGGTGTAATGa                       <  1:3095096/69‑1 (MQ=255)
                                            ccATGCAAAACACAAATCATGATAACGTGATTCTGGAACTCACCGTTCGCAACCATCCGGGTGTAATGa                       <  1:2444778/69‑1 (MQ=255)
                                            ccATGCAAAACACAAATCATGATAACGTGATTCTGGAACTCACCGTTCGCAACCATCCGGGTGTAATGa                       <  1:129523/69‑1 (MQ=255)
                                                 cAAAACACAACTCATGACAACGTAATTCTGGAGCTCACCGTTCGCAACCATCCGGGCGTAATGACCCAc                  >  1:1572744/1‑69 (MQ=255)
                                                 cAAAACACAACTCATGACAACGTAATTCTGGAGCTCACCGTTCGCAACCATCCGGGCGTAATGACCCAc                  >  1:3046642/1‑69 (MQ=255)
                                                 cAAAACACAACTCATGACAACGTAATTCTGGAGCTCACCGTTCGCAACCATCCGGGCGTAATGACCCAc                  >  1:2905902/1‑69 (MQ=255)
                                                 cAAAACACAACTCATGACAACGTAATTCTGGAGCTCACCGTTCGCAACCATCCGGGCGTAATGACCCAc                  >  1:700130/1‑69 (MQ=255)
                                                      cacaACTCATGACAACGTAATTCTGGAGCTCACCGTTCGCAACCATCCGGGCGTAATGACCCACGTTtg             >  1:3091701/1‑69 (MQ=255)
                                                      cacaACTCATGACAACGTAATTCTGGAGCTCACCGTTCGCAACCATCCGGGCGTAATGACCCACGTTtg             >  1:154841/1‑69 (MQ=255)
                                                      cacaACTCATGACAACGTAATTCTGGAGCTCACCGTTCGCAACCATCCGGGCGTAATGACCCACGTTtg             >  1:1333135/1‑69 (MQ=255)
                                                      cacaACTCATGACAACGTAATTCTGGAGCTCACCGTTCGCAACCATCCGGGCGTAATGACCCACGTTtg             >  1:725543/1‑69 (MQ=255)
                                                      cacaACTCATGACAACGTAATTCTGGAGCTCACCGTTCGCAACCATCCGGGCGTAATGACCCACGTTtg             >  1:472443/1‑69 (MQ=255)
                                                      cacaACTCATGACAACGTAATTCTGGAGCTCACCGTTCGCAACCATCCGGGCGTAATGACCCACGTTtg             >  1:2020776/1‑69 (MQ=255)
                                                             cATGACAACGTAATTCTGGAGCTCACCGTTCGCAACCATCCGGGCGTAATGACCCACGTTTGTGGCCtt      <  1:2608797/69‑1 (MQ=255)
                                                             cATGACAACGTAATTCTGGAGCTCACCGTTCGCAACCATCCGGGCGTAATGACCCACGTTTGTGGCCtt      <  1:2200045/69‑1 (MQ=255)
                                                                 aCAACGTAATTCTGGAGCTCACCGTTCGCAACCATCCGGGCGTAATGa                       <  1:1080347/48‑1 (MQ=255)
                                                                 aCAACGTAATTCTGGAGCTCACCGTTCGCAACCATCCGGGCGTAATGa                       <  1:470228/48‑1 (MQ=255)
                                                                 aCAACGTAATTCTGGAGCTCACCGTTCGCAACCATCCGGGCGTAATGa                       <  1:2031616/48‑1 (MQ=255)
                                                                 aCAACGTAATTCTGGAGCTCACCGTTCGCAACCATCCGGGCGTAATGa                       <  1:290662/48‑1 (MQ=255)
                                                                 aCAACGTAATTCTGGAGCTCACCGTTCGCAACCATCCGGGCGTAATGa                       <  1:1281247/48‑1 (MQ=255)
                                                                 aCAACGTAATTCTGGAGCTCACCGTTCGCAACCATCCGGGCGTAATGACCCACGTTTGTGGCCTTTTTg  >  1:664743/1‑69 (MQ=255)
                                                                 aCAACGTAATTCTGGAGCTCACCGTTCGCAACCATCCGGGCGTAATGACCCACGTTTGTGGCCTTTTTg  >  1:1136960/1‑69 (MQ=255)
                                                                 aCAACGTAATTCTGGAGCTCACCGTTCGCAACCATCCGGGCGTAATGACCCACGTTTGTGGCCTTTTTg  >  1:2838723/1‑69 (MQ=255)
                                                                 aCAACGTAATTCTGGAGCTCACCGTTCGCAACCATCCGGGCGTAATGACCCACGTTTGTGGCCTTTTTg  >  1:2091807/1‑69 (MQ=255)
                                                                  |                                                                   
GGTGCCGCCAGGTGCGGCGAATACTGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGACAACGTAATTCTGGAGCTCACCGTTCGCAACCATCCGGGCGTAATGACCCACGTTTGTGGCCTTTTTG  >  minE/2499107‑2499240

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