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 2,425,237 A→G 25.9% R285R (CGT→CGC)  rffG ← dTDP‑glucose 4,6‑dehydratase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,425,2370AG25.9% 107.9 / 37.2 96R285R (CGT→CGC) rffGdTDP‑glucose 4,6‑dehydratase
Reads supporting (aligned to +/- strand):  ref base A (53/18);  new base G (10/15);  total (63/33)
Fisher's exact test for biased strand distribution p-value = 2.93e-03
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.02e-01

AAGCATCAATGGCATAACGCAGATCATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCCGTGCGGCTTGTTCGGAGCCAGTTCTTCCAGCAGCTCGCAAATGGTTTCC  >  minE/2425176‑2425303
                                                             |                                                                  
aaGCATCAATGGCATAACGCAGATCATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAg                                                              <  1:2096901/68‑1 (MQ=255)
aaGCATCAATGGCATAACGCAGATCATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAg                                                              <  1:2100792/68‑1 (MQ=255)
aaGCATCAATGGCATAACGCAGATCATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAg                                                              <  1:3042428/68‑1 (MQ=255)
aaGCATCAATGGCATAACGCAGATCATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAg                                                              <  1:1833509/68‑1 (MQ=255)
     tCAATGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTGATCAGATCGCGATAGTGCGcc                                                        <  1:2620529/69‑1 (MQ=255)
     tCAATGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTGATCAGATCGCGATAGTGCGcc                                                        <  1:3325217/69‑1 (MQ=255)
     tCAATGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTGATCAGATCGCGATAGTGCGcc                                                        <  1:3092678/69‑1 (MQ=255)
     tCAATGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTGATCAGATCGCGATAGTGCGcc                                                        <  1:1850690/69‑1 (MQ=255)
     tCAATGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTGATCAGATCGCGATAGTGCGcc                                                        <  1:169296/69‑1 (MQ=255)
     tCAATGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTGATCAGATCGCGATAGTGCGcc                                                        <  1:2980844/69‑1 (MQ=255)
     tCAATGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTGATCAGATCGCGATAGTGCGcc                                                        <  1:761733/69‑1 (MQ=255)
     tCAATGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTGATCAGATCGCGATAGTGCGcc                                                        <  1:23131/69‑1 (MQ=255)
     tCAATGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTGATCAGATCGCGATAGTGCGcc                                                        <  1:2322592/69‑1 (MQ=255)
     tCAATGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTGATCAGATCGCGATAGTGCGcc                                                        <  1:1246653/69‑1 (MQ=255)
     tCAATGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTGATCAGATCGCGATAGTGCGcc                                                        <  1:2733188/69‑1 (MQ=255)
     tCAATGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTGATCAGATCGCGATAGTGCGcc                                                        <  1:1057565/69‑1 (MQ=255)
     tCAATGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTGATCAGATCGCGATAGTGCGcc                                                        <  1:964384/69‑1 (MQ=255)
      cAATGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTGATCAGATCGCGATAGTGCGcc                                                        <  1:579176/68‑1 (MQ=255)
       aaTGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTGATCAGATCGCGATAGTGCGcc                                                        <  1:2880467/67‑1 (MQ=255)
       aaTGGCATAACGCAGATCATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCAc                                                      >  1:855390/1‑69 (MQ=255)
       aaTGGCATAACGCAGATCATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCAc                                                      >  1:386862/1‑69 (MQ=255)
       aaTGGCATAACGCAGATCATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCAc                                                      >  1:1118714/1‑69 (MQ=255)
         tGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTGATCAGATCGCGATAGTGCGCCACGc                                                    >  1:2868515/1‑69 (MQ=255)
         tGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTGATCAGATCGCGATAGTGCGCCACGc                                                    >  1:2978560/1‑69 (MQ=255)
         tGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTGATCAGATCGCGATAGTGCGCCACGc                                                    >  1:2664793/1‑69 (MQ=255)
         tGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTGATCAGATCGCGATAGTGCGCCACGc                                                    >  1:1003508/1‑69 (MQ=255)
         tGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTGATCAGATCGCGATAGTGCGCCACGc                                                    >  1:330932/1‑69 (MQ=255)
         tGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTGATCAGATCGCGATAGTGCGCCACGc                                                    >  1:3325856/1‑69 (MQ=255)
         tGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTGATCAGATCGCGATAGTGCGCCACGc                                                    >  1:1963554/1‑69 (MQ=255)
         tGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTGATCAGATCGCGATAGTGCGCCACGc                                                    >  1:340253/1‑69 (MQ=255)
         tGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTGATCAGATCGCGATAGTGCGCCACGc                                                    >  1:853196/1‑69 (MQ=255)
         tGGCATAGCGTAGGTCATGCCCTGGACGGTCAGCGACAAAGGTGATCAGATCGCGATAGTGCGCCACGc                                                    >  1:877865/1‑69 (MQ=255)
                aCGCAGGTCATGCCCCGGACGGTCAGCGACAAAGGTGATCTGGTCACGATAGTGCGCCACGCCGTGCgg                                             >  1:438073/1‑69 (MQ=255)
                aCGCAGATCATGCCCCGGGCGGTCAGCGACAAAGGTGATCAGGTCACGATAGAGCGCCACGCCGTGCgg                                             >  1:911101/1‑69 (MQ=255)
                aCGCAGATCATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATa                                                               >  1:1406410/1‑51 (MQ=255)
                aCGCAGATCATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCCGTGCgg                                             >  1:3333551/1‑69 (MQ=255)
                aCGCAGATCATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCCGTGCgg                                             >  1:500377/1‑69 (MQ=255)
                aCGCAGATCATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCCGTGCgg                                             >  1:662708/1‑69 (MQ=255)
                aCGCAGATCATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCCGTGCgg                                             >  1:937040/1‑69 (MQ=255)
                aCGCAGATCATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCCGTGCgg                                             >  1:2661973/1‑69 (MQ=255)
                aCGCAGATCATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCCGTGCgg                                             >  1:965224/1‑69 (MQ=255)
                aCGCAGATCATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCCGTGCgg                                             >  1:2547414/1‑69 (MQ=255)
                aCGCAGATCATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCCGTGCgg                                             >  1:2080346/1‑69 (MQ=255)
                aCGCAGATCATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCCGTGCgg                                             >  1:1337762/1‑69 (MQ=255)
                aCGCAGATCATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCCGTGCgg                                             >  1:1385443/1‑69 (MQ=255)
                aCGCAGATCATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCCGTGCgg                                             >  1:1413839/1‑69 (MQ=255)
                aCGCAGATCATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCCGTGCgg                                             >  1:2102754/1‑69 (MQ=255)
                aCGCAGATCATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCCGTGCgg                                             >  1:2201858/1‑69 (MQ=255)
                aCGCAGATCATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCAGTGCgg                                             >  1:2096719/1‑69 (MQ=255)
                        gaTGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCCGTGCGGCTTGtt                                       >  1:1882423/2‑67 (MQ=255)
                        cATGCCCCGGACGGTCAGCGACAAAGGTGATGAGGTCACGATAGTGCGCCACGCCGTGCGGCTTGtt                                       >  1:471215/1‑67 (MQ=255)
                        cATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCCGTGCGGCTTGtt                                       >  1:556133/1‑67 (MQ=255)
                        cATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCCGTGCGGCTTGtt                                       >  1:1896876/1‑67 (MQ=255)
                        cATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCCGTGCGGCTTGtt                                       >  1:1634920/1‑67 (MQ=255)
                        cATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCCGTGCGGCTTGtt                                       >  1:506400/1‑67 (MQ=255)
                        cATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCCGTGCGGCTTGtt                                       >  1:550712/1‑67 (MQ=255)
                        cATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCCGTGCGGCTTGtt                                       >  1:166927/1‑67 (MQ=255)
                        cATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCCGTGCGGCTTGtt                                       >  1:1606346/1‑67 (MQ=255)
                        cATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCCGTGCGGCTTGtt                                       >  1:580882/1‑67 (MQ=255)
                        cATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCCGTGCGGCTTGtt                                       >  1:1585281/1‑67 (MQ=255)
                        cATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCCGTGCGGCTTGtt                                       >  1:695067/1‑67 (MQ=255)
                        cATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCCGTGCGGCTTGtt                                       >  1:715695/1‑67 (MQ=255)
                        cATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCCGTGCGGCTTGtt                                       >  1:1154885/1‑67 (MQ=255)
                        cATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCCGTGCGGCTTGtt                                       >  1:1005814/1‑67 (MQ=255)
                        cATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCCGTGCGGCTTGtt                                       >  1:2537002/1‑67 (MQ=255)
                        cATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCCGTGCGGCTTGtt                                       >  1:2638652/1‑67 (MQ=255)
                        cATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCCGTGCGGCTTGtt                                       >  1:3143759/1‑67 (MQ=255)
                        cATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCCGTGCGGCTTGtt                                       >  1:3035889/1‑67 (MQ=255)
                        cATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCCGTGCGGCTTGtt                                       >  1:2376640/1‑67 (MQ=255)
                        cATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCCGTGCGGCTTGtt                                       >  1:2241891/1‑67 (MQ=255)
                        cATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCCGTGCGGCTTGtt                                       >  1:2913343/1‑67 (MQ=255)
                        cATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCCGTGCGGCTTGtt                                       >  1:227826/1‑67 (MQ=255)
                               cGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCCGTGCGGCTTGTTCGGAGCCAg                              <  1:93226/69‑1 (MQ=255)
                                   cGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCCGTGCGGCTTGTTCGGAGCCAGttct                          <  1:2759936/69‑1 (MQ=255)
                                   cGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCCGTGCGGCTTGTTCGGAGCCAGttct                          <  1:2425813/69‑1 (MQ=255)
                                   cGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCCGTGCGGCTTGTTCGGAGCCAGttct                          <  1:2387402/69‑1 (MQ=255)
                                   cGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCCGTGCGGCTTGTTCGGAGCCAGttct                          <  1:789165/69‑1 (MQ=255)
                                   cGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCCGTGCGGCTTGTTCGGAGCCAGttct                          <  1:686826/69‑1 (MQ=255)
                                    ggTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCCGTGCGGCTTGTTCGGAGCCAGttct                          <  1:653652/68‑1 (MQ=255)
                                                 ggTGATCAGGTCACGATAGTGCGCCACGCCGTGCGGCTTGTTCGGAGCCAGTTCTTCCAGCAGCTCGCa            <  1:2315107/69‑1 (MQ=255)
                                                       cAGGTCACGATAGTGCGCCACGCCGTGCGGCTTGTTCGGAGCCAGTTCTTCCAGCAGCTCGCAAATGGt      >  1:1911497/1‑69 (MQ=255)
                                                       cAGGTCACGATAGTGCGCCACGCCGTGCGGCTTGTTCGGAGCCAGTTCTTCCAGCAGCTCGCAAATGGt      >  1:539755/1‑69 (MQ=255)
                                                       cAGGTCACGATAGTGCGCCACGCCGTGCGGCTTGTTCGGAGCCAGTTCTTCCAGCAGCTCGCAAATGGt      >  1:1549276/1‑69 (MQ=255)
                                                       cAGGTCACGATAGTGCGCCACGCCGTGCGGCTTGTTCGGAGCCAGTTCTTCCAGCAGCTCGCAAATGGt      >  1:2131689/1‑69 (MQ=255)
                                                       cAGGTCACGATAGTGCGCCACGCCGTGCGGCTTGTTCGGAGCCAGTTCTTCCAGCAGCTCGCAAATGGt      >  1:829457/1‑69 (MQ=255)
                                                       cAGGTCACGATAGTGCGCCACGCCGTGCGGCTTGTTCGGAGCCAGTTCTTCCAGCAGCTCGCAAATGGt      >  1:868012/1‑69 (MQ=255)
                                                       cAGGTCACGATAGTGCGCCACGCCGTGCGGCTTGTTCGGAGCCAGTTCTTCCAGCAGCTCGCAAATGGt      >  1:3209163/1‑69 (MQ=255)
                                                       cAGGTCACGATAGTGCGCCACGCCGTGCGGCTTGTTCGGAGCCAGTTCTTCCAGCAGCTCGCAAATGGt      >  1:3414945/1‑69 (MQ=255)
                                                          gTCACGATAGTGCGCCACGCCGTGCGGCTTGTTCGGAGCCAGTTCTTCCAGCAGCTCGCAAATGGTTTc   <  1:3370294/69‑1 (MQ=255)
                                                          gTCACGATAGTGCGCCACGCCGTGCGGCTTGTTCGGAGCCAGTTCTTCCAGCAGCTCGCAAATGGTTTc   <  1:629769/69‑1 (MQ=255)
                                                          gTCACGATAGTGCGCCACGCCGTGCGGCTTGTTCGGAGCCAGTTCTTCCAGCAGCTCGCAAATGGTTTc   <  1:110669/69‑1 (MQ=255)
                                                          gTCACGATAGTGCGCCACGCCGTGCGGCTTGTTCGGAGCCAGTTCTTCCAGCAGCTCGCAAATGGTTTc   <  1:2066893/69‑1 (MQ=255)
                                                          gTCACGATAGTGCGCCACGCCGTGCGGCTTGTTCGGAGCCAGTTCTTCCAGCAGCTCGCAAATGGTTTc   <  1:2380449/69‑1 (MQ=255)
                                                          gTCACGATAGTGCGCCACGCCGTGCGGCTTGTTCGGAGCCAGTTCTTCCAGCAGCTCGCAAATGGTTTc   <  1:2363159/69‑1 (MQ=255)
                                                            cACGATAGTGCGCCACGCCGTGCGGCTTGTTCGGAGCCAGTTCTTCcagcag                  >  1:2489893/1‑52 (MQ=255)
                                                            cACGATAGTGCGCCACGCCGTGCGGCTTGTTCGGAGCCAGTTCTTCCAGCAGCTCGCAAATGGTTTcc  >  1:100841/1‑68 (MQ=255)
                                                             |                                                                  
AAGCATCAATGGCATAACGCAGATCATGCCCCGGACGGTCAGCGACAAAGGTGATCAGGTCACGATAGTGCGCCACGCCGTGCGGCTTGTTCGGAGCCAGTTCTTCCAGCAGCTCGCAAATGGTTTCC  >  minE/2425176‑2425303

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