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 2,759,866 T→C 20.6% T102T (ACT→ACC)  smg → conserved hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,759,8660TC20.6% 122.8 / 23.0 87T102T (ACT→ACC) smgconserved hypothetical protein
Reads supporting (aligned to +/- strand):  ref base T (49/20);  new base C (13/5);  total (62/25)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

ACTGGATGCCAGCTGCCGTGGGTTTCTGCTTTTCCTTGAGCAGATTCAGGTGCTCAACCTTGAAACTCGTGAAATGGTGATAGAGCGAGTGCTCGCGCTGGATAACGCAGAGTTCGAACTGGATGATCTGAAATG  >  minE/2759800‑2759934
                                                                  |                                                                    
aCTGGATGCCAGCTGCCGTGGGTTTCTGCTTTTCCTTGAGCAGATTCAGGTGCTCAACCTTGAAACt                                                                      >  1:257288/1‑67 (MQ=255)
aCTGGATGCCAGCTGCCGTGGGTTTCTGCTTTTCCTTGAGCAGATTCAGGTGCTCAACCTTGAAACTc                                                                     >  1:2263112/1‑68 (MQ=255)
aCTGGATGCCAGCTGCCGTGGGTTTCTGCTTTTCCTTGAGCAGATTCAGGTGCTCAACCTTGAAACTc                                                                     >  1:2463365/1‑68 (MQ=255)
aCTGGATGCCAGCTGCCGTGGGTTTCTGCTTTTCCTTGAGCAGATTCAGGTGCTCAACCTTGAAACTc                                                                     >  1:1813808/1‑68 (MQ=255)
aCTGGATGCCAGCTGCCGTGGGTTTCTGCTTTTCCTTGAGCAGATTCAGGTGCTCAACCTTGAAACTc                                                                     >  1:1279677/1‑68 (MQ=255)
aCTGGATGCCAGCTGCCGTGGGTTTCTGCTTTTCCTTGAGCAGATTCAGGTGCTCAACCTTGAAACTc                                                                     >  1:1453759/1‑68 (MQ=255)
aCTGGATGCCAGCTGCCGTGGGTTTCTGCTTTTCCTTGAGCAGATTCACGTGCTCAACCTTGAAACTc                                                                     >  1:2654051/1‑68 (MQ=255)
    gATGCCAGCTGCCGTGTGTTTCTGCTTTTCCTTGAGCAGATTCAGGTGCTCAACCTTGAAACTCGTGaa                                                                >  1:3221758/1‑69 (MQ=255)
    gATGCCAGCTGCCGTGGGTTTCTGCTTTTCCTTGAGCAGATTCAGGTGCTCAACCTTGAAACTCGTGaa                                                                >  1:1599572/1‑69 (MQ=255)
    gATGCCAGCTGCCGTGGGTTTCTGCTTTTCCTTGAGCAGATTCAGGTGCTCAACCTTGAAACTCGTGaa                                                                >  1:1746743/1‑69 (MQ=255)
    gATGCCAGCTGCCGTGGGTTTCTGCTTTTCCTTGAGCAGATTCAGGTGCTCAACCTTGAAACTCGTGaa                                                                >  1:3061628/1‑69 (MQ=255)
          aGCTGTCGTGGTTTTCTGCTTTTCCTTGAGCAAATTCAGGTGCTTAACCTTGAAACCCGTGAAATgg                                                            >  1:1959298/1‑67 (MQ=255)
          aGCTGTCGTGGTTTTCTGCTTTTCCTTGAGCAAATTCAGGTGCTTAACCTTGAAACCCGTGAAATTGt                                                           >  1:3378190/1‑68 (MQ=255)
          aGCTGTCGTGGTTTTCTGCTTTTCCTTGAGCAAATTCAGGTGCTTAACCTTGAAACCCGTGAAATGGt                                                           >  1:2759781/1‑68 (MQ=255)
          aGCTGTCGTGGTTTTCTGCTTTTCCTTGAGCAAATTCAGGTGCTTAACCTTGAAACCCGTGAAATGGt                                                           >  1:2235242/1‑68 (MQ=255)
          aGCTGTCGTGGTTTTCTGCTTTTCCTTGAGCAAATTCAGGTGCTTAACCTTGAAACCCGTGAAATGGt                                                           >  1:2103864/1‑68 (MQ=255)
          aGCTGTCGTGGTTTTCTGCTTTTCCTTGAGCAAATTCAGGTGCTTAACCTTGAAACCCGTGAAATGGt                                                           >  1:3143663/1‑68 (MQ=255)
          aGCTGTCGTGGTTTTCTGCTTTTCCTTGAGCAAATTCAGGTGCTTAACCTTGAAACCCGTGAAATGGt                                                           >  1:1846463/1‑68 (MQ=255)
          aGCTGTCGTGGTTTTCTGCTTTTCCTTGAGCAAATTCAGGTGCTTAACCTTGAAACCCGTGAAATGGt                                                           >  1:3134509/1‑68 (MQ=255)
          aGCTGTCGTGGTTTTCTGCTTTTCCTTGAGCAAATTCAGGTGCTTAACCTTGAAACCCGTGAAATGGt                                                           >  1:1273290/1‑68 (MQ=255)
          aGCTGTCGTGGTTTTCTGCTTTTCCTTGAGCAAATTCAGGTGCTTAACCTTGAAACCCGTGAAATGGt                                                           >  1:289756/1‑68 (MQ=255)
          aGCTGTCGTGGTTTTCTGCTTTTCCTTGAGCAAATTCAGGTGCTTAACCTTGAAACCCGTGAAATGGt                                                           >  1:3393276/1‑68 (MQ=255)
          aGCTGTCGTGGTTTTCTGCTTTTCCTTGAGCAAATTCAGGTGCTTAACCTTGAAACCCGTGAAATGGt                                                           >  1:1494657/1‑68 (MQ=255)
          aGCTGTCGTGGTTTTCTGCTTTTCCTTGAGCAAATTCAGGTGCTTAACCTTGAAACCCGTGAAATGGt                                                           >  1:888069/1‑68 (MQ=255)
              gCCGTGGGTTTCTGCTTTTCCTTGAGCAGATTCAGGTGCTCAACCTTGAAACTCGTGAAATGGTGATag                                                      >  1:2887856/1‑69 (MQ=255)
                 gTGGGTTTCTGCTTTTCCTTGAGCAGATTCAGGTGCTCAACCTTGAAACTCGTGAAATGGTGATAGAGc                                                   <  1:677303/69‑1 (MQ=255)
                 gTGGGTTTCTGCTTTTCCTTGAGCAGATTAAGGTGCTCAACCTTGAAACTCGTGAAATGGTGATAGAGc                                                   <  1:3051129/69‑1 (MQ=255)
                       ttCTGCTTTTCCTTGAGCAAATTCAGGTGCTTAACCTTGAAACCCGTGAAATGGTGATAGAGCGAGTGc                                             <  1:411909/69‑1 (MQ=255)
                       ttCTGCTTTTCCTTGAGCAAATTCAGGTGCTTAACCTTGAAACCCGTGAAATGGTGATAGAGCGAGTGc                                             <  1:2356514/69‑1 (MQ=255)
                       ttCTGCTTTTCCTTGAGCAAATTCAGGTGCTTAACCTTGAAACCCGTGAAATGGTGATAGAGCGAGTGc                                             <  1:2018727/69‑1 (MQ=255)
                       ttCTGCTTTTCCTTGAGCAAATTCAGGTGCTTAACCTTGAAACCCGTGAAATGGTGATAGAGCGAGTGc                                             <  1:1588190/69‑1 (MQ=255)
                        tCTGCTTTTCCTTGAGCAGATTCAGGTGCTCAACCTTGAAACTCGTGaaa                                                               >  1:3111575/1‑50 (MQ=255)
                        tCTGCTTTTCCTTGAGCAGATTCAGGTGCTCAACCTTGAAACTCGTGAAATGGTGa                                                         >  1:419356/1‑56 (MQ=255)
                        tCTGCTTTTCCTTGAGCAGATTCAGGTGCTCAACCTTGAAACTCGTGAAATGGTGa                                                         >  1:709709/1‑56 (MQ=255)
                        tCTGCTTTTCCTTGAGCAGATTCAGGTGCTCAACCTTGAAACTCGTGAAATGGTGa                                                         >  1:2417749/1‑56 (MQ=255)
                        tCTGCTTTTCCTTGAGCAGATTCAGGTGCTCAACCTTGAAACTCGTGAAATGGTGATAGAGc                                                   <  1:917910/62‑1 (MQ=255)
                        tCTGCTTTTCCTTGAGCAGATTCAGGTGCTCAACCTTGAAACTCGTGAAATGGTGATAGAGCGAGTGc                                             >  1:3361434/1‑68 (MQ=255)
                        tCTGCTTTTCCTTGAGCAGATTCAGGTGCTCAACCTTGAAACTCGTGAAATGGTGATAGAGCGAGTGCt                                            >  1:2359166/1‑69 (MQ=255)
                        tCTGCTTTTCCTTGAGCAGATTCAGGTGCTCAACCTTGAAACTCGTGAAATGGTGATAGAGCGAGTGCt                                            >  1:1161432/1‑69 (MQ=255)
                        tCTGCTTTTCCTTGAGCAGATTCAGGTGCTCAACCTTGAAACTCGTGAAATGGTGATAGAGCGAGTGCt                                            >  1:1165704/1‑69 (MQ=255)
                        tCTGCTTTTCCTTGAGCAGATTCAGGTGCTCAACCTTGAAACTCGTGAAATGGTGATAGAGCGAGTGCt                                            >  1:3188863/1‑69 (MQ=255)
                        tCTGCTTTTCCTTGAGCAGATTCAGGTGCTCAACCTTGAAACTCGTGAAATGGTGATAGAGCGAGTGCt                                            >  1:1780765/1‑69 (MQ=255)
                        tCTGCTTTTCCTTGAGCAGATTCAGGTGCTCAACCTTGAAACTCGTGAAATGGTGATAGAGCGAGTGCt                                            >  1:95377/1‑69 (MQ=255)
                        tCTGCTTTTCCTTGAGCAGATTCAGGTGCTCAACCTTGAAACTCGTGAAATGGTGATAGAGCGAGTGCt                                            >  1:1825799/1‑69 (MQ=255)
                        tCTGCTTTTCCTTGAGCAGATTCAGGTGCTCAACCTTGAAACTCGTGAAATGGTGATAGAGCGAGTGCt                                            >  1:3123933/1‑69 (MQ=255)
                             ttttCCTTGAGCAGATTCAGGTGCTCAACCTTGAAACTCGTGAAATGGTGATAGAGCGAGTGCTCgcgc                                       >  1:310072/1‑69 (MQ=255)
                                             tCAGGTGCTCAACCTTGAAACTCGTGAAATGGTGATAGAGCGAGTGCTCGCGCTGGATAACGCAGAGt                        >  1:517752/1‑68 (MQ=255)
                                             tCAGGTGCTCAACCTTGAAACTCGTGAAATGGTGATAGAGCGAGTGCTCGCGCTGGATAACGCAGAGt                        >  1:659377/1‑68 (MQ=255)
                                             tCAGGTGCTCAACCTTGAAACTCGTGAAATGGTGATAGAGCGAGTGCTCGCGCTGGATAACGCAGAGt                        >  1:1249710/1‑68 (MQ=255)
                                             tCAGGTGCTCAACCTTGAAACTCGTGAAATGGTGATAGAGCGAGTGCTCGCGCTGGATAACGCAGAGt                        >  1:3160170/1‑68 (MQ=255)
                                             tCAGGTGCTCAACCTTGAAACTCGTGAAATGGTGATAGAGCGAGTGCTCGCGCTGCATAACGCagag                         >  1:2854326/1‑67 (MQ=255)
                                              cAGGTGCTCAACCTTGAAACTCGTGAAATGGTGATAGAGCGAGTGCTCGCGCTGGATAACGCAGAGtt                       >  1:3112725/1‑68 (MQ=255)
                                              cAGGTGCTCAACCTTGAAACTCGTGAAATGGTGATAGAGCGAGTGCTCGCGCTGGATAACGCAGAGtt                       >  1:548476/1‑68 (MQ=255)
                                              cAGGTGCTCAACCTTGAAACTCGTGAAATGGTGATAGAGCGAGTGCTCGCGCTGGATAACGCAGAGt                        >  1:3124735/1‑67 (MQ=255)
                                                ggTGCTCAACCTTGAAACTCGTGAAATGGTGATAGAGCGAGTGCTCGCGCTGGATAACGCAGAGTTCg                     <  1:706346/68‑1 (MQ=255)
                                                ggTGCTCAACCTTGAAACTCGTGAAATGGTGATAGAGCGAGTGCTCGCGCTGGATAACGCAGAGTTCg                     <  1:1674412/68‑1 (MQ=255)
                                                ggTGCTCAACCTTGAAACTCGTGAAATGGTGATAGAGCGAGTGCTCGCGCTGGATAACGCAGAGTTCg                     <  1:478591/68‑1 (MQ=255)
                                                ggTGCTCAACCTTGAAACTCGTGAAATGGTGATAGAGCGAGTGCTCGCGCTGGATAACGCAGAGTTCg                     <  1:1189832/68‑1 (MQ=255)
                                                ggTGCTCAACCTTGAAACTCGTGAAATGGTGATAGAGCGAGTGCTCGCGCTGGATAACGCAGAGTTCg                     <  1:2597154/68‑1 (MQ=255)
                                                ggTGCTCAACCTTGAAACTCGTGAAATGGTGATAGAGCGAGTGCTCGCGCTGGATAACGCAGAGTTCg                     <  1:334555/68‑1 (MQ=255)
                                                 gTGCTCAACCTTGAAACTCGTGAAATGGTGATAGAGCGAGTGCTCGCGCTGGATAACGCAGAGTTCg                     <  1:1729673/67‑1 (MQ=255)
                                                  tGCTCAACCTTGAAACTCGTGAAATGGTGATAGAGCGAGTGCTCGCGCTGGATAACGCAGAGTTCGAAc                  >  1:1389383/1‑69 (MQ=255)
                                                  tGCTCAACCTTGAAACTCGTGAAATGGTGATAGAGCGAGTGCTCGCGCTGGATAACGCAGAGTTCGAAc                  >  1:1360535/1‑69 (MQ=255)
                                                  tGCTCAACCTTGAAACTCGTGAAATGGTGATAGAGCGAGTGCTCGCGCTGGATAACGCAGAGTTCGAAc                  >  1:650410/1‑69 (MQ=255)
                                                  tGCTCAACCTTGAAACTCGTGAAATGGTGATAGAGCGAGTGCTCGCGCTGGATAACGCAGAGTTCGAAc                  >  1:2481414/1‑69 (MQ=255)
                                                   gCTCAACCTTGAAACTCGTGAAATGGTGATAGAGCGAGTGCTCGCGCTGGATAACGCAGAGTTCGAAc                  >  1:524823/1‑68 (MQ=255)
                                                   gCTCAACCTTGAAACTCGTGAAATGGTGATAGAGCGAGTGCTCGCGCTGGATAACGCAGAGTTCGAAc                  >  1:368506/1‑68 (MQ=255)
                                                   gCTCAACCTTGAAACTCGTGAAATGGTGATAGAGCGAGTGCTCGCGCTGGATAACGCAGAGTTAGAAc                  >  1:3314883/1‑68 (MQ=255)
                                                       aaCCTTGAAACTCGTGAAATGGTGATAGAGCGAGTGCTCGCGCTGGATAACGCAGAGTTCGAACTGgat             >  1:668685/1‑69 (MQ=255)
                                                       aaCCTTGAAACTCGTGAAATGGTGATAGAGCGAGTGCTCGCGCTGGATAACGCAGAGTTCGAACTGgat             >  1:2671637/1‑69 (MQ=255)
                                                       aaCCTTGAAACTCGTGAAATGGTGATAGAGCGAGTGCTCGCGCTGGATAACGCAGAGTTCGAACTGgat             >  1:3054171/1‑69 (MQ=255)
                                                       aaCCTTGAAACTCGTGAAATGGTGATAGAGCGAGTGCTCGCGCTGGATAACGCAGAGTTCGAACTGgat             >  1:1048953/1‑69 (MQ=255)
                                                       aaCCTTGAAACTCGTGAAATGGTGATAGAGCGAGTGCTCGCGCTGGATAACGCAGAGTTCGAACTGgat             >  1:1372079/1‑69 (MQ=255)
                                                       aaCCTTGAAACTCGTGAAATGGTGATAGAGCGAGTGCTCGCGCTGGATAACGCAGAGTTCGAACTGgat             >  1:1795182/1‑69 (MQ=255)
                                                       aaCCTTGAAACTCGTGAAATGGTGATAGAGCGAGTGCTCGCGCTGGATAACGCAGAGTTCGAACTGga              >  1:2606752/1‑68 (MQ=255)
                                                         ccTTGAAACCCGTGAAATGGTGATAGAGCGAGTGc                                             <  1:655343/35‑1 (MQ=255)
                                                          cTTGAAACTCGTGAAATGGTGATAGAGCGAGTGCTCGCGCTGGATAACGCAGAGTTCGAACTGgatg            <  1:2935587/67‑1 (MQ=255)
                                                          cTTGAAACTCGTGAAATGGTGATAGAGCGAGTGCTCGCGCTGGATAACGCAGAGTTCGAACTGgatg            <  1:1299839/67‑1 (MQ=255)
                                                          cTTGAAACTCGTGAAATGGTGATAGAGCGAGTGCTCGCGCTGGATAACGCAGAGTTCGAACTGgatg            <  1:756375/67‑1 (MQ=255)
                                                          cTTGAAACTCGTGAAATGGTGATAGAGCGAGTGCTCGCGCTGGATAACGCAGAGTTCGAACTGgatg            >  1:132758/1‑67 (MQ=255)
                                                          cTTGAAACTCGTGAAATGGTGATAGAGCGAGTGCTCGCGCTGGATAACGCAGAGTTCGAACTGgatg            <  1:689291/67‑1 (MQ=255)
                                                          cTTGAAACTCGTGAAATGGTGATAGAGCGAGTGCTCGCGCTGGATAACGCAGAGTTCGAACTGgatg            <  1:1714695/67‑1 (MQ=255)
                                                          cTTGAAACTCGTGAAATGGTGATAGAGCGAGTGCTCGCGCTGGATAACGCAGAGTTCGAACTGgatg            <  1:1777088/67‑1 (MQ=255)
                                                          cTTGAAACTCGTGAAATGGTGATAGAGCGAGTGCTCGCGCTGGATAACGCAGAGTTCGAACTGgatg            <  1:637814/67‑1 (MQ=255)
                                                          cTTGAAACTCGTGAAATGGTGATAGAGCGAGTGCTCGCGCTGGATAACGCAGAGTTCGAACTGgatg            <  1:1936998/67‑1 (MQ=255)
                                                          cTTGAAACTCGTGAAATGGTGATAGAGCGAGTGCTCGCGCTGGATAACGCAGAGTTCGAACTGgatg            <  1:2412829/67‑1 (MQ=255)
                                                          cTTGAAACTCGTGAAATGGTGATAGAGCGAGTGCTCGCGCTGGATAACGCAGAGTTCGAACTGgatg            <  1:265991/67‑1 (MQ=255)
                                                          cTTGAAACTCGTGAAATGGTGATAGAGCGAGTGCTCGCGCTGGATAACGCAGAGTTCGAACTGgatg            >  1:2878471/1‑67 (MQ=255)
                                                                  tCGTGAAATGGTGATAGAGCGAGTGCTCGCGCTGGATAACGCAGAGTTCGAACTGGATGATCTGAAATg  <  1:1367045/69‑1 (MQ=255)
                                                                  tCGTGAAATGGTGATAGAGCGAGTGCTCGCGCTGGATAACGCAGAGTTCGAACTGGATGATCTGAAATg  <  1:2861356/69‑1 (MQ=255)
                                                                  tCGTGAAATGGTGATAGAGCGAGTGCTCGCGCTGGATAACGCAGAGTTCGAACTGGATGATCTGAAATg  <  1:899413/69‑1 (MQ=255)
                                                                  tCGTGAAATGGTGATAGAGCGAGTGCTCGCGCTGGATAACGCAGAGTTCGAACTGGATGATCTGAAATg  <  1:1034764/69‑1 (MQ=255)
                                                                  tCGTGAAATGGTGATAGAGCGAGTGCTCGCGCTGGATAACGCAGAGTTCGAACTGGATGACCTGAAATg  <  1:1016883/69‑1 (MQ=255)
                                                                  |                                                                    
ACTGGATGCCAGCTGCCGTGGGTTTCTGCTTTTCCTTGAGCAGATTCAGGTGCTCAACCTTGAAACTCGTGAAATGGTGATAGAGCGAGTGCTCGCGCTGGATAACGCAGAGTTCGAACTGGATGATCTGAAATG  >  minE/2759800‑2759934

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