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
A6 F21 I0 R1 2169 63.0 3952800 76.2% 3012033 62.4

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA minE 1,314,255 T→C 56.6% H170H (CAT→CAC)  hisB → fused histidinol‑phosphatase and imidazoleglycerol‑phosphate dehydratase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,314,2550TC56.6% 49.2 / 127.4 106H170H (CAT→CAC) hisBfused histidinol‑phosphatase and imidazoleglycerol‑phosphate dehydratase
Reads supporting (aligned to +/- strand):  ref base T (19/27);  new base C (28/32);  total (47/59)
Fisher's exact test for biased strand distribution p-value = 6.94e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 106 total aligned reads displayed.

CTACGACCGCGAAACCCTGAACTGGCCAATGATTGGCGAGCAACTCACCAGACGTGACCGTTACGCTCATGTAGTGCGTAATACCAAAGAGACGCAGATTGACGTTCAGGTGTGGCTGGATCGTGAAGGTGGCAGCAA  >  minE/1314186‑1314323
                                                                     |                                                                    
cTACGACCGCGAAACCCTGAACTGGCCAATGATTGGCGAGCAACTCACCAGACGTGACCGTTACGCTCATg                                                                     <  1:805249/71‑1 (MQ=255)
   cGACCGCGAAACCCTGAACTGGCCAATGATTGGCGAGCAACTCACCAGACGTGACCGTTACGCTCACGt                                                                    <  1:3241858/69‑1 (MQ=255)
   cGACCGCGAAACCCTGAACTGGCCAATGATTGGCGAGCAACTCACCAGACGTGACCGTTACGCTCACGt                                                                    <  1:2880957/69‑1 (MQ=255)
   cGACCGCGAAACCCTGAACTGGCCAATGATTGGCGAGCAACTCACCAGACGTGACCGTTACGCTCACGTa                                                                   <  1:2988896/70‑1 (MQ=255)
   cGACCGCGAAACCCTGAACTGGCCAATGATTGGCGAGCAACTCACCAGACGTGACCGTTACGCTCACGTAg                                                                  >  1:1221556/1‑71 (MQ=255)
     aCCGCGAAACCCTGAACTGGCCAATGATTGGCGAGCAACTCACCAGACGTGACCGTTACGCTCATGTAGTg                                                                <  1:2765797/71‑1 (MQ=255)
     aCCGCGAAACCCTGAACTGGCCAATGATTGGCGAGCAACTCACCAGACGTGACCGTTACGCTCACGTAGTg                                                                >  1:629255/1‑71 (MQ=255)
      ccGCGAAACCCTGAACTGGCCAATGATTGGCGAGCAACTCACCAGACGTGACCGTTACGCTCACGTAGTGc                                                               >  1:1629869/1‑71 (MQ=255)
       cgcgAAACCCTGAACTGGCCAATGATTGGCGAGCAACTCACCAGACGTGACCGTTACGCTCACGTAGTGc                                                               <  1:790683/70‑1 (MQ=255)
       cgcgAAACCCTGAACTGGCCAATGATTGGCGAGCAACTCACCAGACGTGACCGTTACGCTCACGTAGTGCg                                                              >  1:2123979/1‑71 (MQ=255)
        gcgAAACCCTGAACTGGCCAATGATTGGCGAGCAACTCACCAGACGTGACCGTTACGCTCATGTAGTGCg                                                              >  1:2668384/1‑70 (MQ=255)
        gcgAAACCCTGAACTGGCCAATGATTGGCGAGCAACTCACCAGACGTGACCGTTACGCTCATGTAGTGCGt                                                             <  1:1285317/71‑1 (MQ=255)
        gcgAAACCCTGAACTGGCCAATGATTGGCGAGCAACTCACCAGACGTGACCGTTACGCTCACGTAGTGCGt                                                             <  1:2706131/71‑1 (MQ=255)
        gcgAAACCCTGAACTGGCCAATGATTGGCGAGCAACTCACCAGACGTGACCGTTACGCTCACGTAGTGCGt                                                             <  1:1811346/71‑1 (MQ=255)
          gAAACCCTGAACTGGCCAATGATTGGCGAGCAACTCACCAGACGTGACCGTTACGCTCATGTAg                                                                  <  1:2923321/64‑1 (MQ=255)
          gAAACCCTGAACTGGCCAATGATTGGCGAGCAACTCACCAGACGTGACCGTTACGCTCACGTAGTGCGTaa                                                           <  1:1837998/71‑1 (MQ=255)
              cccTGAACTGGCCAATGATTGGCGAGCAACTCACCAGACGTGACCGTTACGCTCACGTAGTGCGTAATAc                                                        >  1:3615924/1‑70 (MQ=255)
               ccTGAACTGGCCAATGATTGGCGAGCAACTCACCAGACTTGACCGTTACGCTCATGTAGTGCGt                                                             <  1:2774198/64‑1 (MQ=255)
                cTGAACTGGCCAATGATTGGCGAGCAACTCACCAGACGTGACCGTTACGCTCACGTAGt                                                                 >  1:3425567/1‑59 (MQ=255)
                cTGAACTGGCCAATGATTGGCGAGCAACTCACCAGACGTGACCGTTACGCTCACGTAGTGCGTAATACCa                                                      >  1:3176641/1‑70 (MQ=255)
                 tGAACTGGCCAATGATTGGCGAGCAACTCACCAGACGTGACCGTTACGCTCACGTAGTGCGTAATACCa                                                      >  1:902987/1‑69 (MQ=255)
                  gAACTGGCCAATGATTGGCGAGCAACTCACCAGACGTGACCGTTACGCTCATGTAGTGCGTAATACCa                                                      >  1:1849963/1‑68 (MQ=255)
                   aaCTGGCCAATGATTGGCGAGCAACTCACCAGACGTGACCGTTACGCTCATGTAGTGCGTAATACCaaa                                                    <  1:1062828/69‑1 (MQ=255)
                   aaCTGGCCAATGATTGGCGAGCAACTCACCAGACGTGACCGTTACGCTCACGTAGTGCGTAATACCaaa                                                    <  1:1683564/69‑1 (MQ=255)
                   aaCTGGCCAATGATTGGCGAGCAACTCACCAGACGTGACCGTTACGCTCACGTAGTGCGTAATACCaaa                                                    <  1:3025317/69‑1 (MQ=255)
                     cTGGCCAATGATTGGCGAGCAACTCACCAGACGTGACCGTTACGCTCATGTAGTGCGTAATACCAAAgaga                                                <  1:729864/71‑1 (MQ=255)
                       ggCCAATGATTGGCGAGCAACTCACCAGACGTGACCGTTACGCTCACGTAGTGCGTAATACCAAAGAGACg                                              >  1:1776207/1‑71 (MQ=255)
                           aaTGATTGGCGCGCAACTCACCAGACGTGACCGTTACGCTCACGTAGTGCGTAATACCAAAGAGACg                                              >  1:2151753/1‑67 (MQ=255)
                           aaTGATTGGCGAGCAACTCACCAGACGTGACCGTTACGCTCACGTAGTGCGTAATACCAAAGAGACg                                              >  1:1044072/1‑67 (MQ=255)
                            aTGATTGGCGAGCAACTCACCAGACGTGACCGTTACGCTCATGTAGTGCGTAATACCAAAGAGACGc                                             >  1:3588101/1‑67 (MQ=255)
                            aTGATTGGCGAGCAACTCACCAGACGTGACCGTTACGCTCACGTAGTGCGTAATACCAAAGAGACGCAGAt                                         >  1:172241/1‑71 (MQ=255)
                             tGATTGGCGAGCAACTCACCAGACGTGACCGTTACGCTCATGTAGTGCGTAATACCAAAGAGACGCAGAtt                                        >  1:1938453/1‑71 (MQ=255)
                             agATTGGCGAGCAACTCACCAGACGTGACCGTTACGCTCACGTAGTGCGTAATACCAAAGAGACGCAGAtt                                        >  1:3122501/2‑71 (MQ=255)
                              gATTGGCGAGCAACTCACCAGACGTGACCGTTACGCTCATGTAg                                                                  >  1:2739333/1‑44 (MQ=255)
                              gATTGGCGAGCAACTCACCAGACGTGACCGTTACGCTCATGTAGTGCg                                                              >  1:2473941/1‑48 (MQ=255)
                               aTTGGCGAGCAACTCACCAGACGTGACCGTTACGCTCATGt                                                                    <  1:3540700/41‑1 (MQ=255)
                               aTTGGCGAGCAACTCACCAGACGTGACCGTTACGCTCATGTAGTGCGTAATACCAAAGAGACGCAGAtt                                        <  1:1012857/69‑1 (MQ=255)
                               aTTGGCGAGCAACTCACCAGACGTGACCGTTACGCTCATGTAGTGCGTAATACCAAAGAGACGCAGATTg                                       <  1:879541/70‑1 (MQ=255)
                               aTTGGCGAGCAACTCACCAGACGTGACCGTTACGCTCACGTAGTGCGTAATACCAAAGAGACGCAGATTg                                       <  1:3540493/70‑1 (MQ=255)
                               aTTGGCGAGCAACTCACCAGACGTGACCGTTACGCTCACGTAGTGCGTAATACCAAAGAGACGCAGATTg                                       <  1:1381407/70‑1 (MQ=255)
                               aTTGGCGAGCAACTCACCAGACGTGACCGTTACGCTCACGTAGTGCGTAATACCAAAGAGACGCAGATTg                                       <  1:2839939/70‑1 (MQ=255)
                               aTTGGCGAGCAACTCACCAGACGTGACCGTTACGCTCACGTAGTGCGTAATACCAAAGAGACGCAGATTGa                                      <  1:1402223/71‑1 (MQ=255)
                                ttGGCGAGCAACTCACCAGACGTGACCGTTACGCTCACGTAGTGCGTAATACCAAAGAGACGCAGATTGAc                                     >  1:3244573/1‑71 (MQ=255)
                                   gCGAGCAACTCACCAGACGTGACCGTTACGCTCATGTAGTGCGTAATACCAAAGAGACGCAGATTGACGt                                   <  1:2342047/70‑1 (MQ=255)
                                     gAGCAACTCACCAGACGTGACCGTTACGCTCACGTAGTGCGTAATACCAAAGAGACTCAGa                                          <  1:3478605/61‑1 (MQ=255)
                                       gCAACTCACCAGACGTGACCGTTACGCTCATGTAGTGCGTAATACCAAAGAGACGCAGATTGACGTTCAgg                              <  1:312195/71‑1 (MQ=255)
                                       gCAACTCACCAGACGTGACCGTTACGCTCATGTAGTGCGTAATACCAAAGAGACGCAGATTGACGTTCAg                               <  1:523066/70‑1 (MQ=255)
                                         aaCTCACCAGACGTGACCGTTACGCTCATGTAGTGCGTAATACCAAAGAGACGCAGATTGACGTTCAGgtg                            <  1:2545962/71‑1 (MQ=255)
                                         aaCTCACCAGACGTGACCGTTACGCTCACGTAGTGCGTAATACCAAAGAGACGCAGATTGACGTTCAGgtg                            <  1:715637/71‑1 (MQ=255)
                                         aaCTCACCAGACGTGACCGTTACGCTCACGTAGTGCGTAATACCAAAGAGACGCAGATTGACGTTCAGgtg                            <  1:877530/71‑1 (MQ=255)
                                          aCTCACCAGACGTGACCGTTACGCTCACGTAGTGCGTAATACCAAAGAGACGCAGa                                          <  1:1025287/56‑1 (MQ=255)
                                           cTCACCAGACGTGACCGTTACGCTCACGTAGTGCGTAATACCAAAGAGACGCAGATTGACGTTCAGGtgtg                          >  1:859462/1‑71 (MQ=255)
                                            tCACCAGACGTGACCGTTACGCTCATGTAGTGCGTAATACCAAAGAGACGCAGATTGACGTTCAGGTGTgg                         >  1:762788/1‑71 (MQ=255)
                                            tCACCAGACGTGACCGTTACGCTCACGTAGTGCGTAATACCAAAGAGACGCAGATTGACGTTCAGGtgtg                          >  1:1688227/1‑70 (MQ=255)
                                            tCACCAGACGTGACCGTTACGCTCACGTAGTGCGTAATACCAAAGAGACGCAGATTGACGTTCAGGTGTgg                         >  1:741924/1‑71 (MQ=255)
                                             cACCAGACGTGACCGTTACGCTCACGTAGTGCGTAATACCAAAGAGACGCAGATTGACGTTCAGGTGTgg                         >  1:888556/1‑70 (MQ=255)
                                             cACCAGACGTGACCGTTACGCTCACGTAGTGCGTAATACCAAAGAGACGCAGATTGACGTTCAGGTGTGGc                        >  1:2059847/1‑71 (MQ=255)
                                              aCCAGACGTGACCGTTACGCTCATGTAGTGCGTAATACCAAAGAGACGCAGAtt                                        <  1:3079058/54‑1 (MQ=255)
                                              aCCAGACGTGACCGTTACGCTCATGTAGTGCGTAATACCAAAGAGACGCAGATTGACGTTCAGGTGTGGc                        <  1:3384690/70‑1 (MQ=255)
                                              aCCAGACGTGACCGTTACGCTCATGTAGTGCGTAATACCAAAGAGACGCAGATTGACGTTCAGGTGTGGc                        <  1:1037950/70‑1 (MQ=255)
                                              aCCAGACGTGACCGTTACGCTCATGTAGTGCGTAATACCAAAGAGACGCAGATTGACGTTCAGGTGTGGCt                       <  1:473869/71‑1 (MQ=255)
                                              aCCAGACGTGACCGTTACGCTCATGTAGTGCGTAATACCAAAGAGACGCAGATTGACGTTCAGGTGTGGCt                       >  1:2164684/1‑71 (MQ=255)
                                              aCCAGACGTGACCGTTACGCTCATGTAGTGCGTAATACCAAAGAGACGCAGATTGACGTTCAGGTGTGGCt                       <  1:1326882/71‑1 (MQ=255)
                                              aCCAGACGTGACCGTTACGCTCATGTAGTGCGTAATACCAAAGAGACGCAGATTGACGTTCAGGTGTGGCt                       >  1:141554/1‑71 (MQ=255)
                                              aCCAGACGTGACCGTTACGCTCACGTAGTGCGTAATAcc                                                       <  1:145208/39‑1 (MQ=255)
                                              aCCAGACGTGACCGTTACGCTCACGTAGTGCGTAATACCAAAGAGACGCAGATTGACGTTCAGGTGTgg                         <  1:1266480/69‑1 (MQ=255)
                                               ccAGACGTGACCGTTACGCTCATGTAGTGCGTAATACCAAAGAGACGCAGATTGACGTTCAGGTGTGGCTg                      <  1:453307/71‑1 (MQ=255)
                                               ccAGACGTGACCGTTACGCTCATGTAGTGCGTAATAACAAAGAGACGCAGATTGACGTTCAGGTGTGGCTg                      >  1:3388199/1‑71 (MQ=255)
                                                cAGACGTGACCGTTACGCTCATGTAGTGCGTAATACCAAagat                                                 >  1:931663/1‑42 (MQ=255)
                                                cAGACGTGACCGTTACGCTCATGTAGTGCGTAATACCAAAGAGACGCAGATTGACGTTCAGGTGTGGCTg                      >  1:1305351/1‑70 (MQ=255)
                                                cAGACGTGACCGTTACGCTCATGTAGTGCGTAATACCAAAGAGACGCAGATTGACGTTCAGGTGTGGCTg                      >  1:1116108/1‑70 (MQ=255)
                                                cAGACGTGACCGTTACGCTCACGTAGTGCGTAATACCAAAGAGACGCAGATTGACGTTCAGGTGTGGCTgg                     <  1:3750350/71‑1 (MQ=255)
                                                cAGACGTGACCGTTACGCTCACGTAGTGCGTAATACCAAAGAGACGCAGATTGACGTTCAGGTGTGGCTgg                     <  1:2841107/71‑1 (MQ=255)
                                                 aGACGTGACCGTTACGCTCATGTAGTGCGTAATACCAAAGAGACGCAGATTGACGTTCAGGTGTGGCTGGa                    >  1:3673252/1‑71 (MQ=255)
                                                 aGACGTGACCGTTACGCTCATGTAGTGCGTAATACCAAAGAGACGCAGATTGACGTTCAGGTGTGGCTGGa                    <  1:130790/71‑1 (MQ=255)
                                                  gACGTGACCGTTACGCTCATGTAGTGCGTAATACCAAAGAGACGCAGATTGACGTTCAGGTGTGGCTGGAt                   <  1:3632440/71‑1 (MQ=255)
                                                  gACGTGACCGTTACGCTCACGTAGTGCGTAATACCAAAGAGACGCAGATTGACGTTCAGGTGTGGCTGGAt                   >  1:1189277/1‑71 (MQ=255)
                                                   aCGTGACCGTTACGCTCATGTAGTGCGTAATACCAAAgaga                                                >  1:2516031/1‑41 (MQ=255)
                                                     gTGACCGTTACGCTCATGTAGTGCGTAATACCAAAGAGACGCAGATTGACGTTCAGGTTTGGCTGGATCGt                >  1:2775008/1‑71 (MQ=255)
                                                     gTGACCGTTACGCTCATGTAGTGCGTAATACCAAAGAGACGCAGATTGACGTTCAGGTGTGGCTGGATCGt                >  1:3437078/1‑71 (MQ=255)
                                                      tGACCGTTACGCTCACGTAGTGCGTAATACCAAAGAGACGCAGATTGACGTTCAGGTGTGGCTGGATCGTg               <  1:2848290/71‑1 (MQ=255)
                                                        aCCGTTACGCTCACGTAGTGCGTAATACCAAAGAGACGCAGATTGACGTTCAGGTGTGGCTGGATCGTGa              <  1:1095086/70‑1 (MQ=255)
                                                        aCCGTTACGCTCACGTAGTGCGTAATACCAAAGAGACGCAGATTGACGTTCAGGTGTGGCTGGATCGTGa              <  1:2186376/70‑1 (MQ=255)
                                                         ccGTTACGCTCACGTAGTGCGTAATACCAAAGAGACGCAGATTGACGTTCAGGTGTGGCTGGATCGTGAAg            >  1:1091005/1‑71 (MQ=255)
                                                         ccGTTACGCTCACGTAGTGCGTAATACCAAAGAGACGCAGATTGACGTTCAGGTGTGGCTGGATCGTGAAg            >  1:3062413/1‑71 (MQ=255)
                                                          cGTTACGCTCACGTAGTGCGTAATACCAAAGAGACGCAGATTGACGTTCAGGTGTGGCTGGATCGTGAAg            >  1:2224746/1‑70 (MQ=255)
                                                           gTTACGCTCACGTAGTGCGTAATACCAAAGAGACGCAGATTGACGTTCAGGTGTGGCTGGATCGTGAAGGt          <  1:3573643/71‑1 (MQ=255)
                                                            ttACGCTCATGTAGTGCGTAATACCAAAGAGACGCAGATTGACGTTCAGGTGTGGCTGGATCGTGAAgg           >  1:1136128/1‑69 (MQ=255)
                                                            ttACGCTCACGTAGTGCGTAATACCAAAGAGACGCAGATTGACGTTCAGGTGTGGCTGGATCGTGAAGGTg         >  1:3266711/1‑71 (MQ=255)
                                                              aCGCTCATGTAGTGCGTAATACCAAAGAGACGCAGATTGACGTTCAGGTGTGGCTGGATCGTGAAGGTgg        <  1:3307130/70‑1 (MQ=255)
                                                              aCGCTCATGTAGTGCGTAATACCAAAGAGACGCAGATTGACGTTCAGGTGTGGCTGGATCGTGAAGGTgg        <  1:1789041/70‑1 (MQ=255)
                                                              aCGCTCACGTAGTGCGTAATACCAAAGAGACGCAGATTGACGTTCAGGTGTGGCTGGATCGTGAAGTTgg        <  1:1719278/70‑1 (MQ=255)
                                                              aCGCTCACGTAGTGCGTAATACCAAAGAGACGCAGATTGACGTTCAGGTGTGGCTGGATCGTGAAGGTgg        <  1:1753802/70‑1 (MQ=255)
                                                                gCTCATGTAGTGCGTAATACCAAAGAGACGCAGATTGACGTTCAGGTGTGGCTGGATCGTGAAGGTgg        <  1:1210082/68‑1 (MQ=255)
                                                                gCTCACGTAGTGCGTAATACCAAAGAGACGCAGATTGACGTTCAGGTGTGGCTGGATCGTGAAGGTGgcag     >  1:158610/1‑71 (MQ=255)
                                                                  tCATGTAGTGCGTAATACCAAAGAGACGCAGATTGACGtt                                  <  1:356440/40‑1 (MQ=255)
                                                                  tCATGTAGTGCGTAATACCAAAGAGACGCAGATTGACGTTCAGGTGTGGCTGGATCGTGAAGGTGgcagc    >  1:3179226/1‑70 (MQ=255)
                                                                  tCACGTAGTGCGTAATACCAAAGAGACGCAGATTg                                       <  1:2330067/35‑1 (MQ=255)
                                                                  tCACGTAGTGCGTAATACCAAAGAGACGCAGATTg                                       <  1:2059214/35‑1 (MQ=255)
                                                                    aTGTAGTGCGTAATACCAAAGAGACGCAGATTGACGTTCAGGTGTGGCTGGATCGTGAAGGTGGCAGCaa  <  1:3337898/70‑1 (MQ=255)
                                                                     |                                                                    
CTACGACCGCGAAACCCTGAACTGGCCAATGATTGGCGAGCAACTCACCAGACGTGACCGTTACGCTCATGTAGTGCGTAATACCAAAGAGACGCAGATTGACGTTCAGGTGTGGCTGGATCGTGAAGGTGGCAGCAA  >  minE/1314186‑1314323

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