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 F17 I0 R2 159 90.8 4763082 92.7% 4415377 60.7

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA minE 1,093,658 T→C 20.8% T907A (ACA→GCA)  ydiJ ← predicted FAD‑linked oxidoreductase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,093,6580TC20.8% 216.4 / 54.2 101T907A (ACA→GCA) ydiJpredicted FAD‑linked oxidoreductase
Reads supporting (aligned to +/- strand):  ref base T (28/52);  new base C (14/7);  total (42/59)
Fisher's exact test for biased strand distribution p-value = 1.25e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.78e-01

Only 100 of 105 total aligned reads displayed.

GCGCACCCGGCAAGGCGGTAACTTCGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGTAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCCATTCATTCGCCAGTAAGACGTTAAACTCGCCACGC  >  minE/1093592‑1093728
                                                                  |                                                                      
gcgcACCCGGCAAGGCGGTAACTTCGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGTAGc                                                                     <  1:2897164/70‑1 (MQ=255)
gcgcACCCGGCAAGGCGGTAACTTCGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGTAGc                                                                     <  1:790626/70‑1 (MQ=255)
       cGGCAAGGCGGTAACTTCGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGCAGCCACTGGCt                                                             >  1:3538754/1‑71 (MQ=255)
        ggCAAGGCGGTAACTTCGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGTAGCCACTGGCtg                                                            >  1:3000481/1‑71 (MQ=255)
        ggCAAGGCGGTAACTTCGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGCAGCCACTGGCtg                                                            >  1:128765/1‑71 (MQ=255)
        ggCAAGGCGGTAACTTCGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGCAGCCACTGGCtg                                                            >  1:4748707/1‑71 (MQ=255)
         gCAAGGCGGTAACTTCGGTACAGTGACCAATGAAATACCATGATTCACCGCTGACTGTAGc                                                                     <  1:1743769/61‑1 (MQ=255)
         gCAAGGCGGTAACTTCAGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGTAGCCACTGGCtgt                                                           <  1:1072304/71‑1 (MQ=255)
          cAAGGCGGTAACTTCGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGTAGCCACTGGCtgtg                                                          <  1:3186342/71‑1 (MQ=255)
              gCGGTAACTTCGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGTAGCCACTGGCTGTGACt                                                       >  1:1553164/1‑70 (MQ=255)
                ggTAACTTCGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGTAGCCACTGGCTGTGACTCaa                                                    <  1:2185484/71‑1 (MQ=255)
                  tAACTTCGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGTAGCCACTGGCTGTGAc                                                        <  1:3828780/65‑1 (MQ=255)
                  tAACTTCGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGTAGCCACTGGCTGTGAc                                                        <  1:1976994/65‑1 (MQ=255)
                  tAACTTCGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGTAGCCACTGGCTGTGACTCAAGt                                                  <  1:636766/71‑1 (MQ=255)
                  tAACTTCGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGTAGCCACTGGCTGTGACTCAAGt                                                  <  1:221310/71‑1 (MQ=255)
                    aCTTCGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGTAGCCACTgg                                                               <  1:1992777/56‑1 (MQ=255)
                    aCTTCGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGTAGCCACTgg                                                               <  1:1431394/56‑1 (MQ=255)
                    aCTTCGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGTAGCCACTgg                                                               <  1:3717770/56‑1 (MQ=255)
                     cTTCGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGTAGCCACTGGCTGTGa                                                         <  1:823933/61‑1 (MQ=255)
                     cTTCGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGTAGCCACTGGCTGTGACTCAAGTgcg                                               <  1:1884416/71‑1 (MQ=255)
                     cTTCGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGTAGCCACTGGCTGTGACTCAAGTgcg                                               <  1:2778013/71‑1 (MQ=255)
                      ttCGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGTAGcc                                                                    <  1:144055/49‑1 (MQ=255)
                      ttCGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGTAGcc                                                                    <  1:4545353/49‑1 (MQ=255)
                      ttCGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGTAGCCACTGGCTGTGACTCAAGTg                                                 <  1:2213710/68‑1 (MQ=255)
                      ttCGGTACAGTGACCAAAGAAATACCATGATACACCGCTGACTGTAGcc                                                                    <  1:3074607/49‑1 (MQ=255)
                       tCGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGTAGCCACTGGCTGTGACTCAAGTGCGCt                                             >  1:2262173/1‑71 (MQ=255)
                       tCGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGCAGCCACTGGCTGTGACTCAAGTGCGCt                                             >  1:3534134/1‑71 (MQ=255)
                       tCGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGCAGCCACTGGCTGTGACTCAAGTGCGCt                                             >  1:2735193/1‑71 (MQ=255)
                       tCGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGCAGCCACTGGCTGTGACTCAAGTGCGCt                                             >  1:2902779/1‑71 (MQ=255)
                       tCGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGCAGCCACTGGCTGTGACTCAAGTGCGCt                                             >  1:2082854/1‑71 (MQ=255)
                       tCGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGCAGCCACTGGCTGTGACTCAAGTGCGCt                                             >  1:3623312/1‑71 (MQ=255)
                        cGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGTAGCCACTGGCTGTGa                                                         >  1:1380149/1‑58 (MQ=255)
                        cGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGTAGCCACTGGCTGTGa                                                         >  1:32058/1‑58 (MQ=255)
                        cGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGTAGCCACTGGCTGTGa                                                         >  1:4498860/1‑58 (MQ=255)
                        cGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGTAGCCACTGGCTGTGa                                                         >  1:1829858/1‑58 (MQ=255)
                        cGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGTAGCCACTGGCTGTGACTCAAGTGCGCtt                                            >  1:3960713/1‑71 (MQ=255)
                        cGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGTAGCCACTGGCTGTGACTCAAGTGCGCtt                                            >  1:3761624/1‑71 (MQ=255)
                        cGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGCAGCCa                                                                   >  1:4362988/1‑48 (MQ=255)
                         ggTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGTAGCCACTGGCTGTGACTCAAGTGCGCtt                                            <  1:1949694/70‑1 (MQ=255)
                         ggTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGTAGCCACTGGCTGTGACTCAAGTGCGCtt                                            <  1:3238527/70‑1 (MQ=255)
                         ggTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGTAGCCACTGGCTGTGACTCAAGTGCGCtt                                            <  1:1146323/70‑1 (MQ=255)
                         ggTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGTAGCCACTGGCTGTGACTCAAGTGCGCtt                                            <  1:3744262/70‑1 (MQ=255)
                          gTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGTAGCCACTGGCTGTGACTCAAGTGCGCTTgc                                          <  1:344842/71‑1 (MQ=255)
                          gTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGTAGCCACTGGCTGTGACTCAAGTGCGCTTgc                                          <  1:3212462/71‑1 (MQ=255)
                          gTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGTAGCCACTGGCTGTGACTCAAGTGCGCTTgc                                          <  1:1299060/71‑1 (MQ=255)
                           tACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGTAGCCACTgg                                                               <  1:3494233/49‑1 (MQ=255)
                           tACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGTAGCCACTGGCTGTGACTCAAGTGCGCTTgc                                          >  1:724850/1‑70 (MQ=255)
                             cAGTGACCAAAGAAATACCATGATTCACCGCTGACTGTAGCCACTGGCTGTGACTCAAGTGCGCTTgccag                                       <  1:2777627/71‑1 (MQ=255)
                             cAGTGACCAAAGAAATACCATGATTCACCGCTGACTGTAGCCACTGGCTGTGACTCAAGTGCGCTTgccag                                       >  1:679939/1‑71 (MQ=255)
                              aGTGACCAAAGAAATACCATGATTCACCGCTGACTGTAGCCACTg                                                                <  1:337843/45‑1 (MQ=255)
                              aGTGACCAAAGAAATACCATGATTCACCGCTGACTGTAGCCACTg                                                                <  1:4089544/45‑1 (MQ=255)
                              aGTGACCAAAGAAATACCATGATTCACCGCTGACTGTAGCCACTg                                                                <  1:343404/45‑1 (MQ=255)
                              aGTGACCAAAGAAATACCATGATTCACCGCTGACTGTAGCCACTg                                                                <  1:3133487/45‑1 (MQ=255)
                              aGTGACCAAAGAAATACCATGATTCACCGCTGACTGTAGCCACTg                                                                <  1:1880429/45‑1 (MQ=255)
                              aGTGACCAAAGAAATACCATGATTCACCGCTGACTGTAGCCACTg                                                                <  1:139777/45‑1 (MQ=255)
                               gTGACCAAAGAAATACCATGATTCACCGCTGACTGTAGCCACTGGCTGTGACTCAAGTGCGCTTgccagcc                                     <  1:3921864/71‑1 (MQ=255)
                               gTGACCAAAGAAATACCATGATTCACCGCTGACTGTAGCCACTGGCTGTGACTCAAGTGCGCTTgccagc                                      >  1:1553277/1‑70 (MQ=255)
                               gTGACCAAAGAAATACCATGATTCACCGCTGACTGTAGCCACTGGCTGTGACTCAAGTGCGCTTgccag                                       <  1:1327589/69‑1 (MQ=255)
                                  aCCAAAGAAATACCATGATTCACCGCTGACTGTAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCcat                                   <  1:3021206/70‑1 (MQ=255)
                                      aaGAAATACCATGATTCACCGCTGACTGCAGCCACTGGCTGTGACTc                                                      <  1:3749236/47‑1 (MQ=255)
                                       aGAAATACCATGATTCACCGCTGACTGTAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCcattcatt                              >  1:1674905/1‑70 (MQ=255)
                                       aGAAATACCATGATTCACCGCTGACTGTAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCCattcattc                             >  1:1680434/1‑71 (MQ=255)
                                       aGAAATACCATGATTCACCGCTGACTGCAGCCACTGGCTGTGa                                                         >  1:1851425/1‑43 (MQ=255)
                                        gAAATACCATGATTCACCGCTGACTGCAGCCACTGGCTGTGACTCaa                                                    >  1:1178087/1‑47 (MQ=255)
                                        gAAATACCATGATTCACCGCTGACTGCAGCCACTGGCTGTGACTCaa                                                    >  1:168247/1‑47 (MQ=255)
                                        gAAATACCATGATTCACCGCTGACTGCAGCCACTGGCTGTGACTCaa                                                    >  1:704892/1‑47 (MQ=255)
                                        gAAATAACATGATTCACCGCTGACTGCAGCCACTGGCTGTGACTCaa                                                    >  1:3345135/1‑47 (MQ=255)
                                         aaaTACCATGATTCACCGCTGACTGCAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCCATTCATTCGc                           <  1:1153851/71‑1 (MQ=255)
                                            tACCATGATTCACCGCTGACTGTAGCCACTGGCtgt                                                           <  1:2713906/36‑1 (MQ=255)
                                            tACCATGATTCACCGCTGACTGTAGCCACTGGCtgt                                                           <  1:641328/36‑1 (MQ=255)
                                             aCCATGATTCACCGCTGACTGTAGCCACTGGCTGTGa                                                         >  1:3067551/1‑37 (MQ=255)
                                             aCCATGATTCACCGCTGACTGTAGCCACTGGCTGTGa                                                         >  1:2448420/1‑37 (MQ=255)
                                              ccATGATTCACCGCTGACTGTAGCCACTGGCTGTGa                                                         >  1:2636220/1‑36 (MQ=255)
                                              ccATGATTCACCGCTGACTGTAGCCACTGGCTGTGa                                                         >  1:1865833/1‑36 (MQ=255)
                                              ccATGATTCACCGCTGACTGTAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCCATTCATTCGCCAGt                       <  1:2691435/70‑1 (MQ=255)
                                              ccATGATTCACCGCTGACTGTAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCCATTCATTCGCCAGt                       <  1:2605840/70‑1 (MQ=255)
                                              ccATGATTCACCGCTGACTGTAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCCATTCATTCGCCAGt                       <  1:1801392/70‑1 (MQ=255)
                                               cATGATTCACCGCTGACTGTAGCCACTGGCTGTGACTCAAGTGCGCTTgcca                                        <  1:4074518/52‑1 (MQ=255)
                                               cATGATTCACCGCTGACTGTAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCCATTCATTCGc                           <  1:995224/65‑1 (MQ=255)
                                               cATGATTCACCGCTGACTGTAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCCATTCATTCGc                           <  1:1129351/65‑1 (MQ=255)
                                               cATGATTCACCGCTGACTGTAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCCATTCATTCGCCAGTaa                     <  1:3082609/71‑1 (MQ=255)
                                                 tGATTCACCGCTGACTGTAGCCACTGGCTGTGACTCAAGTGCGCTTgccagc                                      >  1:1318113/1‑52 (MQ=255)
                                                 tGATTCACCGCTGACTGTAGCCACTGGCTGTGACTCAAGTGCGCTTgccagc                                      >  1:188333/1‑52 (MQ=255)
                                                 tGATTCACCGCTGACTGTAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCCATTCATTCGCCa                         >  1:3057211/1‑65 (MQ=255)
                                                 tGATTCACCGCTGACTGTAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCCATTCATTCGCCa                         >  1:1399097/1‑65 (MQ=255)
                                                 tGATTCACCGCTGACTGTAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCCATTCATTCGCCa                         >  1:1825663/1‑65 (MQ=255)
                                                 tGATTCACCGCTGACTGTAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCCATTCATTCGCCAGTAAGa                   <  1:3149163/71‑1 (MQ=255)
                                                 tGATTCACCGCTGACTGTAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCCATTCATTCGCCAGTAAGa                   <  1:913951/71‑1 (MQ=255)
                                                  gATTCACCGCTGACTGTAGCCACTGGCTGTGACTCa                                                     <  1:1406862/36‑1 (MQ=255)
                                                    ttCACCGCTGACTGTAGCCACTGGCTGTGACTCAAg                                                   >  1:4562962/1‑36 (MQ=255)
                                                       aCCGCTGACTGTAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCCATTCATTCGCCAGTAAGACGTTa              <  1:2797073/70‑1 (MQ=255)
                                                       aCCGCTGACTGCAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCCATTCATTCGCCAGTAAGACGTTaa             <  1:1772694/71‑1 (MQ=255)
                                                       aCCGCTGACTGCAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCCATTCATTCGCCAGTAAGACGTTaa             <  1:835273/71‑1 (MQ=255)
                                                           cTGACTGTAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCCATTCATTCGCCAGTaa                     >  1:2708653/1‑59 (MQ=255)
                                                           cTGACTGCAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCCATTCATTCGCCAGTAAGACGTTAAACTc         <  1:2032890/71‑1 (MQ=255)
                                                              aCTGCAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCCATTCATTCGCCAGTAAGACGTTAAACTCGc       <  1:3241946/70‑1 (MQ=255)
                                                                  tAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCCATTCATTCGCCAGTAAGACGTTAAACTCGCCa     >  1:2587798/1‑68 (MQ=255)
                                                                  tAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCCATTCATTCGCCAGTAAGACGTTAAACTCGCCa     >  1:2894310/1‑68 (MQ=255)
                                                                  tAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCCATTCATTCGCCAGTAAGACGTTAAACTCGCCACGc  <  1:2096153/71‑1 (MQ=255)
                                                                  tAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCCATTCATTCGCCAGTAAGACGTTAAACTCGCCACGc  <  1:4457608/71‑1 (MQ=255)
                                                                  |                                                                      
GCGCACCCGGCAAGGCGGTAACTTCGGTACAGTGACCAAAGAAATACCATGATTCACCGCTGACTGTAGCCACTGGCTGTGACTCAAGTGCGCTTGCCAGCCATTCATTCGCCAGTAAGACGTTAAACTCGCCACGC  >  minE/1093592‑1093728

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A