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
A4 F21 I0 R1 1009 73.8 4146436 87.4% 3623985 60.3

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA minE 2,039,506 C→T 22.8% V137I (GTT→ATT)  ribB ← 3,4 dihydroxy‑2‑butanone‑4‑phosphate synthase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,039,5060CT22.8% 215.3 / 58.1 105V137I (GTT→ATT) ribB3,4 dihydroxy‑2‑butanone‑4‑phosphate synthase
Reads supporting (aligned to +/- strand):  ref base C (39/42);  new base T (12/12);  total (51/54)
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

Only 100 of 108 total aligned reads displayed.

AGATCAATAGTTGCTTCAGTATGACCGCCACGCGTCAGTACACCACCTGCCTGAGCGCGAAGTGGGAAAACGTGGCCAGGACGATTCAGATCTGACGGTTTTGCGCCATCGGCAATCGCTGCGCGAACGGTCGTAATACG  >  minE/2039436‑2039575
                                                                      |                                                                     
aGATCAATAGTTGCTTCAGTATGACCGCCACGCGTCAGTACACCACCTGCCTGAGCGCGAAGTGGGAAAAc                                                                       <  1:79865/71‑1 (MQ=255)
  aTCAATAGTTGCTTCAGTATGACCGCCACGCGTCAGTACACCACCTGCCTGAGCGCGAAGTGGGAAAATGt                                                                     >  1:625921/1‑71 (MQ=255)
  aTCAATAGTTGCTTCAGTATGACCGCCACGCGTCAGTACACCACCTGCCTGAGCGCGAAGTGGGAAAACGt                                                                     >  1:3718345/1‑71 (MQ=255)
  aTCAATAGTTGCTTCAGTATGACCGCCACGCGTCAGTACACCACCTGCCTGAGCGCGAAGTGGGAAAACGt                                                                     >  1:2072300/1‑71 (MQ=255)
  aTCAATAGTTGCTTCAGTATGACCGCCACGCGTCAGTACACCACCTGCCTGAGCGCGAAGTGGGAAAACGt                                                                     >  1:2748426/1‑71 (MQ=255)
   tCAATAGTTGCTTCAGTATGACCGCCACGCGTCAGTACACCACCTGCCTGAGCGCGAAGTGGGAAAACGTg                                                                    <  1:2805347/71‑1 (MQ=255)
    cAATAGTTGCTTCAGTATGACCGCCACGCGTCAGTACACCACCTGCCTGAGCGCGAAGTGGGAAAACGTgg                                                                   >  1:3968127/1‑71 (MQ=255)
    cAATAGTTGCTTCAGTATGACCGCCACGCGTCAGTACACCACCTGCCTGAGCGCGAAGTGGGAAAACGTgg                                                                   >  1:2619755/1‑71 (MQ=255)
     aaTAGTTGCTTCAGTATGACCGCCACGCGTCAGTACACCACCTGCCTGAGCGCGAAGTGGGAAAATGTGGc                                                                  >  1:3292118/1‑71 (MQ=255)
         gTTGCTTCAGTATGACCGCCACGCGTCAGTACACCACCTGCCTGAGCGCGAAGTGGGAAAACGTGGCCAg                                                               <  1:293633/70‑1 (MQ=255)
         gTTGCTTCAGTATGACCGCCACGCGTCAGTACACCACCTGCCTGAGCGCGAAGTGGGAAAACGTGGCCAg                                                               <  1:1622280/70‑1 (MQ=255)
         gTTGCTTCAGTATGACCGCCACGCGTCAGTACACCACCTGCCTGAGCGCGAAGTGGGAAAACGTGGCCAg                                                               <  1:1835470/70‑1 (MQ=255)
          ttGCTTCAGTATGACCGCCACGCGTCAGTACACCACCTGCCTGAGCGCGAAGTGGGAAAATGTGGCCAg                                                               <  1:1742509/69‑1 (MQ=255)
            gCTTCAGTATGACCGCCACGCGTCAGTACACCACCTGCCTGAGCGCGAAGTGGGAAAACGTGGCCAGGAc                                                            >  1:480954/1‑70 (MQ=255)
            gCTTCAGTATGACCGCCACGCGTCAGTACACCACCTGCCTGAGCGCGAAGTGGGAAAACGTGGCCAGGAc                                                            >  1:2560220/1‑70 (MQ=255)
               tCAGTATGACCGCCACGCGTCAGTACACCACCTGCCTGAGCGCGAAGTGGGAAAACGTGGCCAGGACGAtt                                                        >  1:1898433/1‑71 (MQ=255)
                 aGTATGACCGCCACGCGTCAGTACACCACCTGCCTGAGCGCGAAGTGGGAAAACGTGGCCAGGACGAtt                                                        >  1:3805151/1‑69 (MQ=255)
                  gTATGACCGCCACGCGTCAGTACACCACCTGCCTGAGCGCGAAGTGGGAAAATGTGGCCAGGACGATTCAg                                                     <  1:3072016/71‑1 (MQ=255)
                  gTATGACCGCCACGCGTCAGTACACCACCTGCCTGAGCGCGAAGTGGGAAAACGTGGCCAGGACGATTCAg                                                     <  1:2039012/71‑1 (MQ=255)
                  gTATGACCGCCACGCGTCAGTACACCACCTGCCTGAGCGCGAAGTGGGAAAACGTGGCCAGGACGATTCAg                                                     <  1:2043814/71‑1 (MQ=255)
                  gTATGACCGCCACGCGTCAGTACACCACCTGCCTGAGCGCGAAGTGGGAAAACGTGGCCAGGACGATTCAg                                                     <  1:1554169/71‑1 (MQ=255)
                  gTATGACCGCCACGCGTCAGTACACCACCTGCCTGAGCGCGAAGTGGGAAAACGTGGCCAGGACGATTCAg                                                     <  1:2770717/71‑1 (MQ=255)
                  gTATGACCGCCACGCGTCAGTACACCACCTGCCTGAGCGCGAAGTGGGAAAACGTGGCCAGGACGATTCAg                                                     <  1:2552400/71‑1 (MQ=255)
                  gTATGACCGCCACGCGTCAGTACACCACCTGCCTGAGCGCGAAGTGGGAAAACGTGGCCAGGACGATTCAg                                                     <  1:3797405/71‑1 (MQ=255)
                   tATGACCGCCACGCGTCAGTACACCACCTGCCTGAGCGCGAAGTGGGAAAACGTGGCCAGGACGATTCAGa                                                    <  1:4054258/71‑1 (MQ=255)
                     tGACCGCCACGCGTCAGTACACCACCTGCCTGAGCGCGAAGTGGGAAAATGTGGCCAg                                                               <  1:608741/58‑1 (MQ=255)
                     tGACCGCCACGCGTCAGTACACCACCTGCCTGAGCGCGAAGTGGGAAAATGTGGCCAg                                                               <  1:3390780/58‑1 (MQ=255)
                     tGACCGCCACGCGTCAGTACACCACCTGCCTGAGCGCGAAGTGGGAAAACGTGGCCAGGACGAtt                                                        >  1:3897542/1‑65 (MQ=255)
                     tGACCGCCACGCGTCAGTACACCACCTGCCTGAGCGCGAAGTGGGAAAACGTGGCCAGGACGATTCAGAt                                                   <  1:1927983/70‑1 (MQ=255)
                       aCCGCCACGCGTCAGTACACCACCTGCCTGAGCGCGAAGTGGGAAAACGTGGCCAGGACGATTCAGAt                                                   >  1:2126492/1‑68 (MQ=255)
                       aCCGCCACGCGTCAGTACACCACCTGCCTGAGCGCGAAGTGGGAAAACGTGGCCAGGACGATTCAGATCt                                                 >  1:1492745/1‑70 (MQ=255)
                          gCCACGCGTCAGTACACCACCTGCCTGAGCGCGAAGTGGGAAAACGTGGCCAGGACGa                                                          <  1:2797566/58‑1 (MQ=255)
                          gCCACGCGTCAGTACACCACCTGCCTGAGCGCGAAGTGGGAAAACGTGGCCAGGACGATTCAGATCTGa                                               <  1:2652324/69‑1 (MQ=255)
                            cACGCGTCAGTACACCACCTGCCTGAGCGCGAAGTGGGAAAATGTGGCCAGGACGATTCAGATCt                                                 >  1:125571/1‑65 (MQ=255)
                            cACGCGTCAGTACACCACCTGCCTGAGCGCGAAGTGGGAAAACGTGGCCAGGACGATTCAGATCTGACGGt                                           >  1:3142501/1‑71 (MQ=255)
                            cACGCGTCAGTACACCACCTGCCTGAGCGCGAAGTGGGAAAACGTGGCCAGGACGATTCAGATCTGACGGt                                           >  1:2602971/1‑71 (MQ=255)
                             aCGCGTCAGTACACCACCTGCCTGAGCGCGAAGTGGGAAAATGTGGCCAGGACGAtt                                                        >  1:1830381/1‑57 (MQ=255)
                             aCGCGTCAGTACACCACCTGCCTGAGCGCGAAGTGGGAAAATGTGGCCAGGACGATTCAGATCTGACGGtt                                          >  1:184426/1‑71 (MQ=255)
                               gcgTCAGTACACCACCTGCCTGAGCGCGAAGTGGGAAAACGTGGCCAGGACGATTCAGATCTGACGGtttt                                        >  1:2241066/1‑71 (MQ=255)
                                cgTCAGTACACCACCTGCCTGAGCGCGAAGTGGGAAAACGTGGCCAGGACGATTCAGATCTGACGGTTTTg                                       <  1:1479117/71‑1 (MQ=255)
                                cgTCAGTACACCACCTGCCTGAGCGCGAAGTGGGAAAACGTGGCCAGGACGATTCAGATCTGACGGTTTTg                                       <  1:1212468/71‑1 (MQ=255)
                                 gTCAGTACACCACCTGCCTGAGCGCGAAGTGGGAAAACGTGGCCAGGACGATTCAGATCTGACGGTTTTgc                                      <  1:842066/71‑1 (MQ=255)
                                  tCAGTACACCACCTGCCTGAGCGCGAAGTGGGAAAACGTGGCCAGGACGAtt                                                        >  1:1959119/1‑52 (MQ=255)
                                  tCAGTACACCACCTGCCTGAGCGCGAAGTGGGAAAACGTGGCCAGGACGATTCAg                                                     <  1:1418222/55‑1 (MQ=255)
                                    aGTACACCACCTGCCTGAGCGCGAAGTGGGAAAACGTGGCCAGGACGa                                                          >  1:2042161/1‑48 (MQ=255)
                                    aGTACACCACCTGCCTGAGCGCGAAGTGGGAAAACGTGGCCAGGACGATTCAGATCTGACGGTTTTgcgc                                    <  1:2868935/70‑1 (MQ=255)
                                     gTACACCACCTGCCTGAGCGCGAAGTGGGAAAAtgtg                                                                    >  1:3210468/1‑37 (MQ=255)
                                     gTACACCACCTGCCTGAGCGCGAAGTGGGAAAACGTGGCCAGGACTATTCAGATCTGACGGTTTTGCGCCa                                  <  1:1208254/71‑1 (MQ=255)
                                     gTACACCACCTGCCTGAGCGCGAAGTGGGAAAACGTGGCCAGGACGATTCAg                                                     <  1:438081/52‑1 (MQ=255)
                                      tACACCACCTGCCTGAGCGCGAAGTGGGAAAATGTGGCCAGGACGATTCAGATCTGACGGTTTTGCGCCAt                                 >  1:4068951/1‑71 (MQ=255)
                                      tACACCACCTGCCTGAGCGCGAAGTGGGAAAATGTGGCCAGGACGATTCAGATCTGACGGTTTTGCGCCAt                                 <  1:2406587/71‑1 (MQ=255)
                                      tACACCACCTGCCTGAGCGCGAAGTGGGAAAACGTGGCCAGGACGATTCAg                                                     <  1:388464/51‑1 (MQ=255)
                                      tACACCACCTGCCTGAGCGCGAAGTGGGAAAACGTGGCCAGGACGATTCAGATCTGACGGTTTTGCGCCAt                                 >  1:3532234/1‑71 (MQ=255)
                                       acacCACCTGCCTGAGCGCGAAGTGGGAAACTGTGGCCAGGACGAtt                                                        >  1:1075371/1‑47 (MQ=255)
                                        caccacCTGCCTGAGCGCGAAGTGGGAAAACGTGGCCAGGACGATTCa                                                      >  1:15531/1‑48 (MQ=255)
                                        caccacCTGCCTGAGCGCGAAGTGGGAAAACGTGGCCAGGACGATTCAGAt                                                   >  1:337537/1‑51 (MQ=255)
                                        caccacCTGCCTGAGCGCGAAGTGGGAAAACGTGGCCAGGACGATTCAGAt                                                   >  1:3024467/1‑51 (MQ=255)
                                        caccacCTGCCTGAGCGCGAAGTGGGAAAACGTGGCCAGGACGATTCAGATCTGACGGTTTTGCGCCATCg                               >  1:418021/1‑71 (MQ=255)
                                        caccacCTGCCTGAGCGCGAAGTGGGAAAACGTGGCCAGGACGATTCAGATCTGACGGTTTTGCGCCATCg                               <  1:3841672/71‑1 (MQ=255)
                                         accaccTGCCTGAGCGCGAAGTGGGAAAACGTGGCCAGGACGATTCAGATCTGACGGtt                                          >  1:1021128/1‑59 (MQ=255)
                                         accaccTGCCTGAGCGCGAAGTGGGAAAACGTGGCCAGGACGATTCAGATCTGACGGtt                                          >  1:720258/1‑59 (MQ=255)
                                          ccaccTGCCTGAGCGCGAAGTGGGAAAATGTGGCCAGGACGATTCAGATCTGACGGTTTTGCGCCATCGGc                             <  1:622164/71‑1 (MQ=255)
                                          ccaccTGCCTGAGCGCGAAGTGGGAAAATGTGGCCAGGACGATTCAGATCTGACGGTTTTGCGCCATCGGc                             <  1:1535573/71‑1 (MQ=255)
                                          ccaccTGCCTGAGCGCGAAGTGGGAAAACGTGGCCAGGACGATTCAGATCTGACGGTTTTGCGCCATCGGc                             <  1:133330/71‑1 (MQ=255)
                                           caccTGCCTGAGCGCGAAGTGGGAAAATGTGGCCAGGACGATTCAGATCTGACGGTTTTGCGCCATCGGCa                            <  1:1116565/71‑1 (MQ=255)
                                           caccTGCCTGAGCGCGAAGTGGGAAAATGTGGCCAGGACGATTCAGATCTGACGGTTTTGCGCCATCGGCa                            <  1:1049869/71‑1 (MQ=255)
                                           caccTGCCTGAGCGCGAAGTGGGAAAACGTGGCCAGGACGATTCAGATCTGACGGTTTTGCGCCATCGGCa                            <  1:2966853/71‑1 (MQ=255)
                                           caccTGCCTGAGCGCGAAGTGGGAAAACGTGGCCAGGACGATTCAGATCTGACGGTTTTGCGCCATCGGCa                            <  1:2464092/71‑1 (MQ=255)
                                           caccTGCCTGAGCGCGAAGTGGGAAAACGTGGCAAGGACGATTCAGATCTGACGGTTTTGCGCCATCGGc                             >  1:1362549/1‑70 (MQ=255)
                                             cctgcctgAGCGCGAAGTGGGAAAATGTGGCCAGGACGATTCAGATCTGACGGTTTTGCGCCATCGGCaa                           >  1:3125209/1‑70 (MQ=255)
                                             cctgcctgAGCGCGAAGTGGGAAAACGTGGCCAGGACGATTCAGATCTGACGGTTTTGCGCCATCGGCAAt                          <  1:71811/71‑1 (MQ=255)
                                              ctgcctgAGCGCGAAGTGGGAAAACGTGGCCAGGACGATTCAg                                                     <  1:2679659/43‑1 (MQ=255)
                                              ctgcctgAGCGCGAAGTGGGAAAACGTGGCCAGGACGATTCAg                                                     <  1:3605285/43‑1 (MQ=255)
                                               tgcctgAGCGCGAAGTGGGAAAACGTGGCCAGGACGATTCAGATCTGACGGt                                           <  1:273196/52‑1 (MQ=255)
                                                  ctgAGCGCGAAGTGGGAAAACGTGGCCAGGACGATTCAGATCTGACGGTTTTGCGCCATCGGCAATCGCTg                     >  1:923653/1‑71 (MQ=255)
                                                   tgAGCGCGAAGTGGGAAAACGTGGCCAGGACGATTCAGATCTGACGGTTTTGCGCCATCGGCAATCGCTgc                    >  1:3918864/1‑71 (MQ=255)
                                                     aGCGCGAAGTGGGAAAATGTGGCCAGGACGATTCAg                                                     <  1:1733204/36‑1 (MQ=255)
                                                     aGCGCGAAGTGGGAAAATGTGGCCAGGACGATTCAGATCTGACGGTTTTg                                       >  1:3760150/1‑50 (MQ=255)
                                                     aGCGCGAAGTGGGAAAACGTGGCCAGGACGATTCAGATCTGACGGTTTTGCGCCATCGGCAATCGCTgcgc                  >  1:361813/1‑71 (MQ=255)
                                                     aGCGCGAAGTGGGAAAACGTGGCCAGGACGATTCAGATCTGACGGTTTTGCGCCATCGGCAATCGCTgcgc                  >  1:2926852/1‑71 (MQ=255)
                                                     aGCGCGAAGTGGGAAAACGTGGCCAGGACGATTCAGATCTGACGGTTTTGCGCCATCGGCAATCGCTgcgc                  >  1:1352132/1‑71 (MQ=255)
                                                      gcgcGAAGTGGGAAAATGTGGCCAGGACGATTCAGATCTGACGGTTTTGCGCCATCGGCAATCGCTgcgc                  >  1:648154/1‑70 (MQ=255)
                                                      gcgcGAAGTGGGAAAACGTGGCCAGGACGATTCAGATCTGACGGTTTTGCGCCATCGGCAATCGCTGcgcg                 <  1:1549065/71‑1 (MQ=255)
                                                      acgcgAAGTGGGAAAACGTGGCCAGGACGATTCAGATCTGACGGTTTTGCGCCATCGGCAATCGCTGcgcg                 <  1:1676375/70‑1 (MQ=255)
                                                       cgcgAAGTGGGAAAACGTGGCCAGGACGATTCAGATCTGACGGTTTTGCGCCATCGGCAATCGCTGCGCGa                <  1:2631663/71‑1 (MQ=255)
                                                        gcgAAGTGGGAAAACGTGGCCAGGACGATTCAGATCTGACGGTTTTGCGCCATc                                >  1:869335/1‑54 (MQ=255)
                                                           aaGTGGGAAAACGTGGCCAGGACGATTCAGATCTGACGGtt                                          >  1:340243/1‑41 (MQ=255)
                                                           aaGTGGGAAAACGTGGCCAGGACGATTCAGATCTGACGGTTTTGCGCCATCGGCAATCGCTGCGCGAACgg            <  1:2418937/71‑1 (MQ=255)
                                                           aaGTGGGAAAACGTGGCCAGGACGATTCAGATCTGACGGTTTTGCGCCATCGGCAATCGCTGCGCGAACgg            >  1:2381563/1‑71 (MQ=255)
                                                                ggAAAACGTGGCCAGGACGATTCAGATCTGACGGtttt                                        <  1:25349/38‑1 (MQ=255)
                                                                ggAAAACGTGGCCAGGACGATTCAGATCTGACGGttt                                         >  1:2265976/1‑37 (MQ=255)
                                                                ggAAAACGTGGCCAGGACGATTCAGATCTGACGGttt                                         >  1:166407/1‑37 (MQ=255)
                                                                ggAAAACGTGGCCAGGACGATTCAGATCTGACGGTTTTGCGCCATCGGCAATCGCTGCGCGAACGGTCGt        <  1:535867/70‑1 (MQ=255)
                                                                ggAAAACGTGGCCAGGACGATTCAGATCTGACGGTTTTGCGCCATCGGCAATCGCTGCGCGAACGGTCGt        <  1:1772767/70‑1 (MQ=255)
                                                                ggAAAACGTGGCCAGGACGATTCAGATCTGACGGTTTTGCGCCATCGGCAATCGCTGCGCGAACGGTCGt        <  1:436444/70‑1 (MQ=255)
                                                                 gAAAACGTGGCCAGGACGATTCAGATCTGACGGTTTTGCGCCATCGGCAATCGCTGCGCGAACGGTCGTaa      <  1:2514107/71‑1 (MQ=255)
                                                                  aaaaCGTGGCCAGGACGATTCAGATCTGACGGTTTTGCGCCATCGGCaa                           >  1:302521/1‑49 (MQ=255)
                                                                  aaaaCGTGG‑CAGGACGATTCAGATCTGACGGTTTTGCGCCATCGGCAATCg                        >  1:3246502/1‑51 (MQ=255)
                                                                     aCGTGGCCAGGACGATTCAGATCTGACGGTTTTGCGCCATCGGCAATCGCTGCGCGAACGGTCGTAATACg  <  1:3049631/71‑1 (MQ=255)
                                                                      cGTGGCCAGGACGATTCAGATCTGACGGTTTTGCGCCATCGGCAATCGCTGCGCGAACGGTCGTAATACg  >  1:1750062/1‑70 (MQ=255)
                                                                      |                                                                     
AGATCAATAGTTGCTTCAGTATGACCGCCACGCGTCAGTACACCACCTGCCTGAGCGCGAAGTGGGAAAACGTGGCCAGGACGATTCAGATCTGACGGTTTTGCGCCATCGGCAATCGCTGCGCGAACGGTCGTAATACG  >  minE/2039436‑2039575

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