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 2,476,277 C→T 20.8% F94F (TTC→TTT)  pstC → phosphate transporter subunit

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,476,2770CT20.8% 154.1 / 27.7 105F94F (TTC→TTT) pstCphosphate transporter subunit
Reads supporting (aligned to +/- strand):  ref base C (42/41);  new base T (15/7);  total (57/48)
Fisher's exact test for biased strand distribution p-value = 1.57e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.68e-01

Only 100 of 105 total aligned reads displayed.

GCCGATCTACGGTACGTTGGTGACTTCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCGCCCTGTTCCTGACTGAGCTTGCGCCTGGCTGGCTGAAACGCCCGCTGGGTATCGCC  >  minE/2476214‑2476340
                                                               |                                                               
gCCGATCTACGGTACGTTGGTGACTTCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTCGGt                                                              <  1:2328590/67‑1 (MQ=255)
gCCGATCTACGGTACGTTGGTGACTTCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTCGGt                                                              <  1:2520860/67‑1 (MQ=255)
gCCGATCTACGGTACGTTGGTGACTTCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTCGGt                                                              <  1:11793/67‑1 (MQ=255)
gCCGATCTACGGTACGTTGGTGACTTCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTCGGt                                                              <  1:1702733/67‑1 (MQ=255)
gCCGATCTACGGTACGTTGGTGACTTCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTCGGt                                                              <  1:1444911/67‑1 (MQ=255)
gCCGATCTACGGTACGTTGGTGACTTCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTCGGt                                                              <  1:1423381/67‑1 (MQ=255)
gCCGATCTACGGTACGTTGGTGACTTCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTCGGt                                                              <  1:1376778/67‑1 (MQ=255)
   gATCTACGGTACGTTGGTGACTTCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCg                                                          <  1:520765/68‑1 (MQ=255)
    aTCTACGGTACGTTGGTGACTTCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCg                                                          <  1:38168/67‑1 (MQ=255)
      cTACGGTACGTTGGTGACTTCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTCGGTAt                                                            >  1:2191172/1‑63 (MQ=255)
      cTACGGTACGTTGGTGACTTCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCGCCCt                                                      >  1:1582792/1‑69 (MQ=255)
      cTACGGTACGTTGGTGACTTCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCGCCCt                                                      >  1:2018201/1‑69 (MQ=255)
      cTACGGTACGTTGGTGACTTCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCGCCCt                                                      >  1:1831254/1‑69 (MQ=255)
      cTACGGTACGTTGGTGACTTCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCGCCCt                                                      >  1:3006885/1‑69 (MQ=255)
      cTACGGTACGTTGGTGACTTCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCGCCCt                                                      >  1:3207877/1‑69 (MQ=255)
      cTACGGTACGTTGGTGACTTCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCGCCCt                                                      >  1:3339581/1‑69 (MQ=255)
      cTACGGTACGTTGGTGACTTCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCGCCCt                                                      >  1:495332/1‑69 (MQ=255)
      cTACGGTACGTTGGTGACTTCGTTTATCGCGCTGCTGATCACCGTCCCGGTGAGTTTCGGt                                                              <  1:1404240/61‑1 (MQ=255)
      cTACGGTACGTTGGTGACTTCGTTTATAGCGCTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCGCCCt                                                      >  1:663767/1‑69 (MQ=255)
           gTACGTTGGTGACTTCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCGCCCTg                                                     <  1:1165213/65‑1 (MQ=255)
              cGTTGGTGACTTCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCGCCCTGTTCctga                                              >  1:325005/1‑69 (MQ=255)
              cGTTGGTGACTTCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCGCCCTGTTCctga                                              >  1:669528/1‑69 (MQ=255)
              cGTTGGTGACTTCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCGCCCTGTTCctga                                              >  1:802671/1‑69 (MQ=255)
              cGTTGGTGACTTCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCGCCCTGTTCctga                                              >  1:2951199/1‑69 (MQ=255)
              cGTTGGTGACTTCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCGCCCTGTTCctga                                              >  1:1966305/1‑69 (MQ=255)
              cGTTGGTGACTTCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCGCCCTGTTCctga                                              >  1:1327566/1‑69 (MQ=255)
                 tGGTGACTTCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCg                                                          <  1:2325389/54‑1 (MQ=255)
                 tGGTGACTTCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCg                                                          <  1:573831/54‑1 (MQ=255)
                 tGGTGACTTCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCg                                                          <  1:2271497/54‑1 (MQ=255)
                 tGGTGACTTCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCg                                                          <  1:582097/54‑1 (MQ=255)
                 tGGTGACTTCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCg                                                          <  1:1285057/54‑1 (MQ=255)
                 tGGTGACTTCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCg                                                          <  1:1125866/54‑1 (MQ=255)
                 tGGTGACTTCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCg                                                          <  1:2118329/54‑1 (MQ=255)
                 tGGTGACTTCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCg                                                          <  1:1307344/54‑1 (MQ=255)
                 tGGTGACCTCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTTGGTATCGCCCTGTTCctgaccg                                           >  1:1138424/1‑67 (MQ=255)
                 tGGTGACCTCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTTGGTATCGCCCTGTTCctgaccg                                           >  1:2476821/1‑67 (MQ=255)
                 tGGTGACCTCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTTGGTATCGCCCTGTTCctgaccg                                           >  1:2165110/1‑67 (MQ=255)
                 tGGTGACCTCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTTGGTATCGCCCTGTTCctgaccg                                           >  1:2536214/1‑67 (MQ=255)
                 tGGTGACCTCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTTGGTATCGCCCTGTTCctgaccg                                           >  1:2864540/1‑67 (MQ=255)
                 tGGTGACCTCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTTGGTATCGCCCTGTTCctgaccg                                           >  1:2890197/1‑67 (MQ=255)
                 tGGTGACCTCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTTGGTATCGCCCTGTTCctgaccg                                           >  1:157425/1‑67 (MQ=255)
                 tGGTGACCTCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTTGGTATCGCCCTGTTCctgaccg                                           >  1:151995/1‑67 (MQ=255)
                 tGGTGACCTCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTTGGTATCGCCCTGTTCctgaccg                                           >  1:1574304/1‑67 (MQ=255)
                 tGGTGACCTCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTTGGTATCGCCCTGTTCctgaccg                                           >  1:3190513/1‑67 (MQ=255)
                 tGGTGACCTCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTTGGTATCGCCCTGTTCctgaccg                                           >  1:176599/1‑67 (MQ=255)
                 tGGTGACCTCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTTGGTATCGCCCTGTTCctgaccg                                           >  1:181803/1‑67 (MQ=255)
                 tGGTGACCTCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTTGGTATCGCCCTGTTCctgaccg                                           >  1:1867999/1‑67 (MQ=255)
                 tGGTGACCTCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTTGGTATCGCCCTGTTCctgacag                                           >  1:1746242/1‑67 (MQ=255)
                 tGGTGACCTCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTTGGTATCGCCCTGTTCctgac                                             >  1:1474585/1‑67 (MQ=255)
                      aCTTCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCGCCCTGTTCCTGACTGAGCtt                                      <  1:2979192/69‑1 (MQ=255)
                      aCTTCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCGCCCTGTTCCTGACTGAGCtt                                      <  1:2319237/69‑1 (MQ=255)
                       cTTCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCGCCCTGTTCCTGACTGAGCtt                                      <  1:400556/68‑1 (MQ=255)
                        ttCGTTTATGGCGCTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCGCCCTGTTCCTGACTGAGCTTgc                                    <  1:1294757/69‑1 (MQ=255)
                        ttCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCGCCCTGTTCCTGACTGAGCt                                       >  1:1360469/1‑66 (MQ=255)
                        ttCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCGCCCTGTTCCTGACTGAGCTTgc                                    >  1:2720677/1‑69 (MQ=255)
                        ttCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCGCCCTGTTCCTGACTGAGCTTgc                                    <  1:3349768/69‑1 (MQ=255)
                        ttCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCGCCCTGTTCCTGACTGAGCTTgc                                    >  1:756907/1‑69 (MQ=255)
                        ttCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCGCCCTGTTCCTGACTGAGCTTgc                                    >  1:236855/1‑69 (MQ=255)
                        ttCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCGCCCTGTTCCTGACTGAGCTTgc                                    >  1:3190074/1‑69 (MQ=255)
                        ttCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCGCCCTGTTCCTGACTGAGCTTgc                                    >  1:666936/1‑69 (MQ=255)
                        ttCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCGCCCTGTTCCTGACTGAGCTTgc                                    >  1:1375761/1‑69 (MQ=255)
                        ttCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCGCCCTGTTCCTGACTGAGCTTgc                                    >  1:1578389/1‑69 (MQ=255)
                        ttCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCGCCCTGTTCCTGACTGAGCTTgc                                    >  1:1676134/1‑69 (MQ=255)
                        ttCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCGCCCTGTTCCTGACTGAGCTTgc                                    >  1:176918/1‑69 (MQ=255)
                        ttCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCGCCCTGTTCCTGACTGAGCTTgc                                    >  1:741812/1‑69 (MQ=255)
                        ttCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCGCCCTGTTCCTGACTGAGCTTgc                                    >  1:72263/1‑69 (MQ=255)
                        ttCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCGCCCTGTTCCTGACTGAGCTTgc                                    >  1:2291366/1‑69 (MQ=255)
                         tCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCGCCCTGTTCCTGACTGAGCTTgcg                                   <  1:1727520/69‑1 (MQ=255)
                                  gcgcTGCTGATCGCCGTCCCGGTGAGTTTTGGTATCGCCCTGTTCCTGACCGAGCTTGCGCctggctgg                          <  1:2159907/69‑1 (MQ=255)
                                  gcgcTGCTGATCGCCGTCCCGGTGAGTTTTGGTATCGCCCTGTTCCTGACCGAGCTTGCGCctggctgg                          <  1:2086194/69‑1 (MQ=255)
                                  gcgcTGCTGATCGCCGTCCCGGTGAGTTTTGGTATCGCCCTGTTCCTGACCGAGCTTGCGCctggctgg                          <  1:2948314/69‑1 (MQ=255)
                                  gcgcTGCTGATCGCCGTCCCGGTGAGTTTTGGTATCGCCCTGTTCCTGACCGAGCTTGCGCctggctgg                          <  1:1363609/69‑1 (MQ=255)
                                  gcgcTGCTGATCGCCGTCCCGGTGAGTTTTGGTATCGCCCTGTTCCTGACCGAGCTTGCGCctggctgg                          <  1:1577890/69‑1 (MQ=255)
                                  gcgcTGCTGATCGCCGTCCCGGTGAGTTTTGGTATCGCCCTGTTCCTGACCGAGCTTGCGCctggctgg                          <  1:1528926/69‑1 (MQ=255)
                                  gcgcTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCGcc                                                        >  1:2072147/1‑39 (MQ=255)
                                  gcgcTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCGCCCTGTTCctgac                                             >  1:199323/1‑50 (MQ=255)
                                  gcgcTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCGCCCTGTTCCTGACTGAGCTTGCGCctggctgg                          >  1:1072242/1‑69 (MQ=255)
                                  gcgcTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCGCCCTGTTCCTGACTGAGCTTGCGCctggctgg                          >  1:110366/1‑69 (MQ=255)
                                  gcgcTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCGCCCTGTTCCTGACTGAGCTTGCGCctggctgg                          >  1:401933/1‑69 (MQ=255)
                                  gcgcTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCGCCCTGTTCCTGACTGAGCTTGCGCctggctgg                          >  1:1362084/1‑69 (MQ=255)
                                  gcgcTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCGCCCTGTTCCTGACTGAGCTTGCGCctggctgg                          >  1:1423049/1‑69 (MQ=255)
                                  gcgcTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCGCCCTGTTCCTGACTGAGCTTGCGCctggctgg                          >  1:1070807/1‑69 (MQ=255)
                                  gcgcTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCGCCCTGTTCCTGACTGAGCTTGCGCctggctgg                          >  1:2381021/1‑69 (MQ=255)
                                  gcgcTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCGCCCTGTTCCTGACTGAGCTTGCGCctggctgg                          >  1:2404964/1‑69 (MQ=255)
                                  gcgcTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCGCCCTGTTCCTGACTGAGCTTGCGCctggctgg                          >  1:2686078/1‑69 (MQ=255)
                                  gcgcTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCGCCCTGTTCCTGACTGAGCTTGCGCctggctg                           <  1:1120986/68‑1 (MQ=255)
                                  gcgcTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCGCCCTGTTCCTGACTGAGCTTGCGCctggctg                           <  1:573620/68‑1 (MQ=255)
                                                         gAGTTTCGGTATCGCCCTGTTCCTGACTGAGCTTGCGCCTGGCTGGCTGAAACGCCCGCTGGGTATCGc   <  1:3084888/69‑1 (MQ=255)
                                                          aGTTTCGGTATCGCCCTGTTCCTGACTGAGCTTGCGCCTGGCTGGCTGAAACGCCCGCTGGGTATCGcc  <  1:85653/69‑1 (MQ=255)
                                                          aGTTTCGGTATCGCCCTGTTCCTGACTGAGCTTGCGCCTGGCTGGCTGAAACGCCCGCTGGGTATCGcc  <  1:510034/69‑1 (MQ=255)
                                                          aGTTTCGGTATCGCCCTGTTCCTGACTGAGCTTGCGCCTGGCTGGCTGAAACGCCCGCTGGGTATCGcc  <  1:3411035/69‑1 (MQ=255)
                                                          aGTTTCGGTATCGCCCTGTTCCTGACTGAGCTTGCGCCTGGCTGGCTGAAACGCCCGCTGGGTATCGcc  <  1:2270776/69‑1 (MQ=255)
                                                          aGTTTCGGTATCGCCCTGTTCCTGACTGAGCTTGCGCCTGGCTGGCTGAAACGCCCGCTGGGTATCGcc  <  1:2208226/69‑1 (MQ=255)
                                                          aGTTTCGGTATCGCCCTGTTCCTGACTGAGCTTGCGCCTGGCTGGCTGAAACGCCCGCTGGGTATCGcc  <  1:2207285/69‑1 (MQ=255)
                                                          aGTTTCGGTATCGCCCTGTTCCTGACTGAGCTTGCGCCTGGCTGGCTGAAACGCCCGCTGGGTATCGcc  <  1:2166372/69‑1 (MQ=255)
                                                          aGTTTCGGTATCGCCCTGTTCCTGACTGAGCTTGCGCCTGGCTGGCTGAAACGCCCGCTGGGTATCGcc  <  1:2147254/69‑1 (MQ=255)
                                                          aGTTTCGGTATCGCCCTGTTCCTGACTGAGCTTGCGCCTGGCTGGCTGAAACGCCCGCTGGGTATCGcc  <  1:2080116/69‑1 (MQ=255)
                                                          aGTTTCGGTATCGCCCTGTTCCTGACTGAGCTTGCGCCTGGCTGGCTGAAACGCCCGCTGGGTATCGcc  <  1:1997628/69‑1 (MQ=255)
                                                          aGTTTCGGTATCGCCCTGTTCCTGACTGAGCTTGCGCCTGGCTGGCTGAAACGCCCGCTGGGTATCGcc  <  1:1456672/69‑1 (MQ=255)
                                                           gTTTTGGTATCGCCCTGTTCCTGACCGAGCTTGCGCctggctgg                          <  1:3024374/44‑1 (MQ=38)
                                                               |                                                               
GCCGATCTACGGTACGTTGGTGACTTCGTTTATCGCGCTGCTGATCGCCGTCCCGGTGAGTTTCGGTATCGCCCTGTTCCTGACTGAGCTTGCGCCTGGCTGGCTGAAACGCCCGCTGGGTATCGCC  >  minE/2476214‑2476340

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