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 1,747,581 A→G 39.2% V142V (GTT→GTC)  yfiE ← predicted DNA‑binding transcriptional regulator

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,747,5810AG39.2% 62.6 / 89.6 130V142V (GTT→GTC) yfiEpredicted DNA‑binding transcriptional regulator
Reads supporting (aligned to +/- strand):  ref base A (35/44);  new base G (47/4);  total (82/48)
Fisher's exact test for biased strand distribution p-value = 9.82e-09
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.98e-01

Only 100 of 130 total aligned reads displayed.

TGTTCACCCAACTCTCGTCGATTCAGAGCATCATCATTCCCTACACGATAAAAGACGCCAACATCGGCCTCATCATTCAGTAGCGCATCACGGATCACGTAACAGTTCAGCG  >  minE/1747522‑1747633
                                                           |                                                    
tGTTCACCCAACTCTCGTCGATTCAGAGCATCATCATTCCCTACACGATAAAAGACGCCAACATc                                                 >  1:2464342/1‑65 (MQ=255)
tGTTCACCCAACTCTCGTCGATTCAGAGCATCATCATTCCCTACACGATAAAAGACGCCAACATCGGc                                              >  1:1031023/1‑68 (MQ=255)
tGTTCACCCAACTCTCGTCGATTCAGAGCATCATCATTCCCTACACGATAAAAGACGCCAACATCGGc                                              >  1:2434838/1‑68 (MQ=255)
tGTTCACCCAACTCTCGTCGATTCAGAGCATCATCATTCCCTACACGATAAAAGACGCCAACATCGGc                                              <  1:19960/68‑1 (MQ=255)
tGTTCACCCAACTCTCGTCGATTCAGAGCATCATCATTCCCTACACGATAAAAGACGCCAACATCGGc                                              <  1:1650934/68‑1 (MQ=255)
tGTTCACCCAACTCTCGTCGATTCAGAGCATCATCATTCCCTACACGATAAAAGACGCCAACATCGGc                                              <  1:3314568/68‑1 (MQ=255)
tGTTCACCCAACTCTCGTCGATTCAGAGCATCATCATTCCCTACACGATAAAAGACGCCAACATCGGc                                              <  1:1274452/68‑1 (MQ=255)
          aCTCTCGTCGGTTCAGAGCATCATCATTCCCTACGCGATAAAAAACCCCGACATCGGCCTCATCATTc                                    >  1:3049347/1‑68 (MQ=255)
          aCTCTCGTCGGTTCAGAGCATCATCATTCCCTACGCGATAAAAAACCCCGACATCGGCCTCATCATTc                                    >  1:2242494/1‑68 (MQ=255)
          aCTCTCGTCGGTTCAGAGCATCATCATTCCCTACGCGATAAAAAACCCCGACATCGGCCTCATCATTc                                    >  1:2516830/1‑68 (MQ=255)
          aCTCTCGTCGGTTCAGAGCATCATCATTCCCTACGCGATAAAAAACCCCGACATCGGCCTCATCATTc                                    >  1:1721642/1‑68 (MQ=255)
          aCTCTCGTCGGTTCAGAGCATCATCATTCCCTACGCGATAAAAAACCCCGACATCGGCCTCATCATTc                                    >  1:2852429/1‑68 (MQ=255)
          aCTCTCGTCGGTTCAGAGCATCATCATTCCCTACGCGATAAAAAACCCCGACATCGGCCTCATCATTc                                    >  1:1530822/1‑68 (MQ=255)
          aCTCTCGTCGGTTCAGAGCATCATCATTCCCTACGCGATAAAAAACCCCGACATCGGCCTCATCATTc                                    >  1:1413328/1‑68 (MQ=255)
          aCTCTCGTCGGTTCAGAGCATCATCATTCCCTACGCGATAAAAAACCCCGACATCGGCCTCATCATTc                                    >  1:1325284/1‑68 (MQ=255)
          aCTCTCGTCGGTTCAGAGCATCATCATTCCCTACGCGATAAAAAACCCCGACATCGGCCTCATCATTc                                    >  1:1295517/1‑68 (MQ=255)
          aCTCTCGTCGGTTCAGAGCATCATCATTCCCTACGCGATAAAAAACCCCGACATCGGCCTCATCATTc                                    >  1:1174855/1‑68 (MQ=255)
          aCTCTCGTCGGTTCAGAGCATCATCATTCCCTACGCGATAAAAAACCCCGACATCGGCCTCATCATTc                                    >  1:853608/1‑68 (MQ=255)
                  cgATTCAGAGCATCATCATTCCCTACACGATAAAAGACGCCAAc                                                    <  1:3370230/44‑1 (MQ=255)
                  cgATTCAGAGCATCATCATTCCCTACACGATAAAAGACGCCAAc                                                    <  1:12927/44‑1 (MQ=255)
                  cgATTCAGAGCATCATCATTCCCTACACGATAAAAGACGCCAAc                                                    <  1:1255567/44‑1 (MQ=255)
                  cgATTCAGAGCATCATCATTCCCTACACGATAAAAGACGCCAAc                                                    <  1:1032070/44‑1 (MQ=255)
                  cgATTCAGAGCATCATCATTCCCTACACGATAAAAGACGCCAAc                                                    <  1:1061014/44‑1 (MQ=255)
                  cgATTCAGAGCATCATCATTCCCTACACGATAAAAGACGCCAAc                                                    <  1:2847627/44‑1 (MQ=255)
                  cgATTCAGAGCATCATCATTCCCTACACGATAAAAGACGCCAACATCGGCCTCATCATTCAGTAgcg                             <  1:640127/67‑1 (MQ=255)
                   ggttCAGAGCATCATCATTCCCTACGCGATAAAAAACCCCGACATCGGCCTcatcat                                      >  1:2126060/3‑57 (MQ=255)
                   ggttCAGAGCATCATCATTCCCTACGCGATAAAAAACCCCGACATCGGCCTcatcat                                      >  1:1047416/3‑57 (MQ=255)
                   ggttCAGAGCATCATCATTCCCTACGCGATAAAAAACCCCGACATCGGCCTcatcat                                      >  1:2501389/3‑57 (MQ=255)
                   ggttCAGAGCATCATCATTCCCTACGCGATAAAAAACCCCGACATCGGCCTcatcat                                      >  1:1918798/3‑57 (MQ=255)
                   ggttCAGAGCATCATCATTCCCTACGCGATAAAAAACCCCGACATCGGCCTcatcat                                      >  1:2533883/3‑57 (MQ=255)
                   ggttCAGAGCATCATCATTCCCTACGCGATAAAAAACCCCGACATCGGCCTcatcat                                      >  1:259098/3‑57 (MQ=255)
                   ggttCAGAGCATCATCATTCCCTACGCGATAAAAAACCCCGACATCGGCCTcatcat                                      >  1:276467/3‑57 (MQ=255)
                   ggttCAGAGCATCATCATTCCCTACGCGATAAAAAACCCCGACATCGGCCTcatcat                                      >  1:1194694/3‑57 (MQ=255)
                   ggttCAGAGCATCATCATTCCCTACGCGATAAAAAACCCCGACATCGGCCTcatcat                                      >  1:1595806/3‑57 (MQ=255)
                   ggttCAGAGCATCATCATTCCCTACGCGATAAAAAACCCCGACATCGGCCTcatcat                                      >  1:696015/3‑57 (MQ=255)
                   ggttCAGAGCATCATCATTCCCTACGCGATAAAAAACCCCGACATCGGCCTcatcat                                      >  1:1252244/3‑57 (MQ=255)
                   ggttCAGAGCATCATCATTCCCTACGCGATAAAAAACCCCGACATCGGCCTcatcat                                      >  1:3058707/3‑57 (MQ=255)
                   gATTCAGAGCATCATCATTCCCTACACGATAAAAGACGCCAAc                                                    <  1:1874277/43‑1 (MQ=255)
                        agagCATCATCATTCCCTACGCGATAAAAAACCCCGACATCGGCCTcatcat                                      >  1:264616/1‑52 (MQ=255)
                        agagCATCATCATTCCCTACGCGATAAAAAACCCCGACATCGGCCTcatcat                                      >  1:2617192/1‑52 (MQ=255)
                        agagCATCATCATTCCCTACGCGATAAAAAACCCCGACATCGGCCTcatcat                                      >  1:2590550/1‑52 (MQ=255)
                        agagCATCATCATTCCCTACGCGATAAAAAACCCCGACATCGGCCTcatcat                                      >  1:845413/1‑52 (MQ=255)
                        agagCATCATCATTCCCTACGCGATAAAAAACCCCGACATCGGCCTcatcat                                      >  1:924507/1‑52 (MQ=255)
                        agagCATCATCATTCCCTACGCGATAAAAAACCCCGACATCGGCCTcatcat                                      >  1:962791/1‑52 (MQ=255)
                        agagCATCATCATTCCCTACGCGATAAAAAACCCCGACATCGGCCTcatcat                                      >  1:2400941/1‑52 (MQ=255)
                        agagCATCATCATTCCCTACGCGATAAAAAACCCCGACATCGGCCTcatcat                                      >  1:3322008/1‑52 (MQ=255)
                        agagCATCATCATTCCCTACGCGATAAAAAACCCCGACATCGGCCTcatcat                                      >  1:1468259/1‑52 (MQ=255)
                        agagCATCATCATTCCCTACGCGATAAAAAACCCCGACATCGGCCTcatcat                                      >  1:2071401/1‑52 (MQ=255)
                        agagCATCATCATTCCCTACGCGATAAAAAACCCCGACATCGGCCTcatcat                                      >  1:1186125/1‑52 (MQ=255)
                        agagCATCATCATTCCCTACGCGATAAAAAACCCCGACATCGGCCTcatcat                                      >  1:1632550/1‑52 (MQ=255)
                        agagCATCATCATTCCCTACGCGATAAAAAACCCCGACATCGGCCTcatcat                                      >  1:1204518/1‑52 (MQ=255)
                        agagCATCATCATTCCCTACGCGATAAAAAACCCCGACATCGGCCTcatcat                                      >  1:133237/1‑52 (MQ=255)
                                atcatTCCCTACACGATAAAAGACGCCAACATCgg                                               >  1:1221281/1‑35 (MQ=255)
                                atcatTCCCTACACGATAAAAGACGCCAACATCgg                                               >  1:1829776/1‑35 (MQ=255)
                                atcatTCCCTACACGATAAAAGACGCCAACATCGGc                                              >  1:1012644/1‑36 (MQ=255)
                                atcatTCCCTACACGATAAAAGACGCCAACATCGGc                                              >  1:1341014/1‑36 (MQ=255)
                                atcatTCCCTACACGATAAAAGACGCCAACATCGGc                                              >  1:1784535/1‑36 (MQ=255)
                                atcatTCCCTACACGATAAAAGACGCCAACATCGGc                                              >  1:560404/1‑36 (MQ=255)
                                atcatTCCCTACACGATAAAAGACGCCAACATCGGc                                              >  1:2309948/1‑36 (MQ=255)
                                atcatTCCCTACACGATAAAAGACGCCAACATCGGc                                              >  1:2005425/1‑36 (MQ=255)
                                atcatTCCCTACACGATAAAAGACGCCAACATCGGc                                              >  1:196852/1‑36 (MQ=255)
                                atcatTCCCTACACGATAAAAGACGCCAACATCGGc                                              >  1:838796/1‑36 (MQ=255)
                                atcatTCCCTACACGATAAAAGACGCCAACATCGGCCTCATCATTCAGTAGCGCATCACGGATCACGt              >  1:558241/1‑68 (MQ=255)
                                atcatTCCCTACACGATAAAAGACGCCAACATCGGCCTCATCATTCAGTAGCGCATCACGGATCACGt              >  1:3028960/1‑68 (MQ=255)
                                atcatTCCCTACACGATAAAAGACGCCAACATCGGCCTCATCATTCAGTAGCGCATCACGGATCACGt              >  1:349778/1‑68 (MQ=255)
                                atcatTCCCTACACGATAAAAGACGCCAACATCGGCCTCATCATTCAGTAGCGCATCACGGATCACGt              >  1:1599006/1‑68 (MQ=255)
                                atcatTCCCAACACGATAAAAGACGCCAACATCGGc                                              >  1:2518021/1‑36 (MQ=255)
                                     tCCCTACACGATAAAAGACGCCAACATCGGCCTCATCATTCAGTAGCTCATCACGGATCACGTAACAGt        <  1:1322905/69‑1 (MQ=255)
                                     tCCCTACACGATAAAAGACGCCAACATCGGCCTCATCATTCAGTAGCGCATCACGGATCACGTAACAGt        <  1:1925207/69‑1 (MQ=255)
                                     tCCCTACACGATAAAAGACGCCAACATCGGCCTCATCATTCAGTAGCGCATCACGGATCACGTAACAGt        <  1:593864/69‑1 (MQ=255)
                                     tCCCTACACGATAAAAGACGCCAACATCGGCCTCATCATTCAGTAGCGCATCACGGATCACGTAACAGt        <  1:2629641/69‑1 (MQ=255)
                                     tCCCTACACGATAAAAGACGCCAACATCGGCCTCATCATTCAGTAGCGCATCACGGATCACGTAACAGt        <  1:2614056/69‑1 (MQ=255)
                                     tCCCTACACGATAAAAGACGCCAACATCGGCCTCATCATTCAGTAGCGCATCACGGATCACGTAACAGt        <  1:1905425/69‑1 (MQ=255)
                                     tCCCTACACGATAAAAGACGCCAACATCGGCCTCATCATTCAGTAGCGCATCACGGATCACGTAACAGt        <  1:440246/69‑1 (MQ=255)
                                      cccTACACGATAAAAGACGCCAACATCGGCCTCATCATTCAGTAGCGCATCACGGATCACGTAACAg         >  1:3145984/1‑67 (MQ=255)
                                      cccTACACGATAAAAGACGCCAACATCGGCCTCATCATTCAGTAGCGCATCACGGATCACGTAACAg         >  1:2073328/1‑67 (MQ=255)
                                      cccTACACGATAAAAGACGCCAACATCGGCCTCATCATTCAGTAGCGCATCACGGATCACGTAACAg         >  1:1977118/1‑67 (MQ=255)
                                      cccTACACGATAAAAGACGCCAACATCGGCCTCATCATTCAGTAGCGCATCACGGATCACGTAACAGt        <  1:425049/68‑1 (MQ=255)
                                        cTACACGATAAAAGACGCCAACATCGGCCTCATCATTCAGTAGCGCATCACGGATCACGTAACAGTTc      <  1:1087284/68‑1 (MQ=255)
                                        cTACACGATAAAAGACGCCAACATCGGCCTCATCATTCAGTAGCGCATCACGGATCACGTAACAGTTc      <  1:329419/68‑1 (MQ=255)
                                        cTACACGATAAAAGACGCCAACATCGGCCTCATCATTCAGTAGCGCATCACGGATCACGTAACAGTTc      <  1:907444/68‑1 (MQ=255)
                                        cTACACGATAAAAGACGCCAACATCGGCCTCATCATTCAGTAGCGCATCACGGATCACGTAACAGTTc      <  1:2333456/68‑1 (MQ=255)
                                        cTACACGATAAAAGACGCCAACATCGGCCTCATCATTCAGTAGCGCATCACGGATCACGTAACAGTTc      <  1:809665/68‑1 (MQ=255)
                                        cTACACGATAAAAGACGCCAACATCGGCCTCATCATTCAGTAGCGCATCACGGATCACGTAACAGTTc      <  1:1292749/68‑1 (MQ=255)
                                        cTACACGATAAAAGACGCCAACATCGGCCTCATCATTCAGTAGCGCATCACGGATCACGTAACAGTTc      <  1:1907632/68‑1 (MQ=255)
                                           cacGATAAAAGACGCCAACATCGGCCTCATCATTCAGTAGCGCATCACgg                     <  1:2941136/50‑1 (MQ=255)
                                           cacGATAAAAGACGCCAACATCGGCCTCATCATTCAGTAGCGCATCACgg                     <  1:782026/50‑1 (MQ=255)
                                           cacGATAAAAGACGCCAACATCGGCCTCATCATTCAGTAGCGCATCACgg                     <  1:2489879/50‑1 (MQ=255)
                                           cacGATAAAAGACGCCAACATCGGCCTCATCATTCAGTAGCGCATCACgg                     <  1:2550701/50‑1 (MQ=255)
                                           cacGATAAAAGACGCCAACATCGGCCTCATCATTCAGTAGCGCATCACgg                     <  1:2662130/50‑1 (MQ=255)
                                           cacGATAAAAGACGCCAACATCGGCCTCATCATTCAGTAGCGCATCACGGATCACGTAACAGTTCAGc   >  1:1863546/1‑68 (MQ=255)
                                           cacGATAAAAGACGCCAACATCGGCCTCATCATTCAGTAGCGCATCACGGATCACGTAACAGTTCAGCg  >  1:1343203/1‑69 (MQ=255)
                                           cacGATAAAAGACGCCAACATCGGCCTCATCATTAAGTAGCGCATCACGGATCACGTAACAGTTCAGCg  >  1:2572134/1‑69 (MQ=255)
                                             cGATAAAAGACGCCAACATCGGCCTCATCATTCAGTAGCGCATCACGGATCACGTAACAGTTCAGCg  <  1:2004890/67‑1 (MQ=255)
                                             cGATAAAAGACGCCAACATCGGCCTCATCATTCAGTAGCGCATCACGGATCACGTAACAGTTCAGCg  <  1:2862864/67‑1 (MQ=255)
                                                 aaaaaaCCCCGACATCGGCCTCATCATTCAGTAGCGCATCACGGATCACGTAACAGTTCAGc   <  1:2476810/62‑1 (MQ=255)
                                                 aaaaaaCCCCGACATCGGCCTCATCATTCAGTAGCGCATCACGGATCACGTAACAGTTCAGc   <  1:3381080/62‑1 (MQ=255)
                                                 aaaaaaCCCCGACATCGGCCTCATCATTCAGTAGCGCATCACGGATCACGTAACAGTTCAGc   <  1:2097731/62‑1 (MQ=255)
                                                 aaaaGACGCCAACATCGGCCTCATCATTCAGTAGCGCATCACGGATCACGTAACAGTTCAGCg  <  1:1892280/63‑1 (MQ=255)
                                                     gACGCCAACATCGGCCTCATCATTCAGTAGCGCATCACgg                     <  1:3370295/40‑1 (MQ=255)
                                                           |                                                    
TGTTCACCCAACTCTCGTCGATTCAGAGCATCATCATTCCCTACACGATAAAAGACGCCAACATCGGCCTCATCATTCAGTAGCGCATCACGGATCACGTAACAGTTCAGCG  >  minE/1747522‑1747633

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