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 1,439,903 A→G 44.1% G133G (GGT→GGC)  ompC ← outer membrane porin protein C

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,439,9030AG44.1% 23.0 / 88.8 110G133G (GGT→GGC) ompCouter membrane porin protein C
Reads supporting (aligned to +/- strand):  ref base A (19/42);  new base G (15/33);  total (34/76)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.18e-01

Only 100 of 118 total aligned reads displayed.

ACGGTAGGTCGCGAAGCCGTTACCACGCTGCTGCATGAAGTTGTCAGAACCGTAGGTGTCACCACCGAATTCTGGCAGTACGTCGGTCCAGGAAGTTACGTCATAAACAACGCCGTAGTTACGAC  >  minE/1439843‑1439967
                                                            |                                                                
aCGGTAGGTCGCGAAGCCGTTACCACGCTGCTGCATGAAGTTGTCAGAACCGTAGGTGTCACCACCGaa                                                          >  1:260936/1‑69 (MQ=255)
  ggTAGGTCGCGAAGCCGTTACCACGCTGCTGCATGAAGTTGTCAGAACCGTAGGTGTCGCCACCGAAt                                                         <  1:1011607/68‑1 (MQ=255)
  ggTAGGTCGCGAAGCCGTTACCACGCTGCTGCATGAAGTTGTCAGAACCGTAGGTGTCGCCACCGAAt                                                         <  1:3197187/68‑1 (MQ=255)
  ggTAGGTCGCGAAGCCGTTACCACGCTGCTGCATGAAGTTGTCAGAACCGTAGGTGTCGCCACCGAAt                                                         <  1:2209812/68‑1 (MQ=255)
  ggTAGGTCGCGAAGCCGTTACCACGCTGCTGCATGAAGTTGTCAGAACCGTAGGTGTCGCCACCGAAt                                                         <  1:220235/68‑1 (MQ=255)
  ggTAGGTCGCGAAGCCGTTACCACGCTGCTGCATGAAGTTGTCAGAACCGTAGGTGTCGCCACCGAAt                                                         <  1:3289322/68‑1 (MQ=255)
  ggTAGGTCGCGAAGCCGTTACCACGCTGCTGCATGAAGTTGTCAGAACCGTAGGTGTCGCCACCGAAt                                                         <  1:3294248/68‑1 (MQ=255)
  ggTAGGTCGCGAAGCCGTTACCACGCTGCTGCATGAAGTTGTCAGAACCGTAGGTGTCGCCACCGAAt                                                         <  1:2447520/68‑1 (MQ=255)
  ggTAGGTCGCGAAGCCGTTACCACGCTGCTGCATGAAGTTGTCAGAACCGTAGGTGTCGCCACCGAAt                                                         <  1:1826839/68‑1 (MQ=255)
  ggTAGGTCGCGAAGCCGTTACCACGCTGCTGCATGAAGTTGTCAGAACCGTAGGTGTCGCCACCGAAt                                                         <  1:2476696/68‑1 (MQ=255)
  ggTAGGTCGCGAAGCCGTTACCACGCTGCTGCATGAAGTTGTCAGAACCGTAGGTGTCGCCACCGAAt                                                         <  1:1755959/68‑1 (MQ=255)
  ggTAGGTCGCGAAGCCGTTACCACGCTGCTGCATGAAGTTGTCAGAACCGTAGGTGTCGCCACCGAAt                                                         <  1:2484647/68‑1 (MQ=255)
  ggTAGGTCGCGAAGCCGTTACCACGCTGCTGCATGAAGTTGTCAGAACCGTAGGTGTCGCCACCGAAt                                                         <  1:1671118/68‑1 (MQ=255)
  ggTAGGTCGCGAAGCCGTTACCACGCTGCTGCATGAAGTTGTCAGAACCGTAGGTGTCGCCACCGAAt                                                         <  1:2561601/68‑1 (MQ=255)
  ggTAGGTCGCGAAGCCGTTACCACGCTGCTGCATGAAGTTGTCAGAACCGTAGGTGTCGCCACCGAAt                                                         <  1:1587172/68‑1 (MQ=255)
  ggTAGGTCGCGAAGCCGTTACCACGCTGCTGCATGAAGTTGTCAGAACCGTAGGTGTCGCCACCGAAt                                                         <  1:1585749/68‑1 (MQ=255)
  ggTAGGTCGCGAAGCCGTTACCACGCTGCTGCATGAAGTTGTCAGAACCGTAGGTGTCGCCACCGAAt                                                         <  1:2993673/68‑1 (MQ=255)
  ggTAGGTCGCGAAGCCGTTACCACGCTGCTGCATGAAGTTGTCAGAACCGTAGGTGTCGCCACCGAAt                                                         <  1:1409833/68‑1 (MQ=255)
  ggTAGGTCGCGAAGCCGTTACCACGCTGCTGCATGAAGTTGTCAGAACCGTAGGTGTCGCCACCGAAt                                                         <  1:683602/68‑1 (MQ=255)
  ggTAGGTCGCGAAGCCGTTACCACGCTGCTGCATGAAGTTGTCAGAACCGTAGGTGTCGCCACCGAAt                                                         <  1:689665/68‑1 (MQ=255)
  ggTAGGTCGCGAAGCCGTTACCACGCTGCTGCATGAAGTTGTCAGAACCGTAGGTGTCGCCACCGAAt                                                         <  1:1062849/68‑1 (MQ=255)
  ggTAGGTCGCGAAGCCGTTACCACGCTGCTGCATGAAGTTGTCAGAACCGTAGGTGTCGCCACCGAAt                                                         <  1:1321029/68‑1 (MQ=255)
  ggTAGGTCGCGAAGCCGTTACCACGCTGCTGCATGAAGTTGTCAGAACCGTAGGTGTCGCCACCGAAt                                                         <  1:2780907/68‑1 (MQ=255)
  ggTAGGTCGCGAAGCCGTTACCACGCTGCTGCATGAAGTTGTCAGAACCGTAGGTGTCGCCACCGAAt                                                         <  1:2807585/68‑1 (MQ=255)
  ggTAGGTCGCGAAGCCGTTACCACGCTGCTGCATGAAGTTGTCAGAACCGTAGGTGTCGCCACCGAAt                                                         <  1:1143307/68‑1 (MQ=255)
  ggTAGGTCGCGAAGCCGTTACCACGCTGCTGCATGAAGTTGTCAGAACCGTAGGTGTCCCCACCGAAt                                                         <  1:299502/68‑1 (MQ=255)
  ggTAGGTCGCGAACCCGTTACCACGCTGCTGCATGAAGTTGTCAGAACCGTAGGTGTCGCCACCGAAt                                                         <  1:2503664/68‑1 (MQ=255)
                     aCCACGCTGCTGCATGAAGTTGTCAGAACCGTAGGTGTcacc                                                                >  1:3271428/1‑42 (MQ=255)
                     aCCACGCTGCTGCATGAAGTTGTCAGAACCGTAGGTGTCGCCACCGAAt                                                         <  1:3117344/49‑1 (MQ=255)
                     aCCACGCTGCTGCATGAAGTTGTCAGAACCGTAGGTGTCACCACCGAATTCTGGCAGTACGTCGGTcc                                      >  1:2606085/1‑68 (MQ=255)
                     aCCACGCTGCTGCATGAAGTTGTCAGAACCGTAGGTGTCACCACCGAATTCTGGCAGTACGTCGGTcc                                      >  1:2378036/1‑68 (MQ=255)
                     aCCACGCTGCTGCATGAAGTTGTCAGAACCGTAGGTGTCACCACCGAATTCTGGCAGTACGTCGGTcc                                      >  1:2097347/1‑68 (MQ=255)
                     aCCACGCTGCTGCATGAAGTTGTCAGAACCGTAGGTGTCACCACCGAATTCTGGCAGTACGTCGGTcc                                      >  1:2076195/1‑68 (MQ=255)
                     aCCACGCTGCTGCATGAAGTTGTCAGAACCGTAGGTGTCACCACCGAATTCTGGCAGTACGTCGGTcc                                      >  1:1722157/1‑68 (MQ=255)
                     aCCACGCTGCTGCATGAAGTTGTCAGAACCGTAGGTGTCACCACCGAATTCTGGCAGTACGTCGGTcc                                      >  1:2648221/1‑68 (MQ=255)
                     aCCACGCTGCTGCATGAAGTTGTCAGAACCGTAGGTGTCACCACCGAATTCTGGCAGTACGTCGGTcc                                      >  1:3010280/1‑68 (MQ=255)
                     aCCACGCTGCTGCATGAAGTTGTCAGAACCGTAGGTGTCACCACCGAATTCTGGCAGTACGTCGGTcc                                      >  1:2574733/1‑68 (MQ=255)
                       cACGCTGCTGCATGAAGTTGTCAGAACCGTAGGTGTCACCACCGAATTCTGGCAGTACGTCGGTCCa                                     >  1:3410325/1‑67 (MQ=255)
                        aCGCTGCTGCATGAAGTTGTCAGAACCGTAGGTGTCACCACCGAATTCTGGCAGTACGTCGGTCCAGGa                                  <  1:2475427/69‑1 (MQ=255)
                        aCGCTGCTGCATGAAGTTGTCAGAACCGTAGGTGTCACCACCGAATTCTGGCAGTACGTCGGTCCAGGa                                  <  1:1449367/69‑1 (MQ=255)
                           ctgctgCATGAAGTTGTCAGAACCGTAGGTGTCACCACCGAATTCTGGCAGTACGTCGGTCCAGGAAGt                               <  1:2794932/69‑1 (MQ=255)
                           ctgctgCATGAAGTTGTCAGAACCGTAGGTGTCACCACCGAATTCTGGCAGTACGTCGGTCCAGGAAGt                               <  1:3316601/69‑1 (MQ=255)
                           ctgctgCATGAAGTTGTCAGAACCGTAGGTGTCACCACCGAATTCTGGCAGTACGTCGGTCCAGGAAGt                               <  1:2447518/69‑1 (MQ=255)
                           ctgctgCATGAAGTTGTCAGAACCGTAGGTGTCACCACCGAATTCTGGCAGTACGTCGGTCCAGGAAGt                               <  1:959264/69‑1 (MQ=255)
                           ctgctgCATGAAGTTGTCAGAACCGTAGGTGTCACCACCGAATTCTGGCAGTACGTCGGTCCAGGAAGt                               <  1:82967/69‑1 (MQ=255)
                           ctgctgCATGAAGTTGTCAGAACCGTAGGTGTCACCACCGAATTCTGGCAGTACGTCGGTCCAGGAAGt                               <  1:655863/69‑1 (MQ=255)
                           ctgctgCATGAAGTTGTCAGAACCGTAGGTGTCACCACCGAATTCTGGCAGTACGTCGGTCCAGGAAGt                               >  1:678585/1‑69 (MQ=255)
                           ctgctgCATGAAGTTGTCAGAACCGTAGGTGTCACCACCGAATTCTGGCAGTACGTCGGTCCAGGAAGt                               <  1:1301817/69‑1 (MQ=255)
                           ctgctgCATGAAGTTGTCAGAACCGTAGGTGTCACCACCGAATTCTGGCAGTACGTCGGTCCAGGAAGt                               <  1:777515/69‑1 (MQ=255)
                             gctgcATGAAGTTGTCAGAACCGTAGGTGTCACCACCGAATTCTGGCAGTACGTc                                           <  1:1796822/55‑1 (MQ=255)
                             gctgcATGAAGTTGTCAGAACCGTAGGTGTCACCACCGAATTCTGGCAGTACGTc                                           <  1:697955/55‑1 (MQ=255)
                                         tGTCAGAACCGTAGGTGTCACCACCGAATTCTGGCAGTACGTCGGTCCAGGAAGTTACGTCATAaacaa                 <  1:1691144/69‑1 (MQ=255)
                                         tGTCAGAACCGTAGGTGTCACCACCGAATTCTGGCAGTACGTCGGTCCAGGAAGTTACGTCATAaacaa                 <  1:472826/69‑1 (MQ=255)
                                         tGTCAGAACCGTAGGTGTCACCACCGAATTCTGGCAGTACGTCGGTCCAGGAAGTTACGTCATAaacaa                 <  1:560652/69‑1 (MQ=255)
                                         tGTCAGAACCGTAGGTGTCACCACCGAATTCTGGCAGTACGTAGGTCCAGGAAGTTACGTCATAaacaa                 <  1:1100958/69‑1 (MQ=255)
                                          gTCAGAACCGTAGGTGTCGCCACCGAATTCTGGCAGAACGTCGGTGCAGGAAGTTACGTCGTAaacaac                >  1:304269/1‑69 (MQ=255)
                                          gTCAGAACCGTAGGTGTCGCCACCGAATTCTGGCAGAACGTCGGTCCAGGAAGTTACGTCGTAaacaac                >  1:2885244/1‑69 (MQ=255)
                                          gTCAGAACCGTAGGTGTCGCCACCGAATTCTGGCAGAACGTCGGTCCAGGAAGTTACGTCGTAaacaac                >  1:3145309/1‑69 (MQ=255)
                                          gTCAGAACCGTAGGTGTCGCCACCGAATTCTGGCAGAACGTCGGTCCAGGAAGTTACGTCGTAaacaac                >  1:3000921/1‑69 (MQ=255)
                                          gTCAGAACCGTAGGTGTCGCCACCGAATTCTGGCAGAACGTCGGTCCAGGAAGTTACGTCGTAaacaac                >  1:56525/1‑69 (MQ=255)
                                          gTCAGAACCGTAGGTGTCGCCACCGAATTCTGGCAGAACGTCGGTCCAGGAAGTTACGTCGTAaacaac                >  1:345716/1‑69 (MQ=255)
                                          gTCAGAACCGTAGGTGTCGCCACCGAATTCTGGCAGAACGTCGGTCCAGGAAGTTACGTCGTAaacaac                >  1:3394620/1‑69 (MQ=255)
                                          gTCAGAACCGTAGGTGTCGCCACCGAATTCTGGCAGAACGTCGGTCCAGGAAGTTACGTCGTAaacaac                >  1:964365/1‑69 (MQ=255)
                                          gTCAGAACCGTAGGTGTCGCCACCGAATTCTGGCAGAACGTCGGTCCAGGAAGTTACGTCGTAaacaac                >  1:1013044/1‑69 (MQ=255)
                                          gTCAGAACCGTAGGTGTCGCCACCGAATTCTGGCAGAACGTCGGTCCAGGAAGTTACGTCGTAaacaac                >  1:1396106/1‑69 (MQ=255)
                                          gTCAGAACCGTAGGTGTCGCCACCGAATTCTGGCAGAACGTCGGTCCAGGAAGTTACGTCGTAaacaac                >  1:143431/1‑69 (MQ=255)
                                          gTCAGAACCGTAGGTGTCGCCACCGAATTCTGGCAGAACGTCGGTCCAGGAAGTTACGTCGTAaacaac                >  1:1603776/1‑69 (MQ=255)
                                          gTCAGAACCGTAGGTGTCGCCACCGAATTCTGGCAGAACGTCGGTCCAGGAAGTTACGTCGTAaacaac                >  1:2194065/1‑69 (MQ=255)
                                          gTCAGAACCGTAGGTGTCGCCACCGAATTCTGGCAGAACGTCGGTCCAGGAAGTTACGTCGTAaacaac                >  1:2179016/1‑69 (MQ=255)
                                                   gTAGGTGTCACCACCGAATTCTGGCAGTACGTCGGTCCAGGAAGTTACGTCATAAACAACGCCGTAGtt       <  1:1680587/69‑1 (MQ=255)
                                                   gTAGGTGTCACCACCGAATTCTGGCAGTACGTCGGTCCAGGAAGTTACGTCATAAACAACGCCGTAGtt       <  1:721913/69‑1 (MQ=255)
                                                   gTAGGTGTCACCACCGAATTCTGGCAGTACGTCGGTCCAGGAAGTTACGTCATAAACAACGCCGTAGtt       <  1:1334626/69‑1 (MQ=255)
                                                   gTAGGTGTCACCACCGAATTCTGGCAGTACGTCGGTCCAGGAAGTTACGTCATAAACAACGCCGTAGtt       <  1:61716/69‑1 (MQ=255)
                                                   gTAGGTGTCACCACCGAATTCTGGCAGTACGTCGGTCCAGGAAGTTACGTCATAAACAACGCCGTAGtt       <  1:1523625/69‑1 (MQ=255)
                                                   gTAGGTGTCACCACCGAATTCTGGCAGTACGTCGGTCCAGGAAGTTACGTCATAAACAACGCCGTAGtt       <  1:3422317/69‑1 (MQ=255)
                                                   gTAGGTGTCACCACCGAATTCTGGCAGTACGTCGGTCCAGGAAGTTACGTCATAAACAACGCCGTAGtt       <  1:1846977/69‑1 (MQ=255)
                                                   gTAGGTGTCACCACCGAATTCTGGCAGTACGTCGGTCCAGGAAGTTACGTCATAAACAACGCCGTAGtt       <  1:2823547/69‑1 (MQ=255)
                                                   gTAGGTGTCACCACCGAATTCTGGCAGTACGTCGGTCCAGGAAGTTACGTCATAAACAACGCCGTAGtt       <  1:2638204/69‑1 (MQ=255)
                                                   gTAGGTGTCACCACCGAATTCTGGCAGTACGTCGGTCCAGGAAGTTACGTCATAAACAACGCCGTAGtt       <  1:2462564/69‑1 (MQ=255)
                                                   gTAGGTGTCACCACCGAATTCTGGCAGTACGTCGGTCCAGGAAGTTACGTCATAAACAACGCCGTAGtt       <  1:2344821/69‑1 (MQ=255)
                                                   gTAGGTGTCACCACCGAATTCTGGCAGTACGTCGGTCCAGGAAGTTACGTCATAAACAACGCAGTAGtt       <  1:438752/69‑1 (MQ=255)
                                                   gTAGGTGTCACCACCGAATTCTGGCAGTACGTCGGTCCAGGAAGTTACCTCATAAACAACGCCGTAGtt       <  1:2846719/69‑1 (MQ=255)
                                                    tAGGTGTCACCACCGAATTCTGGCAGTACGTCGGTCCAGGAAGTTACGTCATAAACAACGCCGTAGtt       <  1:2815835/68‑1 (MQ=255)
                                                    tAGGTGTCACCACCGAATTCTGGCAGTACGTCGGTCCAGGAAGTTACGTCATAAACAACGCCGTAGTTa      <  1:2419796/69‑1 (MQ=255)
                                                    tAGGTGTCACCACCGAATTCTGGCAGTACGTCGGTCCAGGAAGTTACGTCATAAACAACGCCGTAGTTa      <  1:807086/69‑1 (MQ=255)
                                                    tAGGTGTCACCACCGAATTCTGGCAGTACGTCGGTCCAGGAAGTTACGTCATAAACAACGCCGTAGTTa      <  1:1429798/69‑1 (MQ=255)
                                                    tAGGTGTCACCACCGAATTCTGGCAGTACGTCGGTCCAGGAAGTTACGTCATAAACAACGCCGTAGTTa      <  1:1860413/69‑1 (MQ=255)
                                                    tAGGTGTCACCACCGAATTCTGGCAGTACGTCGGTCCAGGAAGTTACGTCATAAACAACGCCGTAGTTa      <  1:2328414/69‑1 (MQ=255)
                                                    tAGGTGTCACCACCGAATTCTGGCAGTACGTCGGTCCAGGAAGTTACGTCATAAACAACGCCGTAGTTa      <  1:3435732/69‑1 (MQ=255)
                                                    tAGGTGTCACCACCGAATTCTGGCAGTACGTCGGTCCAGGAAGTTACGTCATAAACAACGCCGTAGTTa      <  1:3403702/69‑1 (MQ=255)
                                                     aGGTGTCACCACCGAATTCTGGCAGTACGTCGGTCCAGGAAGTTACGTCATAAACAACGCCGTAGTTa      <  1:2113976/68‑1 (MQ=255)
                                                        tgtCACCACCGAATTCTGGCAGTACGTCGGTCCAGGAAGTTACGTCATAAACAACGCCGTAGTTACGa   >  1:1490696/1‑68 (MQ=255)
                                                        tgtCACCACCGAATTCTGGCAGTACGTCGGTCCAGGAAGTTACGTCATAAACAACGCCGTAGTTACGAc  >  1:2870617/1‑69 (MQ=255)
                                                        tgtCACCACCGAATTCTGGCAGTACGTCGGTCCAGGAAGTTACGTCATAAACAACGCCGTAGTTACGAc  >  1:1689036/1‑69 (MQ=255)
                                                        tgtCACCACCGAATTCTGGCAGTACGTCGGTCCAGGAAGTTACGTCATAAACAACGCCGTAGTTACGAc  >  1:1046166/1‑69 (MQ=255)
                                                            accaccGAATTCTGGCAGTACGTCGGTCCAGGAAGTTACGTCATAAACAACGCCGTAGTTACg    >  1:546601/1‑63 (MQ=255)
                                                            accaccGAATTCTGGCAGTACGTCGGTCCAGGAAGTTACGTCATAAACAACGCCGTAGTTACg    >  1:35685/1‑63 (MQ=255)
                                                            accaccGAATTCTGGCAGTACGTCGGTCCAGGAAGTTACGTCATAAACAACGCCGTAGTTACg    >  1:1371633/1‑63 (MQ=255)
                                                            accaccGAATTCTGGCAGTACGTCGGTCCAGGAAGTTACGTCATAAACAACGCCGTAGTTACg    >  1:1193248/1‑63 (MQ=255)
                                                            accaccGAATTCTGGCAGTACGTCGGTCCAGGAAGTTACGTCATAAACAACGCCGTAGTTACg    >  1:1085646/1‑63 (MQ=255)
                                                            |                                                                
ACGGTAGGTCGCGAAGCCGTTACCACGCTGCTGCATGAAGTTGTCAGAACCGTAGGTGTCACCACCGAATTCTGGCAGTACGTCGGTCCAGGAAGTTACGTCATAAACAACGCCGTAGTTACGAC  >  minE/1439843‑1439967

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