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 1,124,414 G→A 50.0% L408L (CTA→TTA)  pheT ← phenylalanine tRNA synthetase, beta subunit

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,124,4140GA50.0% ‑1.3 / 101.9 110L408L (CTA→TTA) pheTphenylalanine tRNA synthetase, beta subunit
Reads supporting (aligned to +/- strand):  ref base G (19/36);  new base A (48/7);  total (67/43)
Fisher's exact test for biased strand distribution p-value = 1.70e-08
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.82e-01

Only 100 of 110 total aligned reads displayed.

AATGTCAGTTACCTGCTCATCCGCAATATGATGGCCGATCAGGCGATCCAGTTTGCTACGACGTAGAGTGATGGTTGCACGCTTCGGCAGCGTTGCTTCGTTGGTGATATCAATTACCGGGCCAGCCTCAC  >  minE/1124349‑1124479
                                                                 |                                                                 
aaTGTCAGTTACCTGCTCATCCGCAATATGATGGCCGATCAGGCGATCCAGTTTGCTACGACGTAGAGt                                                                <  1:3217520/69‑1 (MQ=255)
aaTGTCAGTTACCTGCTCATCCGCAATATGATGGCCGATCAGGCGATCCAGTTTGCTACGACGTAGAGt                                                                <  1:328717/69‑1 (MQ=255)
aaTGTCAGTTACCTGCTCATCCGCAATATGATGGCCGAGCAGGCGATCCAGTTTGCTACGACGTAGAGt                                                                <  1:3280264/69‑1 (MQ=255)
        ttACCTGCTCATCCGCAATATGATGGCCGATCAGGCGATCCAGTTTGCTACGACGTAGAGTGATGGTTg                                                        <  1:2294362/69‑1 (MQ=255)
        ttACCTGCTCATCCGCAATATGATGGCCGATCAGGCGATCCAGTTTGCTACGACGTAGAGTGATGGTTg                                                        <  1:667037/69‑1 (MQ=255)
         tACCTGCTCATCCGCAATATGATGGCCGATCAGGCGATCCAGTTTGCTACGACGTAGAGTGATGGTTGc                                                       >  1:24929/1‑69 (MQ=255)
          aacTGCTCATCCGCAATATGATGGCCGATCAGGCGATCCAGTTTGCTACGACGTAGAGTGATGGtt                                                         >  1:1004625/3‑66 (MQ=255)
          aCCTGCTCATCCGCAATATGATGGGCGATCAGGCGATCCAGTTTGCTACGACGTAGAGTg                                                               >  1:3024091/1‑60 (MQ=255)
          aCCTGCTCATCCGCAATATGATGGCCGATCAGGCGATCCAGTTTGCTACGACGTAGAGTGATGGTTGCa                                                      >  1:2457695/1‑69 (MQ=255)
          aCCTGCTCATCCGCAATATGATGGCCGATCAGGCGATCCAGTTTGCTACGACGTAGAGTGATGGTTGCa                                                      >  1:2177643/1‑69 (MQ=255)
          aCCTGCTCATCCGCAATATGATGGCCGATCAGGCGATCCAGTTTGCTACGACGTAGAGTGATGGTTGCa                                                      >  1:2153617/1‑69 (MQ=255)
          aCCTGCTCATCCGCAATATGATGGCCGATCAGGCGATCCAGTTTGCTACGACGTAGAGTGATGGTTGCa                                                      >  1:3234187/1‑69 (MQ=255)
          aCCTGCTCATCCGCAATATGATGGCCGATCAGGCGATCCAGTTTGCTACGACGTAGAGTGATGGTTGCa                                                      >  1:414498/1‑69 (MQ=255)
          aCCTGCTCATCCGCAATATGATGGCCGATCAGGCGATCCAGTTTGCTACGACGTAGAGTGATGGTTGCa                                                      >  1:1409697/1‑69 (MQ=255)
          aCCTGCTCATCCGCAATATGATGGCCGATCAGGCGATCCAGTTTGCTACGACGTAGAGTGATGGTTGCa                                                      >  1:1021729/1‑69 (MQ=255)
          aCCTGCTCATCCGCAATATGATGGCCGATCAGGCGATCCAGTTTGCTACGACGTAGAGTGATGGTTGCa                                                      >  1:1354820/1‑69 (MQ=255)
                 cATCCGCAATATGATGGCCGATCAGGCGATCCAGTTTGCTACGACGTAGAGTGATGGTTGCACGCTTc                                                >  1:488859/1‑68 (MQ=255)
                 cATCCGCAATATGATGGCCGATCAGGCGATCCAGTTTGCTACGACGTAGAGTGATGGTTGCACGCTTc                                                >  1:1784298/1‑68 (MQ=255)
                 cATCCGCAATATGATGGCCGATCAGGCGATCCAGTTTGCTACGACGTAGAGTGATGGTTGCACGCTTc                                                >  1:829841/1‑68 (MQ=255)
                         atatGATGGCCGATCAGGCGATCCAGTTTGCTACGACGTAGAGTGATGGTTGCACGCTTCGGCAGCGtt                                       >  1:1890200/1‑69 (MQ=255)
                         atatGATGGCCGATCAGGCGATCCAGTTTGCTACGACGTAGAGTGATGGTTGCACGCTTCGGCAGCGtt                                       <  1:2295674/69‑1 (MQ=255)
                         atatGATGGCCGATCAGGCGATCCAGTTTGCTACGACGTAGAGTGATGGTTGCACGCTTCGGCAGCGtt                                       <  1:2515753/69‑1 (MQ=255)
                         atatGATGGCCGATCAGGCGATCCAGTTTGCTACGACGTAGAGTGATGGTTGCACGCTTCGGCAGCGtt                                       <  1:854857/69‑1 (MQ=255)
                         atatGATGGCCGATCAGGCGATCCAGTTTGCTACGACGTAGAGTGATGGTTGCACGCTTCGGCAGCGtt                                       <  1:20699/69‑1 (MQ=255)
                         atatGATGGCCGATCAGGCGATCCAGTTTGCTACGACGTAGAGTGATGGTTGCACGCTTCGGCAGCGtt                                       >  1:829563/1‑69 (MQ=255)
                         atatGATGGCCGATCAGGCGATCCAGTTTGCTACGACGTAGAGTGATGGTTGCACGCTTCGGCAGCGtt                                       >  1:189721/1‑69 (MQ=255)
                         atatGATGGCCGATCAGGCGATCCAGTTTGCTACGACGTAGAGTGATGGTTGCACGCTTCGGCAGCGtt                                       <  1:1499461/69‑1 (MQ=255)
                         atatGATGGCCGATCAGGCGATCCAGTTTGCTACGACGTAGAGTGATGGTTGCACGCTTCGGCAGCGtt                                       <  1:651236/69‑1 (MQ=255)
                         atatGATGGCCGATCAGGCGATCCAGTTTGCTACGACGTAGAGTGATGGTTGCACGCTTCGGCAGCGtt                                       <  1:1286129/69‑1 (MQ=255)
                         atatGATGGCCGATCAGGCGATCCAGTTTGCTACGACGTAGAGTGATGGTTGCACGCTTCGGCAGCGtt                                       <  1:3340097/69‑1 (MQ=255)
                          tatGATGGCCGATCAGGCGATCCAGTTTGCTACGACGTAGAGTGATGGTTGCACGCTTCGGCAGCGTTg                                      <  1:754177/69‑1 (MQ=255)
                          tatGATGGCCGATCAGGCGATCCAGTTTGCTACGACGTAGAGTGATGGTTGCACGCTTCGGCAGCGTTg                                      <  1:2924942/69‑1 (MQ=255)
                          tatGATGGCCGATCAGGCGATCCAGTTTGCTACGACGTAGAGTGATGGTTGCACGCTTCGGCAGCGTTg                                      <  1:3054749/69‑1 (MQ=255)
                          tatGATGGCCGATCAGGCGATCCAGTTTGCTACGACGTAGAGTGATGGTTGCACGCTTCGGCAGCGTTg                                      <  1:625685/69‑1 (MQ=255)
                          tatGATGGCCGATCAGGCGATCCAGTTTGCTACGACGTAGAGTGATGGTTGCACGCTTCGGCAGCGTTg                                      <  1:3348084/69‑1 (MQ=255)
                          tatGATGGCCGATCAGGCGATCCAGTTTGCTACGACGTAGAGTGATGGTTGCACGCTTCGGCAGCGTTg                                      <  1:877931/69‑1 (MQ=255)
                          tatGATGGCCGATCAGGCGATCCAGTTTGCTACGACGTAGAGTGATGGTTGCACGCTTCGGCAGCGTTg                                      <  1:2471982/69‑1 (MQ=255)
                          tatGATGGCCGATCAGGCGATCCAGTTTGCTACGACGTAGAGTGATGGTTGCACGCTTCGGCAGCGTTg                                      <  1:3427081/69‑1 (MQ=255)
                          tatGATGGCCGATCAGGCGATCCAGTTTGCTACGACGTAGAGTGATGGTTGCACGCTTCGGCAGCGTTg                                      <  1:2461778/69‑1 (MQ=255)
                          tatGATGGCCGATCAGGCGATCCAGTTTGCTACGACGTAGAGTGATGGTTGCACGCTTCGGCAGCGTTg                                      <  1:2675695/69‑1 (MQ=255)
                          tatGATGGCCGATCAGGCGATCCAGTTTGCTACGACGTAGAGTGATGGTTGCACGCTTCGGCAGCGTTg                                      <  1:2385339/69‑1 (MQ=255)
                          tatGATGGCCGATCAGGCGATCCAGTTTGCTACGACGTAGAGTGATGGTTGCACGCTTCGGCAGCGTTg                                      <  1:1708381/69‑1 (MQ=255)
                          tatGATGGCCGATCAGGCGATCCAGTTTGCTACGACGTAGAGTGATGGTTGCACGCTTCGGCAGCGTTg                                      <  1:1021391/69‑1 (MQ=255)
                          tatGATGGCCGATCAGGCGATCCAGTTTGCTACGACGTAGAGTGATGGTTGCACGCTTCGGCAGCGTTg                                      <  1:1609595/69‑1 (MQ=255)
                            tgatgGCCGATCAGGCGATCCAGTTTGCTACGACGTAGAGTGATGGTTGCACGCTTCGGCAGCGTTg                                      <  1:2294401/67‑1 (MQ=255)
                                  ccGATCAGGCGATCCAGTTTGCTACGAGGTAAAGTGATGGTTGCACGCTTCGGCAGCGTTGCTTCGtta                              >  1:2859831/1‑68 (MQ=255)
                                  ccGATCAGGCGATCCAGTTTGCTACGACGTAAAGTGATGGTTGCACGCTTCGGCAGCGTTGCTTCGtta                              >  1:1812914/1‑68 (MQ=255)
                                  ccGATCAGGCGATCCAGTTTGCTACGACGTAAAGTGATGGTTGCACGCTTCGGCAGCGTTGCTTCGtta                              >  1:3148081/1‑68 (MQ=255)
                                  ccGATCAGGCGATCCAGTTTGCTACGACGTAAAGTGATGGTTGCACGCTTCGGCAGCGTTGCTTCGtta                              >  1:3145793/1‑68 (MQ=255)
                                  ccGATCAGGCGATCCAGTTTGCTACGACGTAAAGTGATGGTTGCACGCTTCGGCAGCGTTGCTTCGtta                              >  1:16503/1‑68 (MQ=255)
                                  ccGATCAGGCGATCCAGTTTGCTACGACGTAAAGTGATGGTTGCACGCTTCGGCAGCGTTGCTTCGtta                              >  1:1867091/1‑68 (MQ=255)
                                  ccGATCAGGCGATCCAGTTTGCTACGACGTAAAGTGATGGTTGCACGCTTCGGCAGCGTTGCTTCGtta                              >  1:1587233/1‑68 (MQ=255)
                                  ccGATCAGGCGATCCAGTTTGCTACGACGTAAAGTGATGGTTGCACGCTTCGGCAGCGTTGCTTCGtta                              >  1:1581989/1‑68 (MQ=255)
                                  ccGATCAGGCGATCCAGTTTGCTACGACGTAAAGTGATGGTTGCACGCTTCGGCAGCGTTGCTTCGtta                              >  1:590479/1‑68 (MQ=255)
                                  ccGATCAGGCGATCCAGTTTGCTACGACGTAAAGTGATGGTTGCACGCTTCGGCAGCGTTGCTTCGtta                              >  1:590486/1‑68 (MQ=255)
                                  ccGATCAGGCGATCCAGTTTGCTACGACGTAAAGTGATGGTTGCACGCTTCGGCAGCGTTGCTTCGtta                              >  1:2704724/1‑68 (MQ=255)
                                  ccGATCAGGCGATCCAGTTTGCTACGACGTAAAGTGATGGTTGCACGCTTCGGCAGCGTTGCTTCGtta                              >  1:1245077/1‑68 (MQ=255)
                                  ccGATCAGGCGATCCAGTTTGCTACGACGTAAAGTGATGGTTGCACGCTTCGGCAGCGTTGCTTCGtta                              >  1:2619007/1‑68 (MQ=255)
                                  ccGATCAGGCGATCCAGTTTGCTACGACGTAAAGTGATGGTTGCACGCTTCGGCAGCGTTGCTTCGtta                              >  1:72568/1‑68 (MQ=255)
                                  ccGATCAGGCGATCCAGTTTGCTACGACGTAAAGTGATGGTTGCACGCTTCGGCAGCGTTGCTTCGtta                              >  1:730994/1‑68 (MQ=255)
                                  ccGATCAGGCGATCCAGTTTGCTACGACGTAAAGTGATGGTTGCACGCTTCGGCAGCGTTGCTTCGtta                              >  1:2316235/1‑68 (MQ=255)
                                  ccGATCAGGCGATCCAGTTTGCTACGACGTAAAGTGATGGTTGCACGCTTCGGCAGCGTTGCTTCGtt                               >  1:1843558/1‑68 (MQ=255)
                                  ccGATCAGGCGATCCAGTTTGCTACGACGTAAAGTGATGGTTGCACGCTTAGGCAGCGTTGCTTCGtta                              >  1:775116/1‑68 (MQ=255)
                                   cGATCAGGCGATCCAGTTTGCTACGACGTAAAGTGATGGTTGCACGCTTCGGCAGCGTTGCTTCGttag                             <  1:626773/69‑3 (MQ=255)
                                   cGATCAGGCGATCCAGTTTGCTACGACGTAAAGTGATGGTTGCACGCTTCGGCAGCGTTGCTTCGttag                             <  1:1245410/69‑3 (MQ=255)
                                   cGATCAGGCGATCCAGTTTGCTACGACGTAAAGTGATGGTTGCACGCTTCGGCAGCGTTGCTTCGttag                             <  1:1547594/69‑3 (MQ=255)
                                   cGATCAGGCGATCCAGTTTGCTACGACGTAAAGTGATGGTTGCACGCTTCGGCAGCGTTGCTTCGttag                             <  1:1239666/69‑3 (MQ=255)
                                   cGATCAGGCGATCCAGTTTGCTACGACGTAAAGTGATGGTTGCACGCTTCGGCAGCGTTGCTTCGttag                             <  1:2434944/69‑3 (MQ=255)
                                   cGATCAGGCGATCCAGTTTGCTACGACGTAAAGTGATGGTTGCACGCTTCGGCAGCGTTGCTTCGttag                             <  1:2730410/69‑3 (MQ=255)
                                   cGATCAGGCGATCCAGTTTGCTACGACGTAAAGTGATGGTTGCACGCTTCGGCAGCGTTGCTTCGttag                             <  1:1904440/69‑3 (MQ=255)
                                      tCAGGCGATCCAGTTTGCTACGACGTAGAGTGATGGTTGCACGCTTCGGCAGCGTTGCTTCGTTGGTGa                          <  1:3190782/69‑1 (MQ=255)
                                        aGGCGATCCAGTTTGCTACGACGTAGAGTGATGGTTGCACGCTTCGGCAGCGtt                                       <  1:2566233/54‑1 (MQ=255)
                                                cAGTTTGCTACGACGTAGAGTGATGGTTGCACGCTTCGGCAGCGtt                                       <  1:2000665/46‑1 (MQ=255)
                                                         acgacgTAAAGTGATGGTTGCACGCTTCGGCAGCGTTGCTTCGTTAGTGATATCAATTGCCGGACCCGc       >  1:3080051/1‑69 (MQ=255)
                                                         acgacgTAAAGTGATGGTTGCACGCTTCGGCAGCGTTGCTTCGTTAGTGATATCAATTACCGGAcccg        >  1:2781480/1‑66 (MQ=255)
                                                         acgacgTAAAGTGATGGTTGCACGCTTCGGCAGCGTTGCTTCGTTAGTGATATCAATTACCGGAcccg        >  1:2259354/1‑66 (MQ=255)
                                                         acgacgTAAAGTGATGGTTGCACGCTTCGGCAGCGTTGCTTCGTTAGTGATATCAATTACCGGACCCGc       >  1:2213907/1‑69 (MQ=255)
                                                         acgacgTAAAGTGATGGTTGCACGCTTCGGCAGCGTTGCTTCGTTAGTGATATCAATTACCGGACCCGc       >  1:655910/1‑69 (MQ=255)
                                                         acgacgTAAAGTGATGGTTGCACGCTTCGGCAGCGTTGCTTCGTTAGTGATATCAATTACCGGACCCGc       >  1:2613276/1‑69 (MQ=255)
                                                         acgacgTAAAGTGATGGTTGCACGCTTCGGCAGCGTTGCTTCGTTAGTGATATCAATTACCGGACCCGc       >  1:733083/1‑69 (MQ=255)
                                                         acgacgTAAAGTGATGGTTGCACGCTTCGGCAGCGTTGCTTCGTTAGTGATATCAATTACCGGACCCGc       >  1:3264000/1‑69 (MQ=255)
                                                         acgacgTAAAGTGATGGTTGCACGCTTCGGCAGCGTTGCTTCGTTAGTGATATCAATTACCGGACCCGc       >  1:794162/1‑69 (MQ=255)
                                                         acgacgTAAAGTGATGGTTGCACGCTTCGGCAGCGTTGCTTCGTTAGTGATATCAATTACCGGACCCGc       >  1:1191234/1‑69 (MQ=255)
                                                         acgacgTAAAGTGATGGTTGCACGCTTCGGCAGCGTTGCTTCGTTAGTGATATCAATTACCGGACCCGc       >  1:1190834/1‑69 (MQ=255)
                                                         acgacgTAAAGTGATGGTTGCACGCTTCGGCAGCGTTGCTTCGTTAGTGATATCAATTACCGGACCCGc       >  1:1128053/1‑69 (MQ=255)
                                                         acgacgTAAAGTGATGGTTGCACGCTTCGGCAGCGTTGCTTCGTTAGTGATATCAATTACCGGACCCGc       >  1:1316554/1‑69 (MQ=255)
                                                         acgacgTAAAGTGATGGTTGCACGCTTCGGCAGCGTTGCTTCGTTAGTGATATCAATTACCGGACCCGc       >  1:596333/1‑69 (MQ=255)
                                                         acgacgTAAAGTGATGGTTGCACGCTTCGGCAGCGTTGCTTCGTTAGTGATATCAATTACCGGACCCGc       >  1:2791616/1‑69 (MQ=255)
                                                         acgacgTAAAGTGATGGTTGCACGCTTCGGCAGCGTTGCTTCGTTAGTGATATCAATTACCGGACCCGc       >  1:2819316/1‑69 (MQ=255)
                                                         acgacgTAAAGTGATGGTTGCACGCTTCGGCAGCGTTGCTTCGTTAGTGATATCAATTACCGGACCCGc       >  1:516189/1‑69 (MQ=255)
                                                         acgacgTAAAGTGATGGTTGCACGCTTCGGCAGCGTTGCTTCGTTAGTGATATCAATTACCGGACCCGc       >  1:2869241/1‑69 (MQ=255)
                                                         acgacgTAAAGTGATGGTTGCACGCTTCGGCAGCGTTGCTTCGTTAGTGATATCAATTACCGGACCCGc       >  1:411722/1‑69 (MQ=255)
                                                         acgacgTAAAGTGATGGTTGCACGCTTCGGCAGCGTTGCTTCGTTAGTGATATCAATTACCGGACCCGc       >  1:369502/1‑69 (MQ=255)
                                                         acgacgTAAAGTGATGGTTGCACGCTTCGGCAGCGTTGCTTCGTTAGTGATATCAATTACCGGACCCGc       >  1:2931404/1‑69 (MQ=255)
                                                         acgacgTAAAGTGATGGTTGCACGCTTCGGCAGCGTTGCTTCGTTAGTGATATCAATTACCGGACCCGc       >  1:3423219/1‑69 (MQ=255)
                                                         acgacgTAAAGTGATGGTTGCACGCTTCGGCAGCGTTGCTTCGTTAGTGATATCAATTACCGGACCCGc       >  1:3382923/1‑69 (MQ=255)
                                                         acgacgTAAAGTGATGGTTGCACGCTTCGGCAGCGTTGCTTCGTTAGTGATATCAATTACCGGACCCGc       >  1:2986508/1‑69 (MQ=255)
                                                         acgacgTAAAGTGATGGTTGCACGCTTCGGCAGCGTTGCTTCGTTAGTGATATCAATTACCGGACCCGc       >  1:1788423/1‑69 (MQ=255)
                                                              gTAGAGTGATGGTTGCACGCTTCGGCAGCGTTGCTTCGTTGGTGATATCAATTACCGGGCCAGCCTcac  <  1:1754980/69‑1 (MQ=255)
                                                              gTAGAGTGATGGTTGCACGCTTCGGCAGCGTTGCTTCGTTGGTGATATCAATTACCGGGCCAGCCTcac  <  1:2314668/69‑1 (MQ=255)
                                                                 |                                                                 
AATGTCAGTTACCTGCTCATCCGCAATATGATGGCCGATCAGGCGATCCAGTTTGCTACGACGTAGAGTGATGGTTGCACGCTTCGGCAGCGTTGCTTCGTTGGTGATATCAATTACCGGGCCAGCCTCAC  >  minE/1124349‑1124479

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