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 2,494,793 A→T 29.9% P92P (CCA→CCT) ‡ ibpB → heat shock chaperone

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,494,7930AT29.9% 146.0 / 77.5 117P92P (CCA→CCT) ‡ibpBheat shock chaperone
Reads supporting (aligned to +/- strand):  ref base A (34/48);  new base T (17/18);  total (51/66)
Fisher's exact test for biased strand distribution p-value = 5.44e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.07e-01

Only 100 of 119 total aligned reads displayed.

GTAAAAGGCACGCCGGAGCAGCCAAAAGAAGAGAAAAAATGGCTGCATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGTCTCTGGCGCAACCTTCGTAAACGGTTT  >  minE/2494725‑2494858
                                                                    |                                                                 
gTAAAAGGCACGCCGGAGCAGCCAAAAGAAGAGAAAAAATGGCTGCATCAAGGGCTTATGAATCAGCCa                                                                   <  1:220605/69‑1 (MQ=255)
   aaaGGCACGCCGGAGCAGCCAAAAGAAGAGAAAAAATGGCTGCATCAAGGGCTTATGAATCAGCCAttt                                                                >  1:1986627/1‑69 (MQ=255)
   aaaGGCACGCCGGAGCAGCCAAAAGAAGAGAAAAAATGGCTGCATCAAGGGCTTATGAATCAGCCAttt                                                                >  1:870435/1‑69 (MQ=255)
   aaaGGCACGCCGGAGCAGCCAAAAGAAGAGAAAAAATGGCTGCATCAAGGGCTTATGAATCAGCCAttt                                                                >  1:1982735/1‑69 (MQ=255)
   aaaGGCACGCCGGAGCAGCCAAAAGAAGAGAAAAAATGGCTGCATCAAGGGCTTATGAATCAGCCAttt                                                                >  1:2082126/1‑69 (MQ=255)
    aacgCACGCCAGAGCAGCCAAAAGAAGAGAAAAAATGGCTGCATCAAGGGCTTATGAATCAGTCTTTTa                                                               >  1:2287291/4‑69 (MQ=255)
    aaGGCACGCCAGAGCAGCCAAAAGAAGAGAATAAATGGCTGCATCAAGGGCTTATGAATCAGTCtttt                                                                >  1:318181/1‑68 (MQ=255)
    aaGGCACGCCAGAGCAGCCAAAAGAAGAGAAAAAATGGCTGCATCAAGGGCTTATGAATCAGTCTTTTa                                                               >  1:1292014/1‑69 (MQ=255)
    aaGGCACGCCAGAGCAGCCAAAAGAAGAGAAAAAATGGCTGCATCAAGGGCTTATGAATCAGTCTTTTa                                                               >  1:1871553/1‑69 (MQ=255)
    aaGGCACGCCAGAGCAGCCAAAAGAAGAGAAAAAATGGCTGCATCAAGGGCTTATGAATCAGTCTTTTa                                                               >  1:3261174/1‑69 (MQ=255)
    aaGGCACGCCAGAGCAGCCAAAAGAAGAGAAAAAATGGCTGCATCAAGGGCTTATGAATCAGTCTTTTa                                                               >  1:1767732/1‑69 (MQ=255)
    aaGGCACGCCAGAGCAGCCAAAAGAAGAGAAAAAATGGCTGCATCAAGGGCTTATGAATCAGTCTTTTa                                                               >  1:1749676/1‑69 (MQ=255)
        cACGCCGGAGCAGCCAAAAGAAGAGAAAAAATGGCTGCATCAAGTGCTTATGAATCAGCCATTTAGc                                                             >  1:2455675/1‑67 (MQ=255)
        cACGCCGGAGCAGCCAAAAGAAGAGAAAAAATGGCTGCATCAAGGGCTTATGAATCAGCCATTTAGc                                                             >  1:2051386/1‑67 (MQ=255)
        cACGCCGGAGCAGCCAAAAGAAGAGAAAAAATGGCTGCATCAAGGGCTTATGAATCAGCCATTTAGc                                                             >  1:1929642/1‑67 (MQ=255)
        cACGCCGGAGCAGCCAAAAGAAGAGAAAAAATGGCTGCATCAAGGGCTTATGAATCAGCCATTTAGc                                                             >  1:1971425/1‑67 (MQ=255)
        cACGCCGGAGCAGCCAAAAGAAGAGAAAAAATGGCTGCATCAAGGGCTTATGAATCAGCCATTTAGc                                                             >  1:1819120/1‑67 (MQ=255)
        cACGCCGGAGCAGCCAAAAGAAGAGAAAAAATGGCTGCATCAAGGGCTTATGAATCAGCCATTTAGc                                                             >  1:2548000/1‑67 (MQ=255)
        cACGCCGGAGCAGCCAAAAGAAGAGAAAAAATGGCTGCATCAAGGGCTTATGAATCAGCCATTTAGc                                                             >  1:678706/1‑67 (MQ=255)
              ggAGCAGCCAAAAGAAGAGAAAAAATGGCTGCATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCtt                                                     <  1:2876480/69‑1 (MQ=255)
              ggAGCAGCCAAAAGAAGAGAAAAAATGGCTGCATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCtt                                                     <  1:3154645/69‑1 (MQ=255)
              ggAGCAGCCAAAAGAAGAGAAAAAATGGCTGCATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCtt                                                     <  1:675807/69‑1 (MQ=255)
              ggAGCAGCCAAAAGAAGAGAAAAAATGGCTGCATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCtt                                                     <  1:1085025/69‑1 (MQ=255)
                agcagcCAAAAGAAGAGAAAAAATGGCTGCATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCTTTa                                                   <  1:3122648/69‑1 (MQ=255)
                agcagcCAAAAGAAGAGAAAAAATGGCTGCATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCTTTa                                                   <  1:2188071/69‑1 (MQ=255)
                 gcagcCAAAAGAAGAGAAAAAATGGCTGCATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCTTTAc                                                  <  1:2336644/69‑1 (MQ=255)
                           gaagaGAAAAAATGGCTGCATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCTTTACGCTGGCTGaa                                        <  1:2449165/69‑1 (MQ=255)
                           gaagaGAAAAAATGGCTGCATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCTTTACGCTGGCTGaa                                        <  1:2504033/69‑1 (MQ=255)
                           gaagaGAAAAAATGGCTGCATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCTTTACGCTGGCTGaa                                        <  1:2989272/69‑1 (MQ=255)
                           gaagaGAAAAAATGGCTGCATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCTTTACGCTGGCTGaa                                        <  1:342369/69‑1 (MQ=255)
                             agagAAAAAATGGCTGCATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCTTTACGCTGGCTGaaaa                                      <  1:2582752/69‑1 (MQ=255)
                             agagAAAAAATGGCTGCATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCTTTACGCTGGCTGaaaa                                      <  1:2486514/69‑1 (MQ=255)
                             agagAAAAAATGGCTGCATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCTTTACGCTGGCTGaaaa                                      <  1:1998408/69‑1 (MQ=255)
                             agagAAAAAATGGCTGCATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCTTTACGCTGGCTGaaaa                                      <  1:1524034/69‑1 (MQ=255)
                                  aaaaaTGGCTGCATCAAGGGCTTATGAATCAGTCTTTTAGCCTGAGCTTTACGCTGGCTGAAAATATgg                                 <  1:2005966/69‑1 (MQ=255)
                                  aaaaaTGGCTGCATCAAGGGCTTATGAATCAGTCTTTTAGCCTGAGCTTTACGCTGGCTGAAAATATgg                                 <  1:1118793/69‑1 (MQ=255)
                                  aaaaaTGGCTGCATCAAGGGCTTATGAATCAGTCTTTTAGCCTGAGCTTTACGCTGGCTGAAAATATgg                                 <  1:426702/69‑1 (MQ=255)
                                  aaaaaTGGCTGCATCAAGGGCTTATGAATCAGTCTTTTAGCCTGAGCTTTACGCTGGCTGAAAATATgg                                 <  1:3077079/69‑1 (MQ=255)
                                  aaaaaTGGCTGCATCAAGGGCTTATGAATCAGTCTTTTAGCCTGAGCTTTACGCTGGCTGAAAATATgg                                 <  1:2849848/69‑1 (MQ=255)
                                  aaaaaTGGCTGCATCAAGGGCTTATGAATCAGTCTTTTAGCCTGAGCTTTACGCTGGCTGAAAATATgg                                 <  1:1607418/69‑1 (MQ=255)
                                  aaaaaTGGCTGCATCAAGGGCTTATGAATCAGTCTTTTAGCCTGAGCTTTACGCTGGCTGAAAATATgg                                 <  1:2507401/69‑1 (MQ=255)
                                  aaaaaTGGCTGCATCAAGGGCTTATGAATCAGTCTTTTAGCCTGAGCTTTACGCTGGCTGAAAATATgg                                 <  1:1793146/69‑1 (MQ=255)
                                  aaaaaTGGCTGCATCAAGGGCTTATGAATCAGTCTTTTAGCCTGAGCTTTACGCTGGCTGAAAATATgg                                 <  1:2118025/69‑1 (MQ=255)
                                  aaaaaTGGCTGCATCAAGGGCTTATGAATCAGTCTTTTAGCCTGAGCTTTACGCTGGCTGAAAATATgg                                 <  1:1966911/69‑1 (MQ=255)
                                  aaaaaTGGCTGCATCAAGGGCTTATGAATCAGTCTTTTAGCCTGAGCTTTACGCTGGCTGAAAATATgg                                 <  1:1988830/69‑1 (MQ=255)
                                  aaaaaTGGCTGCATCAAGGGCTTATGAATCAGTCTTTTAGCCTGAGCTTTACGCTGGCTGAAAATATgg                                 <  1:215762/69‑1 (MQ=255)
                                   aaaaTGGCTGCATCAAGGGCTTATGAATCAGTCTTTTAGCCTGAGCTTTACGCTGGCTGAAAATATgg                                 <  1:2206189/68‑1 (MQ=255)
                                   aaaaTGGCTGCATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCTTTACGCTGGCTGaa                                        <  1:1406379/61‑1 (MQ=255)
                                   aaaaTGGCTGCATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGa                                <  1:2555138/69‑1 (MQ=255)
                                    aaaTGGCTGCATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGa                                <  1:743492/68‑1 (MQ=255)
                                    aaaTGGCTGCATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGa                                <  1:3011402/68‑1 (MQ=255)
                                    aaaTGGCTGCATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGa                                <  1:1722884/68‑1 (MQ=255)
                                    aaaTGGCTGCATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGa                                <  1:1646398/68‑1 (MQ=255)
                                    aaaTGGCTGCATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGa                                <  1:1514493/68‑1 (MQ=255)
                                    aaaTGGCTGCATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCTTTACGCTGGCTGAAAATACGGa                                <  1:681531/68‑1 (MQ=255)
                                        ggCTGCATCAAGGGCTTATGAATCAGTCTTTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGtct                           >  1:91347/1‑69 (MQ=255)
                                        ggCTGCATCAAGGGCTTATGAATCAGTCTTTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGtct                           >  1:2833235/1‑69 (MQ=255)
                                        ggCTGCATCAAGGGCTTATGAATCAGTCTTTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGtct                           >  1:2808173/1‑69 (MQ=255)
                                        ggCTGCATCAAGGGCTTATGAATCAGTCTTTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGtct                           >  1:3278842/1‑69 (MQ=255)
                                        ggCTGCATCAAGGGCTTATGAATCAGTCTTTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGtct                           >  1:1880699/1‑69 (MQ=255)
                                        ggCTGCATCAAGGGCTTATGAATCAGTCTTTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGtct                           >  1:561347/1‑69 (MQ=255)
                                        ggCTGCATCAAGGGCTTATGAATCAGTCTTTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGtct                           >  1:1865704/1‑69 (MQ=255)
                                        ggCTGCATCAAGGGCTTATGAATCAGTCTTTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGtct                           >  1:2277341/1‑69 (MQ=255)
                                        ggCTGCATCAAGGGCTTATGAATCAGTCTTTTAGCCTGAGCTTTAAGCTGGCTGAAAATATGGAAGtct                           >  1:155321/1‑69 (MQ=255)
                                        ggCTGCATCAAGGGCTTATGAATCAGTCTTTTACCCTGAGCTTTACGCTGGCTGAAAATATTGAAGtct                           >  1:1109997/1‑69 (MQ=255)
                                         gatGCATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGtctc                          >  1:2623219/3‑69 (MQ=255)
                                         gCTGCATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCTTTACGCTGGCTGAAAGTATGGAAGtctc                          >  1:1734632/1‑69 (MQ=255)
                                         gCTGCATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGtctc                          >  1:3407242/1‑69 (MQ=255)
                                         gCTGCATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGtctc                          >  1:3226373/1‑69 (MQ=255)
                                         gCTGCATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGtctc                          >  1:2996810/1‑69 (MQ=255)
                                         gCTGCATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGtctc                          >  1:2255173/1‑69 (MQ=255)
                                         gCTGCATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGtc                            >  1:2957338/1‑67 (MQ=255)
                                           tGCATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCtt                                                     <  1:2168938/40‑1 (MQ=255)
                                             cATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGa                                <  1:3251061/59‑1 (MQ=255)
                                                     gCTTATGAATCAGCCATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGTCTCTGGCGCAACCtt              >  1:308875/1‑69 (MQ=255)
                                                     gCTTATGAATCAGCCATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGTCTCTGGCGCAACCtt              >  1:1099472/1‑69 (MQ=255)
                                                     gCTTATGAATCAGCCATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGTCTCTGGCGCAACCtt              >  1:682116/1‑69 (MQ=255)
                                                     gCTTATGAATCAGCCATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGTCTCTGGCGCAACCtt              >  1:608276/1‑69 (MQ=255)
                                                        tATGAATCAGTCTTTTAGCCTGAGCTTTACGCTGGCTGAAAATATgg                                 <  1:3024759/47‑1 (MQ=38)
                                                              tCAGCCATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGTCTCTGGCGCAACCTTCGTAAACgg     >  1:2816090/1‑69 (MQ=255)
                                                              tCAGCCATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGTCTCTGGCGCAACCTTCGTAAACg      <  1:2729262/68‑1 (MQ=255)
                                                                aGCCATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGTCTCTGGCGCAACCTTCGTAAACGGtt   <  1:2846180/69‑1 (MQ=255)
                                                                aGCCATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGTCTCTGGCGCAACCTTCGTAAACGGtt   <  1:903439/69‑1 (MQ=255)
                                                                aGCCATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGTCTCTGGCGCAACCTTCGTAAACGGtt   <  1:789361/69‑1 (MQ=255)
                                                                aGCCATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGTCTCTGGCGCAACCTTCGTAAACGGtt   <  1:1241229/69‑1 (MQ=255)
                                                                aGCCATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGTCTCTGGCGCAACCTTCGTAAACGGtt   <  1:2665652/69‑1 (MQ=255)
                                                                aGCCATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGTCTCTGGCGCAACCTTCGTAAACGGtt   <  1:2189428/69‑1 (MQ=255)
                                                                aGCCATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGTCTCTGGCGCAACCTTCGTAAACGGtt   <  1:570035/69‑1 (MQ=255)
                                                                  ccATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGTCTCTGGCGCAACCTTCGTAAACGGttt  <  1:418461/68‑1 (MQ=255)
                                                                  ccATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGTCTCTGGCGCAACCTTCGTAAACGGttt  <  1:2356562/68‑1 (MQ=255)
                                                                  ccATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGTCTCTGGCGCAACCTTCGTAAACGGttt  <  1:498324/68‑1 (MQ=255)
                                                                  ccATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGTCTCTGGCGCAACCTTCGTAAACGGttt  <  1:1138188/68‑1 (MQ=255)
                                                                  ccATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGTCTCTGGCGCAACCTTCGTAAACGGttt  <  1:2783555/68‑1 (MQ=255)
                                                                  ccATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGTCTCTGGCGCAACCTTCGTAAACGGttt  <  1:2795081/68‑1 (MQ=255)
                                                                  ccATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGTCTCTGGCGCAACCTTCGTAAACGGttt  <  1:13730/68‑1 (MQ=255)
                                                                  ccATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGTCTCTGGCGCAACCTTCGTAAACGGtt   >  1:252352/1‑67 (MQ=255)
                                                                  ccATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGTCTCTGGCGCAACCTTCGTAAACGGtt   >  1:1012790/1‑67 (MQ=255)
                                                                  ccATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGTCTCTGGCGCAACCTTCGTAAACGGtt   >  1:1854323/1‑67 (MQ=255)
                                                                  ccATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGTCTCTGGCGCAACCTTCGTAAACGGtt   >  1:1414061/1‑67 (MQ=255)
                                                                  ccATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGTCTCTGGCGCAACCTTCGTAAACGGtt   >  1:2872001/1‑67 (MQ=255)
                                                                    |                                                                 
GTAAAAGGCACGCCGGAGCAGCCAAAAGAAGAGAAAAAATGGCTGCATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGTCTCTGGCGCAACCTTCGTAAACGGTTT  >  minE/2494725‑2494858

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A