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 2,494,791 C→T 34.5% P92S (CCA→TCA) ‡ ibpB → heat shock chaperone

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,494,7910CT34.5% 78.6 / 58.3 104P92S (CCA→TCA) ‡ibpBheat shock chaperone
Reads supporting (aligned to +/- strand):  ref base C (27/41);  new base T (18/18);  total (45/59)
Fisher's exact test for biased strand distribution p-value = 4.06e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 120 total aligned reads displayed.

CGTAAAAGGCACGCCGGAGCAGCCAAAAGAAGAGAAAAAATGGCTGCATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGTCTCTGGCGCAACCTTCGTAAACGGTTT  >  minE/2494724‑2494858
                                                                   |                                                                   
cGTAAAAGGCACGCCGGAGCAGCCAAAAGAAGAGAAAAAATGGCTGCATCAAGGGCTTATGAATCAGcc                                                                    >  1:1162132/1‑69 (MQ=255)
 gTAAAAGGCACGCCGGAGCAGCCAAAAGAAGAGAAAAAATGGCTGCATCAAGGGCTTATGAATCAGCCa                                                                   <  1:220605/69‑1 (MQ=255)
    aaaGGCACGCCGGAGCAGCCAAAAGAAGAGAAAAAATGGCTGCATCAAGGGCTTATGAATCAGCCAttt                                                                >  1:1986627/1‑69 (MQ=255)
    aaaGGCACGCCGGAGCAGCCAAAAGAAGAGAAAAAATGGCTGCATCAAGGGCTTATGAATCAGCCAttt                                                                >  1:3194693/1‑69 (MQ=255)
    aaaGGCACGCCGGAGCAGCCAAAAGAAGAGAAAAAATGGCTGCATCAAGGGCTTATGAATCAGCCAttt                                                                >  1:2082126/1‑69 (MQ=255)
    aaaGGCACGCCGGAGCAGCCAAAAGAAGAGAAAAAATGGCTGCATCAAGGGCTTATGAATCAGCCAttt                                                                >  1:870435/1‑69 (MQ=255)
     aacgCACGCCAGAGCAGCCAAAAGAAGAGAAAAAATGGCTGCATCAAGGGCTTATGAATCAGTCTTTTa                                                               >  1:2287291/4‑69 (MQ=255)
     aaGGCACGCCAGAGCAGCCAAAAGAAGAGAATAAATGGCTGCATCAAGGGCTTATGAATCAGTCtttt                                                                >  1:318181/1‑68 (MQ=255)
     aaGGCACGCCAGAGCAGCCAAAAGAAGAGAAAAAATGGCTGCATCAAGGGCTTATGAATCAGTCTTTTa                                                               >  1:3261174/1‑69 (MQ=255)
     aaGGCACGCCAGAGCAGCCAAAAGAAGAGAAAAAATGGCTGCATCAAGGGCTTATGAATCAGTCTTTTa                                                               >  1:1292014/1‑69 (MQ=255)
     aaGGCACGCCAGAGCAGCCAAAAGAAGAGAAAAAATGGCTGCATCAAGGGCTTATGAATCAGTCTTTTa                                                               >  1:1749676/1‑69 (MQ=255)
         cACGCCGGAGCAGCCAAAAGAAGAGAAAAAATGGCTGCATCAAGGGCTTATGAATCAGCCATTTAGc                                                             >  1:1971425/1‑67 (MQ=255)
         cACGCCGGAGCAGCCAAAAGAAGAGAAAAAATGGCTGCATCAAGGGCTTATGAATCAGCCATTTAGc                                                             >  1:678706/1‑67 (MQ=255)
         cACGCCGGAGCAGCCAAAAGAAGAGAAAAAATGGCTGCATCAAGGGCTTATGAATCAGCCATTTAGc                                                             >  1:1929642/1‑67 (MQ=255)
         cACGCCGGAGCAGCCAAAAGAAGAGAAAAAATGGCTGCATCAAGGGCTTATGAATCAGCCATTTAGc                                                             >  1:1819120/1‑67 (MQ=255)
         cACGCCGGAGCAGCCAAAAGAAGAGAAAAAATGGCTGCATCAAGGGCTTATCAATCAGCCATTTAGc                                                             >  1:3045955/1‑67 (MQ=255)
               ggAGCAGCCAAAAGAAGAGAAAAAATGGCTGCATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCtt                                                     <  1:1960998/69‑1 (MQ=255)
               ggAGCAGCCAAAAGAAGAGAAAAAATGGCTGCATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCtt                                                     <  1:1085025/69‑1 (MQ=255)
               ggAGCAGCCAAAAGAAGAGAAAAAATGGCTGCATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCtt                                                     <  1:1716947/69‑1 (MQ=255)
               ggAGCAGCCAAAAGAAGAGAAAAAATGGCTGCATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCtt                                                     <  1:2876480/69‑1 (MQ=255)
               ggAGCAGCCAAAAGAAGAGAAAAAATGGCTGCATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCtt                                                     <  1:3154645/69‑1 (MQ=255)
               ggAGCAGCCAAAAGAAGAGAAAAAATGGCTGCATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCtt                                                     <  1:675807/69‑1 (MQ=255)
                 agcagcCAAAAGAAGAGAAAAAATGGCTGCATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCTTTa                                                   <  1:3122648/69‑1 (MQ=255)
                  gcagcCAAAAGAAGAGAAAAAATGGCTGCATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCTTTAc                                                  <  1:2336644/69‑1 (MQ=255)
                            gaagaGAAAAAATGGCTGCATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCTTTACGCTGGCTGaa                                        <  1:2823496/69‑1 (MQ=255)
                            gaagaGAAAAAATGGCTGCATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCTTTACGCTGGCTGaa                                        <  1:2504033/69‑1 (MQ=255)
                            gaagaGAAAAAATGGCTGCATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCTTTACGCTGGCTGaa                                        <  1:2449165/69‑1 (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                                 <  1:1988830/69‑1 (MQ=255)
                                   aaaaaTGGCTGCATCAAGGGCTTATGAATCAGTCTTTTAGCCTGAGCTTTACGCTGGCTGAAAATATgg                                 <  1:1118793/69‑1 (MQ=255)
                                   aaaaaTGGCTGCATCAAGGGCTTATGAATCAGTCTTTTAGCCTGAGCTTTACGCTGGCTGAAAATATgg                                 <  1:426702/69‑1 (MQ=255)
                                   aaaaaTGGCTGCATCAAGGGCTTATGAATCAGTCTTTTAGCCTGAGCTTTACGCTGGCTGAAAATATgg                                 <  1:2849848/69‑1 (MQ=255)
                                   aaaaaTGGCTGCATCAAGGGCTTATGAATCAGTCTTTTAGCCTGAGCTTTACGCTGGCTGAAAATATgg                                 <  1:2507401/69‑1 (MQ=255)
                                   aaaaaTGGCTGCATCAAGGGCTTATGAATCAGTCTTTTAGCCTGAGCTTTACGCTGGCTGAAAATATgg                                 <  1:1793146/69‑1 (MQ=255)
                                   aaaaaTGGCTGCATCAAGGGCTTATGAATCAGTCTTTTAGCCTGAGCTTTACGCTGGCTGAAAATATgg                                 <  1:1843095/69‑1 (MQ=255)
                                   aaaaaTGGCTGCATCAAGGGCTTATGAATCAGTCTTTTAGCCTGAGCTTTACGCTGGCTGAAAATATgg                                 <  1:2437709/69‑1 (MQ=255)
                                   aaaaaTGGCTGCATCAAGGGCTTATGAATCAGTCTTTTAGCCTGAGCTTTACGCTGGCTGAAAATATgg                                 <  1:2118025/69‑1 (MQ=255)
                                   aaaaaTGGCTGCATCAAGGGCTTATGAATCAGTCTTTTAGCCTGAGCTTTACGCTGGCTGAAAATATgg                                 <  1:1992424/69‑1 (MQ=255)
                                   aaaaaTGGCTGCATCAAGGGCTTATGAATCAGTCTTTTAGCCTGAGCTTTACGCTGGCTGAAAATATgg                                 <  1:2005966/69‑1 (MQ=255)
                                   aaaaaTGGCTGCATCAAGGGCTTATGAATCAGTCTTTTAGCCTGAGCTTTACGCTGGCTGAAAATATgg                                 <  1:1966911/69‑1 (MQ=255)
                                   aaaaaTGGCTGCATCAAGGGCTTATGAATCAGTCTTTTAGCCTGAGCTTTACGCTGGCTGAAAATATgg                                 <  1:215762/69‑1 (MQ=255)
                                    aaaaTGGCTGCATCAAGGGCTTATGAATCAGTCTTTTAGCCTGAGCTTTACGCTGGCTGAAAATATgg                                 <  1:2206189/68‑1 (MQ=255)
                                    aaaaTGGCTGCATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGa                                <  1:2555138/69‑1 (MQ=255)
                                     aaaTGGCTGCATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGa                                <  1:1514493/68‑1 (MQ=255)
                                     aaaTGGCTGCATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGa                                <  1:1722884/68‑1 (MQ=255)
                                     aaaTGGCTGCATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGa                                <  1:1646398/68‑1 (MQ=255)
                                     aaaTGGCTGCATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGa                                <  1:3011402/68‑1 (MQ=255)
                                     aaaTGGCTGCATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGa                                <  1:743492/68‑1 (MQ=255)
                                     aaaTGGCTGCATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCTTTACGCTGGCTGAAAATACGGa                                <  1:681531/68‑1 (MQ=255)
                                         ggCTGCATCAAGGGCTTATGAATCAGTCTTTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGtct                           >  1:91347/1‑69 (MQ=255)
                                         ggCTGCATCAAGGGCTTATGAATCAGTCTTTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGtct                           >  1:3278842/1‑69 (MQ=255)
                                         ggCTGCATCAAGGGCTTATGAATCAGTCTTTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGtct                           >  1:561347/1‑69 (MQ=255)
                                         ggCTGCATCAAGGGCTTATGAATCAGTCTTTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGtct                           >  1:1880699/1‑69 (MQ=255)
                                         ggCTGCATCAAGGGCTTATGAATCAGTCTTTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGtct                           >  1:2808173/1‑69 (MQ=255)
                                         ggCTGCATCAAGGGCTTATGAATCAGTCTTTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGtct                           >  1:1865704/1‑69 (MQ=255)
                                         ggCTGCATCAAGGGCTTATGAATCAGTCTTTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGtct                           >  1:2517534/1‑69 (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                          >  1:2996810/1‑69 (MQ=255)
                                          gCTGCATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGtctc                          >  1:1232304/1‑69 (MQ=255)
                                          gCTGCATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGtctc                          >  1:3407242/1‑69 (MQ=255)
                                          gCTGCATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGtctc                          >  1:2255173/1‑69 (MQ=255)
                                            tGCATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCtt                                                     <  1:2168938/40‑1 (MQ=255)
                                              cATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGa                                <  1:3251061/59‑1 (MQ=255)
                                                      gCTTATGAATCAGCCATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGTCTCTGGCGCAACCtt              >  1:1099472/1‑69 (MQ=255)
                                                      gCTTATGAATCAGCCATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGTCTCTGGCGCAACCtt              >  1:682116/1‑69 (MQ=255)
                                                      gCTTATGAATCAGCCATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGTCTCTGGCGCAACCtt              >  1:308875/1‑69 (MQ=255)
                                                      gCTTATGAATCAGCCATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGTCTCTGGCGCAACCtt              >  1:608276/1‑69 (MQ=255)
                                                         tATGAATCAGTCTTTTAGCCTGAGCTTTACGCTGGCTGAAAATATgg                                 <  1:3024759/47‑1 (MQ=38)
                                                               tCAGCCATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGTCTCTGGCGCAACCTTCGTAAACgg     >  1:2816090/1‑69 (MQ=255)
                                                               tCAGCCATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGTCTCTGGCGCAACCTTCGTAAACgg     >  1:144179/1‑69 (MQ=255)
                                                                 aGCCATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGTCTCTGGCGCAACCTTCGTAAACGGtt   <  1:2189428/69‑1 (MQ=255)
                                                                 aGCCATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGTCTCTGGCGCAACCTTCGTAAACGGtt   <  1:1241229/69‑1 (MQ=255)
                                                                 aGCCATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGTCTCTGGCGCAACCTTCGTAAACGGtt   <  1:570035/69‑1 (MQ=255)
                                                                 aGCCATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGTCTCTGGCGCAACCTTCGTAAACGGtt   <  1:2665652/69‑1 (MQ=255)
                                                                 aGCCATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGTCTCTGGCGCAACCTTCGTAAACGGtt   <  1:2922862/69‑1 (MQ=255)
                                                                 aGCCATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGTCTCTGGCGCAACCTTCGTAAACGGtt   <  1:789361/69‑1 (MQ=255)
                                                                 aGCCATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGTCTCTGGCGCAACCTTCGTAAACGGtt   <  1:2846180/69‑1 (MQ=255)
                                                                 aGCCATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGTCTCTGGCGCAACCTTCGTAAACGGtt   <  1:903439/69‑1 (MQ=255)
                                                                   ccATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGTCTCTGGCGCAACCTTCGTAAACGGttt  <  1:2236419/68‑1 (MQ=255)
                                                                   ccATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGTCTCTGGCGCAACCTTCGTAAACGGttt  <  1:13730/68‑1 (MQ=255)
                                                                   ccATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGTCTCTGGCGCAACCTTCGTAAACGGttt  <  1:2356562/68‑1 (MQ=255)
                                                                   ccATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGTCTCTGGCGCAACCTTCGTAAACGGttt  <  1:498324/68‑1 (MQ=255)
                                                                   ccATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGTCTCTGGCGCAACCTTCGTAAACGGttt  <  1:418461/68‑1 (MQ=255)
                                                                   ccATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGTCTCTGGCGCAACCTTCGTAAACGGttt  <  1:2795081/68‑1 (MQ=255)
                                                                   ccATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGTCTCTGGCGCAACCTTCGTAAACGGttt  <  1:2783555/68‑1 (MQ=255)
                                                                   ccATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGTCTCTGGCGCAACCTTCGTAAACGGtt   >  1:1854323/1‑67 (MQ=255)
                                                                   ccATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGTCTCTGGCGCAACCTTCGTAAACGGtt   >  1:1414061/1‑67 (MQ=255)
                                                                   ccATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGTCTCTGGCGCAACCTTCGTAAACGGtt   >  1:1012790/1‑67 (MQ=255)
                                                                   ccATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGTCTCTGGCGCAACCTTCGTAAACGGtt   >  1:2119686/1‑67 (MQ=255)
                                                                   ccATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGTCTCTGGCGCAACCTTCGTAAACGGtt   >  1:252352/1‑67 (MQ=255)
                                                                   ccATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGTCTCTGGCGCAACCTTCGTAAACGGtt   >  1:2872001/1‑67 (MQ=255)
                                                                   ccATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGTCTCTGGCGCAACCTTCGTAAACGGtt   >  1:2665235/1‑67 (MQ=255)
                                                                   |                                                                   
CGTAAAAGGCACGCCGGAGCAGCCAAAAGAAGAGAAAAAATGGCTGCATCAAGGGCTTATGAATCAGCCATTTAGCCTGAGCTTTACGCTGGCTGAAAATATGGAAGTCTCTGGCGCAACCTTCGTAAACGGTTT  >  minE/2494724‑2494858

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