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 2,515,737 G→T 42.8% T176T (ACC→ACA)  recG ← ATP‑dependent DNA helicase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,515,7370GT42.8% 38.6 / 62.7 70T176T (ACC→ACA) recGATP‑dependent DNA helicase
Reads supporting (aligned to +/- strand):  ref base G (18/22);  new base T (21/9);  total (39/31)
Fisher's exact test for biased strand distribution p-value = 5.22e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

TAGCGTCATCATTCCTTGTGACAGTTCCGGCGGCAGGAGTTCTTCAATGGCGCAGGTGTCGAGCAGATCCAGCGCCTGGTCGGTTAATTTACGCAGCGTGGCCTGCTTTACGCCTTCCGTT  >  minE/2515683‑2515803
                                                      |                                                                  
tAGCGTCATCATTGCTTGTGACAGTTCCGGCGGCAGGAGTTCTTCAATGGCGCAGGTGTCGAGCAGATc                                                      <  1:1363938/69‑1 (MQ=255)
tAGCGTCATCATTCCTTGTGACAGTTCCGGCGGCAGGAGTTCTTCAATGGCGCAGGTGTCGAGCAGATc                                                      <  1:2952438/69‑1 (MQ=255)
tAGCGTCATCATTCCTTGTGACAGTTCCGGCGGCAGGAGTTCTTCAATGGCGCAGGTGTCGAGCAGATc                                                      <  1:2292514/69‑1 (MQ=255)
tAGCGTCATCATTCCTTGTGACAGTTCCGGCGGCAGGAGTTCTTCAATGGCGCAGGTGTCGAGCAGATc                                                      <  1:3184961/69‑1 (MQ=255)
tAGCGTCATCATTCCTTGTGACAGTTCCGGCGGCAGGAGTTCTTCAATGGCGCAGGTGTCGAGCAGATc                                                      <  1:2760750/69‑1 (MQ=255)
tAGCGTCATCATTCCTTGTGACAGTTCCGGCGGCAGGAGTTCTTCAATGGCGCAGGTGTCGAGCAGATc                                                      <  1:3371095/69‑1 (MQ=255)
 aGCGTCATCATTCCTTGTGACAGTTCCGGCGGCAGGAGTTCTTCAATGGCGCAGGTGTCGAGCAGATcc                                                     >  1:2680244/1‑69 (MQ=255)
 aGCGTCATCATTCCTTGTGACAGTTCCGGCGGCAGGAGTTCTTCAATGGCGCAGGTGTCGAGCAGATcc                                                     >  1:1860325/1‑69 (MQ=255)
 aGCGTCATCATTCCTTGTGACAGTTCCGGCGGCAGGAGTTCTTCAATGGCGCAGGTGTCGAGCAGATcc                                                     >  1:2708829/1‑69 (MQ=255)
 aGCGTCATCATTCCTTGTGACAGTTCCGGCGGCAGGAGTTCTTCAATGGCGCAGGTGTCGAGCAGATc                                                      <  1:413788/68‑1 (MQ=255)
     tcatcaTTCCTTGTGACAGTTCCGGCGGCAGGAGTTCTTCAATGGCGCATGTGTCGAGCAGATCCAgcg                                                 <  1:3205531/69‑1 (MQ=255)
     tcatcaTTCCTTGTGACAGTTCCGGCGGCAGGAGTTCTTCAATGGCGCATGTGTCGAGCAGATCCAgcg                                                 <  1:2651642/69‑1 (MQ=255)
     tcatcaTTCCTTGTGACAGTTCCGGCGGCAGGAGTTCTTCAATGGCGCATGTGTCGAGCAGATCCAgcg                                                 <  1:3277053/69‑1 (MQ=255)
     tcatcaTTCCTTGTGACAGTTCCGGCGGCAGGAGTTCTTCAATGGCGCATGTGTCGAGCAGATCCAgcg                                                 <  1:1796434/69‑1 (MQ=255)
     tcatcaTTCCTTGTGACAGTTCCGGCGGCAGGAGTTCTTCAATGGCGCATGTGTCGAGCAGATCCAgcg                                                 <  1:1799571/69‑1 (MQ=255)
     tcatcaTTCCTTGTGACAGTTCCGGCGGCAGGAGTTCTTCAATGGCGCATGTGTCGAGCAGATCCAgcg                                                 <  1:3189736/69‑1 (MQ=255)
     tcatcaTTCCTTGTGACAGTTCCGGCGGCAGGAGTTCTTCAATGGCGCATGTGTCGAGCAGATCCAgcg                                                 <  1:255829/69‑1 (MQ=255)
     tcatcaTTCCTTGTGACAGTTCCGGCGGCAGGAGTTCTTCAATGGCGCATGTGTCGAGCAGATCCAgcg                                                 <  1:3076341/69‑1 (MQ=255)
      catcatTCCTTGTGACAGTTCCGGCGGCAGGAGTTCTTCAATGGCGCATGGGTCGAGCAGATCCAgcg                                                 <  1:222970/68‑1 (MQ=255)
       atcatTCCTTGTGACAGTTCCGGCGGCAGGAGTTCTTCAATGGCGCAGGTGTCGAGCAGATCCAgcggc                                               >  1:1094213/1‑67 (MQ=255)
       atcatTCCTTGTGACAGTTCCGGCGGCAGGAGTTCTTCAATGGCGCAGGTGTCGAGCAGATCCAGCGcc                                               >  1:596955/1‑69 (MQ=255)
       atcatTCCTTGTGACAGTTCCGGCGGCAGGAGTTCTTCAATGGCGCAGGTGTCGAGCAGATCCAGCGcc                                               >  1:2510006/1‑69 (MQ=255)
       atcatTCCTTGTGACAGTTCCGGCGGCAGGAGTTCTTCAATGGCGCAGGTGTCGAGCAGATCCAGCGcc                                               >  1:1262792/1‑69 (MQ=255)
       atcatTCCTTGTGACAGTTCCGGCGGCAGGAGTTCTTCAATGGCGCAGGTGTCGAGCAGATCCAGCGcc                                               >  1:1266897/1‑69 (MQ=255)
                         tCCGGCGGCAGGAGTTCTTCAATGGCGCAGGTGTCGAGCAGATCCAGCGCCTGGTCGGTTaa                                    <  1:734876/62‑1 (MQ=255)
                         tCCGGCGGCAGGAGTTCTTCAATGGCGCAGGTGTCGAGCAGATCCAGCGCCTGGTCGGTTaa                                    <  1:2629754/62‑1 (MQ=255)
                         tCCGGCGGCAGGAGTTCTTCAATGGCGCAGGTGTCGAGCAGATCCAGCGCCTGGTCGGTTaa                                    <  1:370684/62‑1 (MQ=255)
                         tCCGGCGGCAGGAGTTCTTCAATGGCGCAGGTGTCGAGCAGATCCAGCGCCTGGTCGGTTaa                                    <  1:208087/62‑1 (MQ=255)
                         tCCGGCGGCAGGAGTTCTTCAATGGCGCAGGTGTCGAGCAGATCCAGCGCCTGGTCGGTTAATTTACGc                             >  1:1365771/1‑69 (MQ=255)
                         tCCGGCGGCAGGAGTTCTTCAATGGCGCAGGTGTCGAGCAGATCCAGCGCCTGGTCGGTTAATTTACGc                             >  1:2497656/1‑69 (MQ=255)
                         tCCGGCGGCAGGAGTTCTTCAATGGCGCAGGTGTCGAGCAGATCCAGCGCCTGGTCGGTTAATTTACGc                             >  1:641761/1‑69 (MQ=255)
                             gcggcAGGAGTTCTTCAATGGCGCATGTGTCGAGCAGATCCAGCGCCTGGTCGGTTAATTTACGCa                            >  1:1730413/1‑66 (MQ=255)
                             gcggcAGGAGTTCTTCAATGGCGCATGTGTCGAGCAGATCCAGCGCCTGGTCGGTTAATTTACGCAg                           >  1:1427337/1‑67 (MQ=255)
                             gcggcAGGAGTTCTTCAATGGCGCATGTGTCGAGCAGATCCAGCGCCTGGTCGGTTAATTTACGCAg                           >  1:1624292/1‑67 (MQ=255)
                             gcggcAGGAGTTCTTCAATGGCGCATGTGTCGAGCAGATCCAGCGCCTGGTCGGTTAATTTACGCAg                           >  1:1678385/1‑67 (MQ=255)
                             gcggcAGGAGTTCTTCAATGGCGCATGTGTCGAGCAGATCCAGCGCCTGGTCGGTTAATTTACGCAg                           >  1:1156877/1‑67 (MQ=255)
                             gcggcAGGAGTTCTTCAATGGCGCATGTGTCGAGCAGATCCAGCGCCTGGTCGGTTAATTTACGCAg                           >  1:696374/1‑67 (MQ=255)
                             gcggcAGGAGTTCTTCAATGGCGCATGTGTCGAGCAGATCCAGCGCCTGGTCGGTTAATTTACGCAg                           >  1:2548493/1‑67 (MQ=255)
                             gcggcAGGAGTTCTTCAATGGCGCATGTGTCGAGCAGATCCAGCGCCTGGTCGGTTAATTTACGCAg                           >  1:2544854/1‑67 (MQ=255)
                             gcggcAGGAGTTCTTCAATGGCGCATGTGTCGAGCAGATCCAGCGCCTGGTCGGTTAATTTACGCAg                           >  1:3391392/1‑67 (MQ=255)
                             gcggcAGGAGTTCTTCAATGGCGCATGTGTCGAGCAGATCCAGCGCCTGGTCGGTTAATTTACGCAg                           >  1:366760/1‑67 (MQ=255)
                             gcggcAGGAGTTCTTCAATGGCGCATGTGTCGAGCAGATCCAGCGCCTGGTCGGTTAATTTACGCAg                           >  1:2038530/1‑67 (MQ=255)
                             gcggcAGGAGTTCTTCAATGGCGCATGTGTCGAGCAGATCCAGCGCCTGGTCGGTTAATTTACGCAg                           >  1:2262852/1‑67 (MQ=255)
                             gcggcAGGAGTTCTTCAATGGCGCATGTGTCGAGCAGATCCAGCGCCTGGTCGGTTAATTTACGCAg                           >  1:570582/1‑67 (MQ=255)
                                   ggAGTTCTTCAATGGCGCATGTGTCGAGCAGATCCAGCGCCTGGTCGGTTAATTTACGCAGCGTAGCCt                   >  1:873657/1‑69 (MQ=255)
                                   ggAGTTCTTCAATGGCGCATGTGTCGAGCAGATCCAGCGCCTGGTCGGTTAATTTACGCAGCGTAGCCt                   >  1:391447/1‑69 (MQ=255)
                                   ggAGTTCTTCAATGGCGCATGTGTCGAGCAGATCCAGCGCCTGGTCGGTTAATTTACGCAGCGTAGCCt                   >  1:99576/1‑69 (MQ=255)
                                   ggAGTTCTTCAATGGCGCATGTGTCGAGCAGATCCAGCGCCTGGTCGGTTAATTTACGCAGCGTAGCCt                   >  1:2141473/1‑69 (MQ=255)
                                   ggAGTTCTTCAATGGCGCATGTGTCGAGCAGATCCAGCGCCTGGTCGGTTAATTTACGCAGCGTAGCCt                   >  1:2873542/1‑69 (MQ=255)
                                   ggAGTTCTTCAATGGCGCATGTGTCGAGCAGATCCAGCGCCTGGTCGGTTAATTTACGCAGCGTAGCCt                   >  1:2701451/1‑69 (MQ=255)
                                   ggAGTTCTTCAATGGCGCATGTGTCGAGCAGATCCAGCGCCTGGTCGGTTAATTTACGCAGCGTAGCCt                   >  1:2224578/1‑69 (MQ=255)
                                   ggAGTTCTTCAATGGCGCATGTGTCGAGCAGATCCAGCGCCTGGTCGGTTAATTTACGCAGCGTAGCCt                   >  1:263862/1‑69 (MQ=255)
                                    gAGTTCTTCAATGGCGCAGGTGTCGAGCAGATCCAGCGCCTGGTCGGTTAATTTACGCAGCGTGGCCTg                  <  1:2370085/69‑1 (MQ=255)
                                       ttcttcAATGGCGCAGGTGTCGAGCAGATCCAGCGCCTGGTCGGTTAATTTACGCAGCGTGGCCTGCtt               <  1:2567531/69‑1 (MQ=255)
                                       ttcttcAATGGCGCAGGTGTCGAGCAGATCCAGCGCCTGGTCGGTTAATTTACGCAGCGTGGCCTGCtt               <  1:525541/69‑1 (MQ=255)
                                         cttcAATGGCGCAGGTGTCGAGCAGATCCAGCGCCTGGTCGGTTAATTTACGCAGCGTGGCCTg                  <  1:19880/64‑1 (MQ=255)
                                         cttcAATGGCGCAGGTGTCGAGCAGATCCAGCGCCTGGTCGGTTAATTTACGCAGCGTGGCCTg                  <  1:213799/64‑1 (MQ=255)
                                         cttcAATGGCGCAGGTGTCGAGCAGATCCAGCGCCTGGTCGGTTAATTTACGCAGCGTGGCCTg                  <  1:1793143/64‑1 (MQ=255)
                                         cttcAATGGCGCAGGTGTCGAGCAGATCCAGCGCCTGGTCGGTTAATTTACGCAGCGTGGCCTg                  <  1:2269102/64‑1 (MQ=255)
                                         cttcAATGGCGCAGGTGTCGAGCAGATCCAGCGCCTGGTCGGTTAATTTACGCAGCGTGGCCTg                  <  1:1402567/64‑1 (MQ=255)
                                              aTGGCGCAGGTGTCGAGCAGATCCAGCGCCTGGTCGGTTAATTTACGCAGCGTGGCCTGCTTTACg           <  1:2919515/66‑1 (MQ=255)
                                                 gcgcAGGTGTCGAGCAGATCCAGCGCCTGGTCGGTTAATTTACGCAGCGTGGCCTGCTTTACGCCTTcc     >  1:1355729/1‑69 (MQ=255)
                                                 gcgcAGGTGTCGAGCAGATCCAGCGCCTGGTCGGTTAATTTACGCAGCGTGGCCTGCTTTACGCCTTcc     >  1:2063082/1‑69 (MQ=255)
                                                 gcgcAGGTGTCGAGCAGATCCAGCGCCTGGTCGGTTAATTTACGCAGCGTGGCCTGCTTTACGCCTTcc     >  1:2929139/1‑69 (MQ=255)
                                                 gcgcAGGTGTCGAGCAGATCCAGCGCCTGGTCGGTTAATTTACGCAGCGTGGCCTGCTTTACGCCTTcc     >  1:3423690/1‑69 (MQ=255)
                                                 gcgcAGGTGTCGAGCAGATCCAGCGCCTGGTCGGTTAATTTACGCAGCGTGGCCTGCTTTACGCCTTcc     >  1:2537795/1‑69 (MQ=255)
                                                 gcgcAGGTGTCGAGCAGATCCAGCGCCTGGTCGGTTAATTTACGCAGCGTGGCCTGCTTTACGCCTTcc     >  1:3327558/1‑69 (MQ=255)
                                                 gcgcAGGTGTCGAGCAGATCCAGCGCCTGGTCGGTTAATTTACGCAGCGTGGCCTGCTTTACGCCTTcc     >  1:3201633/1‑69 (MQ=255)
                                                   gcAGGTGTCGAGCAGATCCAGCGCCTGGTCGGTTAATTTACGCAGCGTGGCCTGCTTTACGCCTTCCgt   <  1:2497911/69‑1 (MQ=255)
                                                     aGGTGTCGAGCAGATCCAGCGCCTGGGCGGTTAATTTACGCAGCGTGGCCTGCTTTACGCCTTCCgtt  <  1:3261779/68‑1 (MQ=255)
                                                      |                                                                  
TAGCGTCATCATTCCTTGTGACAGTTCCGGCGGCAGGAGTTCTTCAATGGCGCAGGTGTCGAGCAGATCCAGCGCCTGGTCGGTTAATTTACGCAGCGTGGCCTGCTTTACGCCTTCCGTT  >  minE/2515683‑2515803

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