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 2,464,543 G→A 66.0% A67A (GCG→GCA)  atpB → F0 sector of membrane‑bound ATP synthase, subunit a

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,464,5430GA66.0% 60.9 / 44.0 81A67A (GCG→GCA) atpBF0 sector of membrane‑bound ATP synthase, subunit a
Reads supporting (aligned to +/- strand):  ref base G (12/15);  new base A (6/47);  total (18/63)
Fisher's exact test for biased strand distribution p-value = 1.49e-03
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.00e-01

TCCATGTTCTTCTCGGTGGTGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGCGTAGCCAAAAAGGCGACCAGCGGTGTGCCAGGTAAGTTTCAGACCGCGATTGAGCTGGTGATCGGCTTTGTTA  >  minE/2464475‑2464601
                                                                    |                                                          
tCCATGTTCTTCTCGGTGGTGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGCGTAGCCAAAAAGGCg                                                            <  1:749206/69‑1 (MQ=255)
tCCATGTTCTTCTCGGTGGTGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGCGTAGCCAAAAAGGCg                                                            <  1:495661/69‑1 (MQ=255)
tCCATGTTCTTCTCGGTGGTGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGCGTAGCCAAAAAGGCg                                                            <  1:2863718/69‑1 (MQ=255)
tCCATGTTCTTCTCGGTGGTGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGCGTAGCCAAAAAGGCg                                                            <  1:170026/69‑1 (MQ=255)
 ccATGTTCTTCTCGGTGGTGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGCGTAGCCAAAAAGGCg                                                            <  1:745138/68‑1 (MQ=255)
 ccATGTTCTTCTCGGTGGTGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGCGTAGCCAAAAAGGCg                                                            >  1:10237/1‑68 (MQ=255)
  cATGTTCTTCTCGGTGGTGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGCGTAGCCAAAAAGGCg                                                            >  1:1888053/1‑67 (MQ=255)
  cATGTTCTTCTCGGTGGTGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGCGTAGCCAAAAAGGCg                                                            >  1:1684890/1‑67 (MQ=255)
      ttcttcTCGGTGGTGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGCGTAGCCAAAAAGGCGACCAGc                                                      >  1:1609370/1‑69 (MQ=255)
      ttcttcTCGGTGGTGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGCGTAGCCAAAAAGGCGACCAGc                                                      >  1:22680/1‑69 (MQ=255)
      ttcttcTCGGTGGTGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGCGTAGCCAAAAAGGCGACCAGc                                                      >  1:2798242/1‑69 (MQ=255)
      ttcttcTCGGTGGTGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGCGTAGCCAAAAAGGCGACCAGc                                                      >  1:1931486/1‑69 (MQ=255)
      ttcttcTCGGTGGTGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGCGTAGCCAAAAAGGCGACCAGc                                                      >  1:1776264/1‑69 (MQ=255)
      ttcttcTCGGTGGTGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGCGTAGCCAAAAAGGCGACCAGc                                                      >  1:3363957/1‑69 (MQ=255)
      ttcttcTCGGTGGTGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGCGTAGCCAAAAAGGCGACCAGc                                                      >  1:1581254/1‑69 (MQ=255)
      ttcttcTCGGTGGTGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGCGTAGCCAAAAAGGCGACCAGc                                                      >  1:1535536/1‑69 (MQ=255)
      ttcttcTCGGTGGTGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGCGTAGCCAAAAAGGCGACCAGc                                                      >  1:559901/1‑69 (MQ=255)
      ttcttcTCGGTGGTGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGCGTAGCCAAAAAGGCGACCAGc                                                      >  1:490844/1‑69 (MQ=255)
      ttattctCGGTGGTGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGCGTAGCCAAAAAGGCGACCAGc                                                      >  1:466801/4‑69 (MQ=255)
              ggtggtGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGTGTAGCCAAAAAGGCAACCAGCGGCGTGcc                                              >  1:1051871/1‑69 (MQ=255)
              ggtggtGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGTGTAGCCAAAAAGGCAACCAGCGGCGTGcc                                              >  1:1951186/1‑69 (MQ=255)
              ggtggtGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGTGTAGCCAAAAAGGCAACCAGCGGCGTGcc                                              >  1:912934/1‑69 (MQ=255)
              ggtggtGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGTGTAGCCAAAAAGGCAACCAGCGGCGTGcc                                              >  1:1236865/1‑69 (MQ=255)
              ggtggtGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGTGTAGCCAAAAAGGCAACCAGCGGCGTGcc                                              >  1:2913635/1‑69 (MQ=255)
              ggtggtGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGTGTAGCCAAAAAGGCAACCAGCGCCGTGcc                                              >  1:2631172/1‑69 (MQ=255)
                          tCTGTTGTTCCTGGTTTTATTCCGTAGTGTAGCCAAAAAGGCAACCAGCGGCGTGCCAGGTAAGttt                                    <  1:465947/67‑1 (MQ=255)
                          tCTGTTGTTCCTGGTTTTATTCCGTAGTGTAGCCAAAAAGGCAACCAGCGGCGTGCCAGGTAAGttt                                    <  1:3137957/67‑1 (MQ=255)
                          tCTGTTGTTCCTGGTTTTATTCCGTAGTGTAGCCAAAAAGGCAACCAGCGGCGTGCCAGGTAAGttt                                    <  1:689547/67‑1 (MQ=255)
                          tCTGTTGTTCCTGGTTTTATTCCGTAGTGTAGCCAAAAAGGCAACCAGCGGCGTGCCAGGTAAGttt                                    <  1:3308366/67‑1 (MQ=255)
                          tCTGTTGTTCCTGGTTTTATTCCGTAGTGTAGCCAAAAAGGCAACCAGCGGCGTGCCAGGTAAGttt                                    <  1:2821417/67‑1 (MQ=255)
                          tCTGTTGTTCCTGGTTTTATTCCGTAGTGTAGCCAAAAAGGCAACCAGCGGCGTGCCAGGTAAGttt                                    <  1:2586080/67‑1 (MQ=255)
                          tCTGTTGTTCCTGGTTTTATTCCGTAGTGTAGCCAAAAAGGCAACCAGCGGCGTGCCAGGTAAGttt                                    <  1:2380945/67‑1 (MQ=255)
                          tCTGTTGTTCCTGGTTTTATTCCGTAGTGTAGCCAAAAAGGCAACCAGCGGCGTGCCAGGTAAGttt                                    <  1:417408/67‑1 (MQ=255)
                          tCTGTTGTTCCTGGTTTTATTCCGTAGTGTAGCCAAAAAGGCAACCAGCGGCGTGCCAGGTAAGttt                                    <  1:2251824/67‑1 (MQ=255)
                          tCTGTTGTTCCTGGTTTTATTCCGTAGTGTAGCCAAAAAGGCAACCAGCGGCGTGCCAGGTAAGttt                                    <  1:2039268/67‑1 (MQ=255)
                          tCTGTTGTTCCTGGTTTTATTCCGTAGTGTAGCCAAAAAGGCAACCAGCGGCGTGCCAGGTAAGttt                                    <  1:2307074/67‑1 (MQ=255)
                          tCTGTTGTTCCTGGTTTTATTCCGTAGTGTAGCCAAAAAGGCAACCAGCGGCGTGCCAGGTAAGttt                                    <  1:19419/67‑1 (MQ=255)
                          tCTGTTGTTCCTGGTTTTATTCCGTAGCGTAGCCAAAAAGGCGACCAGCGGTGTGCCAGGTAAGttt                                    <  1:1142123/67‑1 (MQ=255)
                          tCTGTTGTTCCTGGTTTTATTCCGTAGCGTAGCCAAAAAGGCGACCAGCGGTGTGCCAGGTAAGttt                                    <  1:71188/67‑1 (MQ=255)
                                  tCCTGGTTTTATTCCGTAGCGTAGCCAAAAAGGCGACCAGCGGTGTGCCAGGTAAGTTTCAGACcgcg                           <  1:1633615/68‑1 (MQ=255)
                                  tCCTGGTTTTATTCCGTAGCGTAGCCAAAAAGGCGACCAGCGGTGTGCCAGGTAAGTTTCAGACcgcg                           <  1:3401413/68‑1 (MQ=255)
                                          ttATTCCGTAGCGTAGCCAAAAAGGCGACCAGCGGTGTGCCAGGTAAGTTTCAGACCGCGATTGAGCTg                  >  1:1884471/1‑69 (MQ=255)
                                                   agcgtagcCAAAAAGGCGACCAGCGGTGTGCCAGGTAAGTTTCAGACCGCGATTGAGCTGGTGATCGGc         <  1:402823/69‑1 (MQ=255)
                                                   agcgtagcCAAAAAGGCGACCAGCGGTGTGCCAGGTAAGTTTCAGACCGCGATTGAGCTGGTGATCGGc         <  1:2626123/69‑1 (MQ=255)
                                                      gtagcCAAAAAGGCAACCAGCGGCGTGCCAGGTAAGTTTCAGACCGCGATTGAGCTGGTGATCGGCttt      <  1:589068/69‑1 (MQ=255)
                                                      gtagcCAAAAAGGCAACCAGCGGCGTGCCAGGTAAGTTTCAGACCGCGATTGAGCTGGTGATCGGCttt      <  1:3308337/69‑1 (MQ=255)
                                                      gtagcCAAAAAGGCAACCAGCGGCGTGCCAGGTAAGTTTCAGACCGCGATTGAGCTGGTGATCGGCttt      <  1:3281415/69‑1 (MQ=255)
                                                      gtagcCAAAAAGGCAACCAGCGGCGTGCCAGGTAAGTTTCAGACCGCGATTGAGCTGGTGATCGGCttt      <  1:1591593/69‑1 (MQ=255)
                                                      gtagcCAAAAAGGCAACCAGCGGCGTGCCAGGTAAGTTTCAGACCGCGATTGAGCTGGTGATCGGCttt      <  1:452975/69‑1 (MQ=255)
                                                      gtagcCAAAAAGGCAACCAGCGGCGTGCCAGGTAAGTTTCAGACCGCGATTGAGCTGGTGATCGGCttt      <  1:2898666/69‑1 (MQ=255)
                                                      gtagcCAAAAAGGCAACCAGCGGCGTGCCAGGTAAGTTTCAGACCGCGATTGAGCTGGTGATCGGCttt      <  1:909482/69‑1 (MQ=255)
                                                      gtagcCAAAAAGGCAACCAGCGGCGTGCCAGGTAAGTTTCAGACCGCGATTGAGCTGGTGATCGGCttt      <  1:2742253/69‑1 (MQ=255)
                                                      gtagcCAAAAAGGCAACCAGCGGCGTGCCAGGCAAGTTTCAGACCGCGATTGAGCTGGTGATCGGCttt      <  1:803635/69‑1 (MQ=255)
                                                      gtagcCAAAAAGGC‑AACAGCGGCGTGCCAGGTAAGTTTCAGACCGCGATTGAGCTGGTGATCGGCttt      <  1:3133564/68‑1 (MQ=255)
                                                      gaagcCAAAAAGGCAACCAGCGGCGTGCCAGGTAAGTTTCAGACCGCGATTGAGCTGGTGATCGGCttt      <  1:3192376/67‑1 (MQ=255)
                                                         gcCAAAAAGGCGACCAGCGGTGTGCCAGGTAAGTTTCAGACCGCGATTGAGCTGGTGATCGGCTTTGtt   <  1:1850019/69‑1 (MQ=255)
                                                         gcCAAAAAGGCGACCAGCGGTGTGCCAGGTAAGTTTCAGACCGCGATTGAGCTGGTGATCGGCTTTGtt   <  1:2693911/69‑1 (MQ=255)
                                                         gcCAAAAAGGCGACCAGCGGTGTGCCAGGTAAGTTTCAGACCGCGATTGAGCTGGTGATCGGCTTTGtt   <  1:2135086/69‑1 (MQ=255)
                                                         gcCAAAAAGGCGACCAGCGGTGTGCCAGGTAAGTTTCAGACCGCGATTGAGCTGGTGATCGGCTTTGtt   <  1:3273290/69‑1 (MQ=255)
                                                         gcCAAAAAGGCGACCAGCGGTGTGCCAGGTAAGTTTCAGACCGCGATTGAGCTGGTGATCGGCTTTGtt   <  1:463072/69‑1 (MQ=255)
                                                         gcCAAAAAGGCGACCAGCGGTGTGCCAGGTAAGTTTCAGACCGCGATTGAGCTGGTGATCGGCTTTGtt   <  1:1918205/69‑1 (MQ=255)
                                                         gcCAAAAAGGCGACCAGCGGTGTGCCAGGTAAGTTTCAGACCGCGATTGAGCTGGTGATCGGCTTTGtt   <  1:1157046/69‑1 (MQ=255)
                                                         gcCAAAAAGGCGACCAGCGGTGGGCCAGGTAAGTTTCAGACCGCGATTGAGCTGGTGATCGGCTTTGtt   <  1:3318990/69‑1 (MQ=255)
                                                          ccAAAAAGGCGACCAGCGGTGTGCCAGGTAAGTTTCAGACCGCGATTGAGCTGGTGATCGGCTTTGtt   <  1:1087085/68‑1 (MQ=255)
                                                           cAAAAAGGCAACCAGCGGCGTGCCAGGTAAGTTTCAGACCGCGATTGAGCTGGTGATCGGCTTTGTTa  <  1:1381379/68‑1 (MQ=255)
                                                           cAAAAAGGCAACCAGCGGCGTGCCAGGTAAGTTTCAGACCGCGATTGAGCTGGTGATCGGCTTTGTTa  <  1:1304150/68‑1 (MQ=255)
                                                           cAAAAAGGCAACCAGCGGCGTGCCAGGTAAGTTTCAGACCGCGATTGAGCTGGTGATCGGCTTTGTTa  <  1:950881/68‑1 (MQ=255)
                                                           cAAAAAGGCAACCAGCGGCGTGCCAGGTAAGTTTCAGACCGCGATTGAGCTGGTGATCGGCTTTGTTa  <  1:621347/68‑1 (MQ=255)
                                                           cAAAAAGGCAACCAGCGGCGTGCCAGGTAAGTTTCAGACCGCGATTGAGCTGGTGATCGGCTTTGTTa  <  1:780850/68‑1 (MQ=255)
                                                           cAAAAAGGCAACCAGCGGCGTGCCAGGTAAGTTTCAGACCGCGATTGAGCTGGTGATCGGCTTTGTTa  <  1:898740/68‑1 (MQ=255)
                                                           cAAAAAGGCAACCAGCGGCGTGCCAGGTAAGTTTCAGACCGCGATTGAGCTGGTGATCGGCTTTGTTa  <  1:1075419/68‑1 (MQ=255)
                                                           cAAAAAGGCAACCAGCGGCGTGCCAGGTAAGTTTCAGACCGCGATTGAGCTGGTGATCGGCTTTGTTa  <  1:274505/68‑1 (MQ=255)
                                                           cAAAAAGGCAACCAGCGGCGTGCCAGGTAAGTTTCAGACCGCGATTGAGCTGGTGATCGGCTTTGTTa  <  1:3138731/68‑1 (MQ=255)
                                                           cAAAAAGGCAACCAGCGGCGTGCCAGGTAAGTTTCAGACCGCGATTGAGCTGGTGATCGGCTTTGTTa  <  1:2746573/68‑1 (MQ=255)
                                                           cAAAAAGGCAACCAGCGGCGTGCCAGGTAAGTTTCAGACCGCGATTGAGCTGGTGATCGGCTTTGTTa  <  1:2865399/68‑1 (MQ=255)
                                                           cAAAAAGGCAACCAGCGGCGTGCCAGGTAAGTTTCAGACCGCGATTGAGCTGGTGATCGGCTTTGTTa  <  1:2942948/68‑1 (MQ=255)
                                                           cAAAAAGGCAACCAGCGGCGTGCCAGGTAAGTTTCAGACCGCGATTGAGCTGGTGATCGGCTTTGTTa  <  1:2946167/68‑1 (MQ=255)
                                                           cAAAAAGGCAACCAGCGGCGTGCCAGGTAAGTTTCAGACCGCGATTGAGCTGGTGATCGGCTTTGTTa  <  1:2974260/68‑1 (MQ=255)
                                                           cAAAAAGGCAACCAGCGGCGTGCCAGGTAAGTTTCAGACCGCGATTGAGCTGGTGATCGGCTTTGTTa  <  1:1419551/68‑1 (MQ=255)
                                                           cAAAAAGGCAACCAGCGGCGTGCCAGGTAAGTTTCAGACCGCGATTGAGCTGGTGATCGGCTTTGTTa  <  1:3283693/68‑1 (MQ=255)
                                                           cAAAAAGGCAACCAGCGGCGTGCCAGGTAAGTTTCAGACCGCGATTGAGCTGGTGATCGGCTTTGTTa  <  1:2738739/68‑1 (MQ=255)
                                                           cAAAAAGGCAACCAGCGGCGTGCCAGGTAAGTTTCAGACCGCGATTGAGCTGGTGATCGGCTTTGTTa  <  1:3360069/68‑1 (MQ=255)
                                                           cAAAAAGGCAACCAGCGGCGTGCCAGGTAAGTTTCAGACCGCGATTGAGCTGGTGATCGGCTTTGTTa  <  1:377234/68‑1 (MQ=255)
                                                           cAAAAAGGCAACCAGCGGCGTGCCAGGTAAGTTTCAGACCGCGATTGAGCTGGTGATCGGCTTTGTTa  <  1:1555423/68‑1 (MQ=255)
                                                           cAAAAAGGCAACCAGCGGCGTGCCAGGTAAGTTTCAGACCGCGATTGAGCTGGTGATCGGCTTTGTTa  <  1:1525201/68‑1 (MQ=255)
                                                            aaaaaGGCAACCAGCGGCGTGCCAGGTAAGTTTCAGACCGCGATTGAGCTGGTGATCGGCTTTGTTa  <  1:1650167/67‑1 (MQ=255)
                                                             aaaaGGCAACCAGCGGCGTGCCAGGTAAGTTTCAGACCGCGATTGAGCTGGTGATCGGCTTTGTTa  <  1:2850663/66‑1 (MQ=255)
                                                               aaGGCAACCAGCGGCGTGCCAGGTAAGTTTCAGACCGCGATTGAGCTGGTGATCGGCTTTGTTa  <  1:802090/64‑1 (MQ=255)
                                                                 ggCAACCAGCGGCGTGCCAGGTAAGTTTCAGACCGCGATTGAGCTGGTGATCGGCTTTGTTa  <  1:1286539/62‑1 (MQ=255)
                                                                    |                                                          
TCCATGTTCTTCTCGGTGGTGCTGGGTCTGTTGTTCCTGGTTTTATTCCGTAGCGTAGCCAAAAAGGCGACCAGCGGTGTGCCAGGTAAGTTTCAGACCGCGATTGAGCTGGTGATCGGCTTTGTTA  >  minE/2464475‑2464601

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