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
A6 F28 I1 R2 90 19.5 1203533 67.3% 809977 57.3

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA minE 1,763,586 C→T noncoding (258/1542 nt) rrsG ← 16S ribosomal RNA

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,763,5860CT97.7% 133.1 / ‑2.1 85noncoding (258/1542 nt)rrsG16S ribosomal RNA
Reads supporting (aligned to +/- strand):  ref base C (2/0);  new base T (0/83);  total (2/83)
Fisher's exact test for biased strand distribution p-value = 2.80e-04
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.80e-01

Only 100 of 118 total aligned reads displayed.

GGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCA  >  minE/1763532‑1763605
                                                      |                   
ggCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCccacca                >  1:890678/1‑60 (MQ=255)
ggCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCccacca                >  1:37396/1‑60 (MQ=255)
ggCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCccacca                >  1:811432/1‑60 (MQ=255)
ggCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCccacca                >  1:72317/1‑60 (MQ=255)
ggCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCccacca                >  1:146519/1‑60 (MQ=255)
ggCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCccacca                >  1:134251/1‑60 (MQ=255)
ggCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCccacca                >  1:822835/1‑60 (MQ=255)
ggCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCccacca                >  1:633572/1‑60 (MQ=255)
ggCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCccacca                >  1:386455/1‑60 (MQ=255)
ggCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCccacca                >  1:1199310/1‑60 (MQ=255)
ggCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCccacca                >  1:39053/1‑60 (MQ=255)
ggCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCccacca                >  1:1174765/1‑60 (MQ=255)
ggCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCccacca                >  1:365718/1‑60 (MQ=255)
ggCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCccacca                >  1:644594/1‑60 (MQ=255)
ggCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCccacca                >  1:907843/1‑60 (MQ=255)
ggCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCccacca                >  1:917707/1‑60 (MQ=255)
ggCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCccacca                >  1:924352/1‑60 (MQ=255)
ggCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCccacca                >  1:435512/1‑60 (MQ=255)
ggCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCccacca                >  1:1096592/1‑60 (MQ=255)
ggCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCccacca                >  1:951849/1‑60 (MQ=255)
ggCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCccacca                >  1:1083327/1‑60 (MQ=255)
ggCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCccacca                >  1:1039172/1‑60 (MQ=255)
ggCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCccacca                >  1:306776/1‑60 (MQ=255)
ggCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCccacca                >  1:534995/1‑60 (MQ=255)
ggCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCccacca                >  1:482895/1‑60 (MQ=255)
ggCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCccacca                >  1:806041/1‑60 (MQ=255)
ggCTGGTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTT‑GTGAGCCGTTACCCCACcaaca             >  1:743105/1‑62 (MQ=14)
   gggTCATCCTCTCAGACCAGCCAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACcaacaa            >  1:204332/2‑61 (MQ=255)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:655685/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:65594/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:534795/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:658724/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:646543/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:634116/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:592715/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:58810/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:568658/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:427082/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:828837/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:977353/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:970540/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:964980/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:953139/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:934381/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:887103/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:865806/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:865418/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:862207/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:708110/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:813975/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:808535/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:808448/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:806286/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:72608/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:720777/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:720721/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:710448/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:1174389/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:513782/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:213640/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:194948/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:171700/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:167011/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:152681/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:127255/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:126877/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:125909/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:1184170/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:218049/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:1165344/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:1155621/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:1148843/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:1127182/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:1124781/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:1032448/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:1031519/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:1027279/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:1021955/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:338330/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:501487/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:47057/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:465268/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:430869/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:1019923/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:385239/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:384510/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:345890/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:219469/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:335603/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:319027/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:285142/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:271220/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:264185/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:260011/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:233724/61‑3 (MQ=11)
             ctcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:224994/61‑3 (MQ=11)
              tcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCATCTAGCTATTccga  <  1:250073/60‑3 (MQ=2)
              tcAGACCAGTTACGGATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:1117311/60‑3 (MQ=11)
                           ggATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:660922/47‑3 (MQ=11)
                           ggATCGTCGCCTTGGTGAGCCATTACCTCACCAACTAGCTAATccga  <  1:1093969/47‑3 (MQ=11)
                                                      |                   
GGCTGGTCATCCTCTCAGACCAGCTAGGGATCGTCGCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCA  >  minE/1763532‑1763605

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

GATK/CNVnator alignment

N/A