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
A4 F28 I2 R2 42 122.2 1899532 52.7% 1001053 56.6

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA minE 2,730,912 G→T intergenic (‑181/‑40) slyX ← / → fkpA conserved hypothetical protein/FKBP‑type peptidyl‑prolyl cis‑trans isomerase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,730,9120GT96.9% 94.1 / ‑2.7 32intergenic (‑181/‑40)slyX/fkpAconserved hypothetical protein/FKBP‑type peptidyl‑prolyl cis‑trans isomerase
Reads supporting (aligned to +/- strand):  ref base G (1/0);  new base T (31/0);  total (32/0)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.98e-01

ACAACGCTTTATAGTACCCTTCTGATAATAGTTAACCCTGGGGTGAGATGCCCCGATCC  >  minE/2730882‑2730940
                              |                            
aCAACGCTTTATAGTACCCTTCTGTTAATATTTAACCCTGGGGTGAGATGCCCCGATcc  >  1:119494/1‑59 (MQ=255)
aCAACGCTTTATAGTACCCTTCTGATAATATTTAACCCTGGGGTGAGATGCCCCGATcc  >  1:1801971/1‑59 (MQ=255)
aCAACGCTTTATAGTACCCTTCTGATAATATTTAACCCTGGGGTGAGATGCCCCGATcc  >  1:991269/1‑59 (MQ=255)
aCAACGCTTTATAGTACCCTTCTGATAATATTTAACCCTGGGGTGAGATGCCCCGATcc  >  1:91659/1‑59 (MQ=255)
aCAACGCTTTATAGTACCCTTCTGATAATATTTAACCCTGGGGTGAGATGCCCCGATcc  >  1:87615/1‑59 (MQ=255)
aCAACGCTTTATAGTACCCTTCTGATAATATTTAACCCTGGGGTGAGATGCCCCGATcc  >  1:771290/1‑59 (MQ=255)
aCAACGCTTTATAGTACCCTTCTGATAATATTTAACCCTGGGGTGAGATGCCCCGATcc  >  1:699854/1‑59 (MQ=255)
aCAACGCTTTATAGTACCCTTCTGATAATATTTAACCCTGGGGTGAGATGCCCCGATcc  >  1:63743/1‑59 (MQ=255)
aCAACGCTTTATAGTACCCTTCTGATAATATTTAACCCTGGGGTGAGATGCCCCGATcc  >  1:633198/1‑59 (MQ=255)
aCAACGCTTTATAGTACCCTTCTGATAATATTTAACCCTGGGGTGAGATGCCCCGATcc  >  1:546477/1‑59 (MQ=255)
aCAACGCTTTATAGTACCCTTCTGATAATATTTAACCCTGGGGTGAGATGCCCCGATcc  >  1:516764/1‑59 (MQ=255)
aCAACGCTTTATAGTACCCTTCTGATAATATTTAACCCTGGGGTGAGATGCCCCGATcc  >  1:496395/1‑59 (MQ=255)
aCAACGCTTTATAGTACCCTTCTGATAATATTTAACCCTGGGGTGAGATGCCCCGATcc  >  1:453853/1‑59 (MQ=255)
aCAACGCTTTATAGTACCCTTCTGATAATATTTAACCCTGGGGTGAGATGCCCCGATcc  >  1:25842/1‑59 (MQ=255)
aCAACGCTTTATAGTACCCTTCTGATAATATTTAACCCTGGGGTGAGATGCCCCGATcc  >  1:215267/1‑59 (MQ=255)
aCAACGCTTTATAGTACCCTTCTGATAATATTTAACCCTGGGGTGAGATGCCCCGATcc  >  1:21268/1‑59 (MQ=255)
aCAACGCTTTATAGTACCCTTCTGATAATATTTAACCCTGGGGTGAGATGCCCCGATcc  >  1:1787441/1‑59 (MQ=255)
aCAACGCTTTATAGTACCCTTCTGATAATATTTAACCCTGGGGTGAGATGCCCCGATcc  >  1:1782281/1‑59 (MQ=255)
aCAACGCTTTATAGTACCCTTCTGATAATATTTAACCCTGGGGTGAGATGCCCCGATcc  >  1:1775809/1‑59 (MQ=255)
aCAACGCTTTATAGTACCCTTCTGATAATATTTAACCCTGGGGTGAGATGCCCCGATcc  >  1:1676571/1‑59 (MQ=255)
aCAACGCTTTATAGTACCCTTCTGATAATATTTAACCCTGGGGTGAGATGCCCCGATcc  >  1:1612503/1‑59 (MQ=255)
aCAACGCTTTATAGTACCCTTCTGATAATATTTAACCCTGGGGTGAGATGCCCCGATcc  >  1:1607856/1‑59 (MQ=255)
aCAACGCTTTATAGTACCCTTCTGATAATATTTAACCCTGGGGTGAGATGCCCCGATcc  >  1:1599500/1‑59 (MQ=255)
aCAACGCTTTATAGTACCCTTCTGATAATATTTAACCCTGGGGTGAGATGCCCCGATcc  >  1:156701/1‑59 (MQ=255)
aCAACGCTTTATAGTACCCTTCTGATAATATTTAACCCTGGGGTGAGATGCCCCGATcc  >  1:1469492/1‑59 (MQ=255)
aCAACGCTTTATAGTACCCTTCTGATAATATTTAACCCTGGGGTGAGATGCCCCGATcc  >  1:1290278/1‑59 (MQ=255)
aCAACGCTTTATAGTACCCTTCTGATAATATTTAACCCTGGGGTGAGATGCCCCGATcc  >  1:1258890/1‑59 (MQ=255)
aCAACGCTTTATAGTACCCTTCTGATAATATTTAACCCTGGGGTGAGATGCCCCGATcc  >  1:1245571/1‑59 (MQ=255)
aCAACGCTTTATAGTACCCTTCTGATAATATTTAACCCTGGGGTGAGATGCCCCGATcc  >  1:1101786/1‑59 (MQ=255)
aCAACGCTTTATAGTACCCTTCTGATAATATTTAACCCTGGGGTGAGATGCCCCGATcc  >  1:1053377/1‑59 (MQ=255)
aCAACGCTTTATAGTACCCTTCTGATAATATTTAACCCTGGGGTGAGATGCCACGATcc  >  1:1010889/1‑59 (MQ=255)
aCAACGCTTTATAGTACCCTTCTGATAATAGTTAACCCTGGGGTGAGATGCCCCGATcc  >  1:1894646/1‑59 (MQ=255)
                              |                            
ACAACGCTTTATAGTACCCTTCTGATAATAGTTAACCCTGGGGTGAGATGCCCCGATCC  >  minE/2730882‑2730940

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A