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
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,419,494 |
G→A |
40.3% |
Y173Y (TAC→TAT) |
wzyE ← |
predicted Wzy protein involved in ECA polysaccharide chain elongation |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,419,494 | 0 | G | A | 40.3%
| 23.8
/ 37.5
| 57 | Y173Y (TAC→TAT) | wzyE | predicted Wzy protein involved in ECA polysaccharide chain elongation |
| Reads supporting (aligned to +/- strand): ref base G (19/15); new base A (12/11); total (31/26) |
| Fisher's exact test for biased strand distribution p-value = 7.94e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.09e-01 |
TCAGCAAGCCAAAGGCGACCGTGCTGACGAGGAAAAACAGCCACGCTTTGCTGTCCTGGCGCAGAAAGTAGACCACCAGCATCGCCGGGATGAAAAAGTAAAAGAAGCGTTTTAACGCCACGCCGGAGACTT > minE/2419427‑2419558
|
tCAGCAAGCCAAAGGCGACCGTGCTGACGAGGAAAAACAGCCACGCTTTGCTGTCCTGGCGCAGAAAg < 1:2345353/68‑1 (MQ=255)
cAAGCCAAAGGCGACCGTGCTGACGAGGAAAAACAGCCACGCTTTGCTGTCCTGGCGCAGAAAGTAGac < 1:460383/69‑1 (MQ=255)
cGTGCTGACGAGGAAAAACAGCCACGCTTTGCTGTCCTGGCGCAGAAAGTAGACCACCAGCATCGCCgg > 1:1507282/1‑69 (MQ=255)
cGTGCTGACGAGGAAAAACAGCCACGCTTTGCTGTCCTGGCGCAGAAAGTAGACCACCAGCATCGCCgg > 1:1865662/1‑69 (MQ=255)
cGTGCTGACGAGGAAAAACAGCCACGCTTTGCTGTCCTGGCGCAGAAAGTAGACCACCAGCATCGCCgg > 1:1963460/1‑69 (MQ=255)
cGTGCTGACGAGGAAAAACAGCCACGCTTTGCTGTCCTGGCGCAGAAAGTAGACCACCAGCATCGCCgg > 1:3177878/1‑69 (MQ=255)
gAGGAAAAACAGCCACGCTTTGCTGTCCTGGCGCAGAAAGTAGACCACCAGCATCGCCGGGATGaaaa > 1:1036230/1‑68 (MQ=255)
gAGGAAAAACAGCCACGCTTTGCTGTCCTGGCGCAGAAAGTAGACCACCAGCATCGCCGGGATGaaaa > 1:797264/1‑68 (MQ=255)
gAGGAAAAACAGCCACGCTTTGCTGTCCTGGCGCAGAAAGTAGACCACCAGCATCGCCGGGATGaaaa > 1:453863/1‑68 (MQ=255)
gAGGAAAAACAGCCACGCTTTGCTGTCCTGGCGCAGAAAGTAGACCACCAGCATCGCCGGGATGaaaa > 1:3213481/1‑68 (MQ=255)
gAGGAAAAACAGCCACGCTTTGCTGTCCTGGCGCAGAAAGTAGACCACCAGCATCGCCGGGATGaaaa > 1:2487969/1‑68 (MQ=255)
gAGGAAAAACAGCCACGCTTTGCTGTCCTGGCGCAGAAAGTAGACCACCAGCATCGCAGGGATGaaaa > 1:89522/1‑68 (MQ=255)
gAGGAAAAACAGCCACGCTTTGCTGTCCTGGCGCAGAAAGTAGACCACCAGCATAGCCGGGATGaaaa > 1:972055/1‑68 (MQ=255)
ggAAAAACAGCCACGCTTTGCTGTCCTGGCGCAGAAAGTAGACCACCAGCATCGCCGGGATGAAAAAGt < 1:6813/69‑1 (MQ=255)
aGCCACGCTTTGCTGTCCTGGCGCAGAAAGTATACCACCAGCATCGCCGGGATGAAAAAGTAAaagaag < 1:1976381/69‑1 (MQ=255)
aGCCACGCTTTGCTGTCCTGGCGCAGAAAGTAGACCACCAGCATCGCCGGGATGAAAAAGTAAaagaag < 1:1146231/69‑1 (MQ=255)
aGCCACGCTTTGCTGTCCTGGCGCAGAAAGTAGACCACCAGCATCGCCGGGATGAAAAAGTAAaagaag < 1:2567495/69‑1 (MQ=255)
gCTTTTCTATCCTGGCGCAGAAAATAAACCACCAGCATCGCCGGGATGAAAAAGTAAAAGAAGCGtttt < 1:936344/69‑1 (MQ=255)
gCTTTGCTGTCCTGGCGCAGAAAGTAGACCACCAGCATCGCCGGGATGAAAAAGTAAAAGAAGCGtttt < 1:1497213/69‑1 (MQ=255)
gCTTTGCTATCCTGGCGCAGAAAATAAAGCACCAGCATCGCCGGGATGAAAAAGTAAAAGAAGCGtttt < 1:2588551/69‑1 (MQ=255)
gCTTTGCTATCCTGGCGCAGAAAATAAACCACCAGCATCGCCGGGATGAAAAAGTAAAAGAAGCGtttt < 1:3130670/69‑1 (MQ=255)
gCTTTGCTATCCTGGCGCAGAAAATAAACCACCAGCATCGCCGGGATGAAAAAGTAAAAGAAGCGtttt < 1:2574332/69‑1 (MQ=255)
gCTTTGCTATCCTGGCGCAGAAAATAAACCACCAGCATCGCCGGGATGAAAAAGTAAAAGAAGCGtttt < 1:329675/69‑1 (MQ=255)
gCTTTGCTATCCTGGCGCAGAAAATAAACCACCAGCATCGCCGGGATGAAAAAGTAAAAGAAGCGtttt < 1:451728/69‑1 (MQ=255)
gCTTTGCTATCCTGGCGCAGAAAATAAACCACCAGCATCGCCGGGATGAAAAAGTAAAAGAAGCGtttt < 1:2391559/69‑1 (MQ=255)
gCTTTGCTATCCTGGCGCAGAAAATAAACCACCAGCATCGCCGGGATGAAAAAGTAAAAGAAGCGtttt < 1:599083/69‑1 (MQ=255)
gCTTTGCTATCCTGGCGCAGAAAATAAACCACCAGCATCGCCGGGATGAAAAAGTAAAAGAAGCGtttt < 1:2247613/69‑1 (MQ=255)
gCTTTGCTATCCTGGCGCAGAAAATAAACCACCAGCATCGCCGGGATGAAAAAGTAAAAGAAGCGtttt < 1:102138/69‑1 (MQ=255)
cTTTGCTATCCTGGCGCAGAAAATAAACCACCAGCATCGCCGGGATGAAAAAGTAAAAGAAGCGtttt < 1:2758709/68‑1 (MQ=255)
cTGTCCTGGCGCAGAAAGTAGACCACCAGCATCGCCGGGATGAAAAAGTAAAAGAAGCGTTTTAacgc < 1:2128684/68‑1 (MQ=255)
cTGTCCTGGCGCAGAAAGTAGACCACCAGCATCGCCGGGATGAAAAAGTAAAAGAAGCGTTTTAacgc < 1:2317662/68‑1 (MQ=255)
cTGGCGCAGAAAGTAGACCACCAGCATCGCCGGGATGAAAAAGTAAAAGAAGCGTTTTAacgccacgc > 1:3059591/1‑68 (MQ=255)
cTGGCGCAGAAAGTAGACCACCAGCATCGCCGGGATGAAAAAGTAAAAGAAGCGTTTTAacgccacgc > 1:2210070/1‑68 (MQ=255)
cTGGCGCAGAAAGTAGACCACCAGCATCGCCGGGATGAAAAAGTAAAAGAAGCGTTTTAacgccacgc > 1:2563120/1‑68 (MQ=255)
cTGGCGCAGAAAGTAGACCACCAGCATCGCCGGGATGAAAAAGTAAAAGAAGCGTTTTAacgccacgc > 1:3213398/1‑68 (MQ=255)
cTGGCGCAGAAAGTAGACCACCAGCATCGCCGGGATGAAAAAGTAAAAGAAGCGTTTTAacgccacgc > 1:870611/1‑68 (MQ=255)
cTGGCGCAGAAAGTAGACCACCAGCATCGCCGGGATGAAAAAGTAAAAGAAGCGTTTTAacgccacgc > 1:3301518/1‑68 (MQ=255)
cTGGCGCAGAAAGTAGACCACCAGCATCGCCGGGATGAAAAAGTAAAAGAAGCGTTTTAacgccacgc > 1:2460550/1‑68 (MQ=255)
cTGGAGCAGAAAGTAGACCACCAGCATCGCCGGGATGAAAAAGTAAAAGAAGCGTTTTAacgccacgc > 1:3306806/1‑68 (MQ=255)
tGGCGCAGAAAATAAGCCACCAGCATCGCCGGGATGAAAAAGTaa > 1:2846839/1‑45 (MQ=37)
tGGCGCAGAAAATAAACCACCAGCATCGCCGGGATGAAAAAGTaa > 1:302878/1‑45 (MQ=38)
tGGCGCAGAAAATAAACCACCAGCATCGCCGGGATGAAAAAGTaa > 1:904959/1‑45 (MQ=38)
tGGCGCAGAAAATAAACCACCAGCATCGCCGGGATGAAAAAGTaa > 1:2229694/1‑45 (MQ=38)
tGGCGCAGAAAATAAACCACCAGCATCGCCGGGATGAAAAAGTaa > 1:1278913/1‑45 (MQ=38)
tGGCGCAGAAAATAAACCACCAGCATCGCCGGGATGAAAAAGTaa > 1:713985/1‑45 (MQ=38)
tGGCGCAGAAAATAAACCACCAGCATCGCCGGGATGAAAAAGTaa > 1:545357/1‑45 (MQ=38)
tGGCGCAGAAAATAAACCACCAGCATCGCCGGGATGAAAAAGTaa > 1:137440/1‑45 (MQ=38)
tGGCGCAGAAAATAAACCACCAGCATCGCCGGGATGAAAAAGTaa > 1:412530/1‑45 (MQ=38)
tGGCGCAGAAAATAAACCACCAGCATCGCCGGGATGAAAAAGTaa > 1:2011250/1‑45 (MQ=38)
tGGCGCAGAAAATAAACCACCAGCATCGCCGGGATGAAAAAGTaa > 1:3242923/1‑45 (MQ=38)
tGGCGCAGAAAATAAACCACCAGCACCGCCGGGATGAAAAAGTaa > 1:2031193/1‑45 (MQ=37)
gAAAGTAGACCACCAGCATCTCCGGTATGAAAAAGTAAAAGAAGCGTTTTAACGCCACGCCGGAGACtt < 1:2439260/69‑1 (MQ=255)
gAAAGTAGACCACCAGCATCGCCGGGATGAAAAAGTAAAAGAAGCGTTTTAACGCCACGCCGGAGACtt < 1:552119/69‑1 (MQ=255)
gAAAGTAGACCACCAGCATCGCCGGGATGAAAAAGTAAAAGAAGCGTTTTAACGCCACGCCGGAGACtt < 1:3425415/69‑1 (MQ=255)
gAAAGTAGACCACCAGCATCGCCGGGATGAAAAAGTAAAAGAAGCGTTTTAACGCCACGCCGGAGACtt < 1:1777500/69‑1 (MQ=255)
gAAAGTAGACCACCAGCATCGCCGGGATGAAAAAGTAAAAGAAGCGTTTTAACGCCACGCCGGAGACtt < 1:2808268/69‑1 (MQ=255)
gAAAGTAGACCACCAGCATCGCCGGGATGAAAAAGTAAAAGAAGCGTTTTAACGCCACGCCGGAGACtt < 1:2065792/69‑1 (MQ=255)
aaaGTAGACCACCAGCATCGCCGGGATGAAAAAGTAAAAGAAGCGTTTTAACGCCACGCCGGAGACtt < 1:436933/68‑1 (MQ=255)
|
TCAGCAAGCCAAAGGCGACCGTGCTGACGAGGAAAAACAGCCACGCTTTGCTGTCCTGGCGCAGAAAGTAGACCACCAGCATCGCCGGGATGAAAAAGTAAAAGAAGCGTTTTAACGCCACGCCGGAGACTT > minE/2419427‑2419558
|
| 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
