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 |
1,400,543 |
T→A |
54.6% |
P86P (CCT→CCA) |
yeiU → |
undecaprenyl pyrophosphate phosphatase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,400,543 | 0 | T | A | 54.6%
| 12.8
/ 71.8
| 66 | P86P (CCT→CCA) | yeiU | undecaprenyl pyrophosphate phosphatase |
| Reads supporting (aligned to +/- strand): ref base T (26/4); new base A (21/15); total (47/19) |
| Fisher's exact test for biased strand distribution p-value = 1.45e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.47e-01 |
TGTTCACTGCTGGCGATGGGTATGTTGATGCTGAGTTTCTGGCTGAAAGAAAACGCCCCTGGCAGACGACGTATCGTGATTATTGGTCTGGTCATGCTATTAACTGCAGTGGTATTAA > minE/1400484‑1400601
|
tgttCACTGCTGGCGATGGGTATGTTGATGCTGAGTTTCTGGCTGAAAGAAAACGCCCCTGGCAgacga > 1:813228/1‑69 (MQ=255)
tgttCACTGCTGGCGATGGGTATGTTGATGCTGAGTTTCTGGCTGAAAGAAAACGCCCCTGGCAgacga > 1:446329/1‑69 (MQ=255)
tgttCACTGCTGGCGATGGGTATGTTGATGCTGAGTTTCTGGCTGAAAGAAAACGCCCCTGGCAgacga > 1:34814/1‑69 (MQ=255)
tgttCACTGCTGGCGATGGGTATGTTGATGCTGAGTTTCTGGCTGAAAGAAAACGCCCCTGGCAgacga > 1:3232775/1‑69 (MQ=255)
tgttCACTGCTGGCGATGGGTATGTTGATGCTGAGTTTCTGGCTGAAAGAAAACGCCCCTGGCAgacga > 1:1730065/1‑69 (MQ=255)
tgttCACTGCTGGCGATGGGTATGTTGATGCTGAGTTTCTGGCTGAAAGAAAACGCCCCTGGCAgacga > 1:1648086/1‑69 (MQ=255)
tgttCACTGCTGGCGATGGGTATGTTGATGCTGAGTTTCTGGCTGAAAGAAAACGCCCCTGGCAgacg > 1:2924579/1‑68 (MQ=255)
tgctgGGGATGGGTATGTTGATGCTGAGTTTCTGGCTGAAAGAAAACGCCCCTGGCAGACGACGTATc > 1:238126/1‑68 (MQ=255)
tgctgGCGATGGGTATGTTGATGCTGAGTTTCTGGCTGAAAGAAAACGCCCCTGGCAGACGACGTATc > 1:1353115/1‑68 (MQ=255)
tgctgGCGATGGGTATGTTGATGCTGAGTTTCTGGCTGAAAGAAAACGCCCCTGGCAGACGACGTATc > 1:1762548/1‑68 (MQ=255)
ggCGATGGGTATGTTGATGCTGAGTTTCTGGCTGAAAGAAAACGCCCCTGGCAGACGACGTATCGTg < 1:3059179/67‑1 (MQ=255)
aTGTTGATGCTGAGTTTCTGGCTGAAAGAAAACGCCCCTGGCAGACGACGTATCGTGATTATtggtctg > 1:991979/1‑69 (MQ=255)
aTGTTGATGCTGAGTTTCTGGCTGAAAGAAAACGCCCCTGGCAGACGACGTATCGTGATTATtggtctg > 1:2830177/1‑69 (MQ=255)
aTGTTGATGCTGAGTTTCTGGCTGAAAGAAAACGCCCCTGGCAGACGACGTATCGTGATTATtggtctg > 1:3018066/1‑69 (MQ=255)
aTGTTGATGCTGAGTTTCTGGCTGAAAGAAAACGCCCCTGGCAGACGACGTATCGTGATTATtggtctg > 1:376333/1‑69 (MQ=255)
aTGTTGATGCTGAGTTTCTGGCTGAAAGAAAACGCCCCTGGCAGACGACGTATCGTGATTATtggtctg > 1:1445183/1‑69 (MQ=255)
aTGTTGATGCTGAGTTTCTGGCTGAAAGAAAACGCCCCTGGCAGACGACGTATCGTGATTATtggtctg > 1:463663/1‑69 (MQ=255)
aTGTTGATGCTGAGTTTCTGGCTGAAAGAAAACGCCCCTGGCAGACGACGTATCGTGATTATtggtctg > 1:556782/1‑69 (MQ=255)
aTGTTGATGCTGAGTTTCTGGCTGAAAGAAAACGCCCCTGGCAGACGACGTATCGTGATTATtggtctg > 1:901404/1‑69 (MQ=255)
aTGTTGATGCTGAGTTTCTGGCTGAAAGAAAACGCCCCTGGCAGACGACGTATCGTGATTATtggtct > 1:223389/1‑68 (MQ=255)
gTTGATGCTGAGTTTCTGGCTGAAAGAAAACGCCCCTGGCAGACGACGTATCGTGATTATtggtctggt > 1:3186283/1‑69 (MQ=255)
ttGATGCTGAGTTTCTGGCTGAAAGAAAACGCCCCTGGCAGACGACGTATCGTGat > 1:2651483/1‑56 (MQ=255)
gAGTTTCTGGCTGAAAGAAAACGCCCCTGGCAGACGACGTATCGTGATTATTGGTCTGGTCATGCTAtt < 1:1221278/69‑1 (MQ=255)
gAGTTTCTGGCTGAAAGAAAACGCCCCTGGCAGACGACGTATCGTGATTATTGGTCTGGTCATGCTAtt < 1:255399/69‑1 (MQ=255)
tttCTGGCTGAAAGAAAACGCCCCTGGCAGACGACGTATCGTGATTATTGGTCTGGTCATGCTATTAAc > 1:3108491/1‑69 (MQ=255)
tGGCTGAAAGAAAACGCCCCAGGCAGACGACGTATCGTtattat < 1:1438834/44‑1 (MQ=38)
tGGCTGAAAGAAAACGCCCCAGGCAGACGACGTATCGTGattat < 1:1596360/44‑1 (MQ=255)
tGGCTGAAAGAAAACGCCCCAGGCAGACGACGTATCGTGattat < 1:1087712/44‑1 (MQ=255)
tGGCTGAAAGAAAACGCCCCAGGCAGACGACGTATCGTGattat < 1:1494453/44‑1 (MQ=255)
tGGCTGAAAGAAAACGCCCCAGGCAGACGACGTATCGTGattat < 1:3422718/44‑1 (MQ=255)
tGGCTGAAAGAAAACGCCCCAGGCAGACGACGTATCGTGattat < 1:152932/44‑1 (MQ=255)
tGGCTGAAAGAAAACGCCCCAGGCAGACGACGTATCGTGattat < 1:3003860/44‑1 (MQ=255)
tGGCTGAAAGAAAACGCCCCAGGCAGACGACGTATCGTGattat < 1:2928773/44‑1 (MQ=255)
tGGCTGAAAGAAAACGCCCCAGGCAGACGACGTATCGTGattat < 1:1949802/44‑1 (MQ=255)
tGGCTGAAAGAAAACGCCCCAGGCAGACGACGTATCGTGattat < 1:2738290/44‑1 (MQ=255)
tGGCTGAAAGAAAACGCCCCAGGCAGACGACGTATCGTGattat < 1:1047542/44‑1 (MQ=255)
gaaagaaaACGCCCCAGGCAGACGACGTATCGTGattat < 1:2723192/39‑1 (MQ=255)
aaagaaaACGCCCCAGGCAGACGACGTATCGTGattat < 1:1740368/38‑1 (MQ=255)
gaaaACGCCCCTGGCAGACGACGTATCGTGATTATtggtctggt < 1:2263585/44‑1 (MQ=255)
gaaaACGCCCCAGGCAGCCGACGTATCGTGATTATTGGTCTGGTCATGCTATTAACTGCAGTGGTAt > 1:318812/1‑67 (MQ=255)
gaaaACGCCCCAGGCAGACGACGTATCGTGattat < 1:979338/35‑1 (MQ=255)
gaaaACGCCCCAGGCAGACGACGTATCGTGattat < 1:886631/35‑1 (MQ=255)
gaaaACGCCCCAGGCAGACGACGTATCGTGATTATTGGTCTGTTCATGCTATTAACTGCAGTGGTAt > 1:1788535/1‑67 (MQ=255)
gaaaACGCCCCAGGCAGACGACGTATCGTGATTATTGGTCTGGTCATGCTATTAACTGCAGTGGTAt > 1:2171357/1‑67 (MQ=255)
gaaaACGCCCCAGGCAGACGACGTATCGTGATTATTGGTCTGGTCATGCTATTAACTGCAGTGGTAt > 1:2429666/1‑67 (MQ=255)
gaaaACGCCCCAGGCAGACGACGTATCGTGATTATTGGTCTGGTCATGCTATTAACTGCAGTGGTAt > 1:456437/1‑67 (MQ=255)
gaaaACGCCCCAGGCAGACGACGTATCGTGATTATTGGTCTGGTCATGCTATTAACTGCAGTGGTAt > 1:1286101/1‑67 (MQ=255)
gaaaACGCCCCAGGCAGACGACGTATCGTGATTATTGGTCTGGTCATGCTATTAACTGCAGTGGTAt > 1:463730/1‑67 (MQ=255)
gaaaACGCCCCAGGCAGACGACGTATCGTGATTATTGGTCTGGTCATGCTATTAACTGCAGTGGTAt > 1:588307/1‑67 (MQ=255)
gaaaACGCCCCAGGCAGACGACGTATCGTGATTATTGGTCTGGTCATGCTATTAACTGCAGTGGTAt > 1:2304721/1‑67 (MQ=255)
gaaaACGCCCCAGGCAGACGACGTATCGTGATTATTGGTCTGGTCATGCTATTAACTGCAGTGGTAt > 1:839511/1‑67 (MQ=255)
gaaaACGCCCCAGGCAGACGACGTATCGTGATTATTGGTCTGGTCATGCTATTAACTGCAGTGGTAt > 1:1136256/1‑67 (MQ=255)
gaaaACGCCCCAGGCAGACGACGTATCGTGATTATTGGTCTGGTCATGCTATTAACTGCAGTGGTAt > 1:1468376/1‑67 (MQ=255)
gaaaACGCCCCAGGCAGACGACGTATCGTGATTATTGGTCTGGTCATGCTATTAACTGCAGTGGTAt > 1:2410227/1‑67 (MQ=255)
gaaaACGCCCCAGGCAGACGACGTATCGTGATTATTGGTCTGGTCATGCTATTAACTGCAGTGGTAt > 1:3362627/1‑67 (MQ=255)
gaaaACGCCCCAGGCAGACGACGTATCGTGATTATTGGTCTGGTCATGCTATTAACTGCAGTGGTAt > 1:2197302/1‑67 (MQ=255)
gaaaACGCCCCAGGCAGACGACGTATCGTGATTATTGGTCTGGTCATGCTATTAACTGCAGTGGTAt > 1:2488713/1‑67 (MQ=255)
gaaaACGCCCCAGGCAGACGACGTATCGTGATTATTGGTCTGGTCATGCTATTAACTGCAGTGGTAt > 1:2563268/1‑67 (MQ=255)
gaaaACGCCCCAGGCAGACGACGTATCGTGATTATTGGTCTGGTCATGCTATTAACTGCAGTGGTAt > 1:2599959/1‑67 (MQ=255)
gaaaACGCCCCAGGCAGACGACGTATCGTGATTATTGGTCTGGTCATGCTATTAACTGCAGTGGTAt > 1:283202/1‑67 (MQ=255)
gaaaACGCCCCAGGCAGACGACGTATCGTGATTATTGGTCTGGTCATGCTATTAACTGCAGTGGTAt > 1:2106642/1‑67 (MQ=255)
gaaaACGCCCCAGGCAGACGACGTATCGTGATTATTGGTCTGGTCATGCTATTAACTGCAGTGGAAt > 1:125169/1‑67 (MQ=255)
aaCGCCCCTGGCAGACGACGTATCGTGATTATTGGTCTGGTCATGCTATTAACTGCAGTGGTATTaa > 1:3373381/1‑67 (MQ=255)
aaCGCCCCTGGCAGACGACGTATCGTGATTATTGGTCTGGTCATGCTATTAACTGCAGTGGTATTaa > 1:3260770/1‑67 (MQ=255)
aaCGCCCCTGGCAGACGACGTATCGTGATTATTGGTCTGGTCATGCTATTAACTGCAGTGGTATTaa > 1:60571/1‑67 (MQ=255)
aaCGACCCTGGCAGACGACGTATCGTGATTATTGGTCTGGTCATGCTATTAACTGCAGTGGTATTaa > 1:2459089/1‑67 (MQ=255)
|
TGTTCACTGCTGGCGATGGGTATGTTGATGCTGAGTTTCTGGCTGAAAGAAAACGCCCCTGGCAGACGACGTATCGTGATTATTGGTCTGGTCATGCTATTAACTGCAGTGGTATTAA > minE/1400484‑1400601
|
| 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
