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 |
1,408,853 |
G→A |
56.8% |
S374S (TCG→TCA) |
yejF → |
fused predicted oligopeptide transporter subunits and ATP‑binding components of ABC superfamily |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,408,853 | 0 | G | A | 56.8%
| 16.3
/ 57.3
| 74 | S374S (TCG→TCA) | yejF | fused predicted oligopeptide transporter subunits and ATP‑binding components of ABC superfamily |
| Reads supporting (aligned to +/- strand): ref base G (25/7); new base A (20/22); total (45/29) |
| Fisher's exact test for biased strand distribution p-value = 9.09e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.49e-01 |
ACCTATTCGTCATCGCATTCAGGTGGTATTTCAGGATCCAAACTCCTCGCTCAACCCACGACTCAACGTTTTGCAGATTATTGAGGAAGGCTTACGGGTTCACCAGCCGACGCTT > minE/1408805‑1408919
|
aCCTATTCGTCATCGCATTCAGGTGGTATTTCAGGATCCAAACTCCTCGCTCAACCCACGACTCAACGt < 1:75821/69‑1 (MQ=255)
cGTCATCGCATTCAGGTGGTATTTCAGGATCCAAACTCCTCGCTCAACCCACGACTCAACGTTTTGCAg > 1:825932/1‑69 (MQ=255)
cGTCATCGCATTCAGGTGGTATTTCAGGATCCAAACTCCTCGCTCAACCCACGACTCAACGTTTTGCAg > 1:1273598/1‑69 (MQ=255)
cGTCATCGCATTCAGGTGGTATTTCAGGATCCAAACTCCTCGCTCAACCCACGACTCAACGTTTTGCAg > 1:1739434/1‑69 (MQ=255)
cAGGTGGTATTTCAGGATCCAAACTCCTCGCTCAACCCACGACTCAACGTTTTGCAGATTATTGAgg > 1:587727/1‑67 (MQ=255)
cAGGTGGTATTTCAGGATCCAAACTCCTCGCTCAACCCACGACTCAACGTTTTGCAGATTATTGAGGaa > 1:1427221/1‑69 (MQ=255)
cAGGTGGTATTTCAGGATCCAAACTCCTCGCTCAACCCACGACTCAACGTTTTGCAGATTATTGAGGaa > 1:2044217/1‑69 (MQ=255)
cAGGTGGTATTTCAGGATCCAAACTCCTCGCTCAACCCACGACTCAACGTTTTGCAGATTATTGAGGaa > 1:2300406/1‑69 (MQ=255)
cAGGTGGTATTTCAGGATCCAAACTCCTCGCTCAACCCACGACTCAACGTTTTGCAGATTATTGAGGaa > 1:2348701/1‑69 (MQ=255)
cAGGTGGTATTTCAGGATCCAAACTCCTCGCTCAACCCACGACTCAACGTTTTGCAGATTATTGAGGaa > 1:1832839/1‑69 (MQ=255)
cAGGTGGTATTTCAGGATCCAAACTCCTCGCTCAACCCACGACTCAACGTTTTGCAGATTATTGAGGaa > 1:2508829/1‑69 (MQ=255)
cAGGTGGTATTTCAGGATCCAAACTCCTCGCTCAACCCACGACTCAACGTTTTGCAGATTATTGAGGaa > 1:2772031/1‑69 (MQ=255)
cAGGTGGTATTTCAGGATCCAAACTCCTCGCTCAACCCACGACTCAACGTTTTGCAGATTATTGAGGaa > 1:3170432/1‑69 (MQ=255)
cAGGTGGTATTTCAGGATCCAAACTCCTCGCTCAACCCACGACTCAACGTTTTGCAGATTATTGAGGaa > 1:1410465/1‑69 (MQ=255)
cAGGTGGTATTTCAGGATCCAAACTCCTCGCTCAACCCACGACTCAACGTTTTGCAGATTATTGAGGaa > 1:3257367/1‑69 (MQ=255)
cAGGTGGTATTTCAGGATCCAAACTCCTCGCTCAACCCACGACTCAACGTTTTGCAGATTATTGAGGaa > 1:965942/1‑69 (MQ=255)
tggtATTTCAGGATCCAAACTCCTCGCTCAACCCACGACTCAACGTTTTGCAGATTATTGAGGAAGGCt < 1:883064/69‑1 (MQ=255)
ggtATTTCAGGATCCAAACTCCTCGCTCAACCCACGACTCAACGTTTTGCAGatta > 1:1334037/1‑56 (MQ=255)
ggtATTTCAGGATCCAAACTCCTCGCTCAACCCACGACTCAACGTTTTGCAGATTATTGAgg > 1:3223536/1‑62 (MQ=255)
ggtATTTCAGGATCCAAACTCCTCGCTCAACCCACGACTCAACGTTTTGCAGATTATTGAgg > 1:1062076/1‑62 (MQ=255)
ggtATTTCAGGATCCAAACTCCTCGCTCAACCCACGACTCAACGTTTTGCAGATTATTGAgg > 1:3092460/1‑62 (MQ=255)
ggtATTTCAGGATCCAAACTCCTCGCTCAACCCACGACTCAACGTTTTGCAGATTATTGAgg > 1:3273285/1‑62 (MQ=255)
ggtATTTCAGGATCCAAACTCCTCGCTCAACCCACGACTCAACGTTTTGCAGATTATTGAgg > 1:2474975/1‑62 (MQ=255)
ggtATTTCAGGATCCAAACTCCTCGCTCAACCCACGACTCAACGTTTTGCAGATTATTGAgg > 1:3375834/1‑62 (MQ=255)
ggtATTTCAGGATCCAAACTCCTCGCTCAACCCACGACTCAACGTTTTGCAGATTATTGAgg > 1:1946895/1‑62 (MQ=255)
tCAGGATCCAAACTCCTCGCTCAACCCACGACTCAACGTTTTGCAGATTATTGAGGAAGGCTTACggg > 1:1405789/1‑68 (MQ=255)
tCAGGATCCAAACTCCTCGCTCAACCCACGACTCAACGTTTTGCAGATTATTGAGGAAGGCTTACggg > 1:2759525/1‑68 (MQ=255)
gATCCAAACTCCTCACTCAACCCACGACTCAACGTTTTGc > 1:879497/1‑40 (MQ=255)
gATCCAAACTCCTCACTCAACCCACGACTCAACGTTTTGCaa > 1:1619824/1‑41 (MQ=255)
gATCCAAACTCCTCACTCAACCCACGACTCAACGTTTTGCaa > 1:3348195/1‑41 (MQ=255)
gATCCAAACTCCTCACTCAACCCACGACTCAACGTTTTGCaa > 1:544618/1‑41 (MQ=255)
gATCCAAACTCCTCACTCAACCCACGACTCAACGTTTTGCaa > 1:1437909/1‑41 (MQ=255)
gATCCAAACTCCTCACTCAACCCACGACTCAACGTTTTGCaa > 1:3118334/1‑41 (MQ=255)
gATCCAAACTCCTCACTCAACCCACGACTCAACGTTTTGCaa > 1:653661/1‑41 (MQ=255)
gATCCAAACTCCTCACTCAACCCACGACTCAACGTTTTGCaa > 1:1184858/1‑41 (MQ=255)
gATCCAAACTCCTCACTCAACCCACGACTCAACGTTTTGCaa > 1:2822653/1‑41 (MQ=255)
gATCCAAACTCCTCACTCAACCCACGACTCAACGTTTTGCaa > 1:789781/1‑41 (MQ=255)
gATCCAAACTCCTCACTCAACCCACGACTCAACGTTTTGCaa > 1:1666785/1‑41 (MQ=255)
gATCCAAACTCCTCACTCAACCCACGACTCAACGTTTTGCaa > 1:1986311/1‑41 (MQ=255)
gATCCAAACTCCTCACTCAACCCACGACTCAACGTTTTGCaa > 1:2125/1‑41 (MQ=255)
gATCCAAACTCCTCACTCAACCCACGACTCAACGTTTTGCaa > 1:215192/1‑41 (MQ=255)
gATCCAAACTCCTCACTCAACCCACGACTCAACGTTTTGCaa > 1:2307618/1‑41 (MQ=255)
gATCCAAACTCCTCACTCAACCCACGACTCAACGTTTTGCaa > 1:2400483/1‑41 (MQ=255)
gATCCAAACTCCTCACTCAACCCACGACTCAACGTTTTGCaa > 1:2489099/1‑41 (MQ=255)
gATCCAAACTCCTCACTCAACCCACGACTCAACGTTTTGCa > 1:1437325/1‑41 (MQ=255)
gATCCAAACTCCTCAATCAACCCACGACTCAACGTTTTGCaa > 1:2965504/1‑41 (MQ=38)
gATCCAAACTCCTAACTCAACCCACGACTCAACGTTTTGCaa > 1:2861282/1‑41 (MQ=255)
aaaCTCCTCACTCAACCCACGACTCAACGTTTTGCaa < 1:692188/37‑2 (MQ=39)
aaaCTCCTCACTCAACCCACGACTCAACGTTTTGCaa < 1:831908/37‑2 (MQ=39)
aaaCTCCTCACTCAACCCACGACTCAACGTTTTGCaa < 1:599503/37‑2 (MQ=39)
aaaCTCCTCACTCAACCCACGACTCAACGTTTTGCaa < 1:111358/37‑2 (MQ=39)
aaaCTCCTCACTCAACCCACGACTCAACGTTTTGCaa < 1:1218723/37‑2 (MQ=39)
aaaCTCCTCACTCAACCCACGACTCAACGTTTTGCaa < 1:1003120/37‑2 (MQ=39)
aaaCTCCTCACTCAACCCACGACTCAACGTTTTGCaa < 1:562449/37‑2 (MQ=39)
aaaCTCCTCACTCAACCCACGACTCAACGTTTTGCaa < 1:2026477/37‑2 (MQ=39)
aaaCTCCTCACTCAACCCACGACTCAACGTTTTGCaa < 1:1318819/37‑2 (MQ=39)
aaaCTCCTCACTCAACCCACGACTCAACGTTTTGCaa < 1:1136403/37‑2 (MQ=39)
aaaCTCCTCACTCAACCCACGACTCAACGTTTTGCaa < 1:1399196/37‑2 (MQ=39)
aaaCTCCTCACTCAACCCACGACTCAACGTTTTGCaa < 1:3223607/37‑2 (MQ=39)
aaaCTCCTCACTCAACCCACGACTCAACGTTTTGCaa < 1:3211707/37‑2 (MQ=39)
aaaCTCCTCACTCAACCCACGACTCAACGTTTTGCaa < 1:3125032/37‑2 (MQ=39)
aaaCTCCTCACTCAACCCACGACTCAACGTTTTGCaa < 1:1909784/37‑2 (MQ=39)
aaaCTCCTCACTCAACCCACGACTCAACGTTTTGCaa < 1:1512883/37‑2 (MQ=39)
aaaCTCCTCACTCAACCCACGACTCAACGTTTTGCaa < 1:3016709/37‑2 (MQ=39)
aaaCTCCTCACTCAACCCACGACTCAACGTTTTGCaa < 1:3331712/37‑2 (MQ=39)
aaaCTCCTCACTCAACCCACGACTCAACGTTTTGCaa < 1:2842717/37‑2 (MQ=39)
aaaCTCCTCACTCAACCCACGACTCAACGTTTTGCaa < 1:2590679/37‑2 (MQ=39)
aaaCTCCTCACTCAACCCACGACTCAACGTTTTGCaa < 1:2556835/37‑2 (MQ=39)
aaCTCCTCACTCAACCCACGACTCAACGTTTTGCaa < 1:2849399/36‑2 (MQ=39)
cGCTCAACCCACGACTCAACGTTTTGCAGATTATTGAGGAAGGCTTACGGGTTCACCAGCCGACGCtt < 1:822693/68‑1 (MQ=255)
cGCTCAACCCACGACTCAACGTTTTGCAGATTATTGAGGAAGGCTTACGGGTTCACCAGCCGACGCtt < 1:1860072/68‑1 (MQ=255)
cGCTCAACCCACGACTCAACGTTTTGCAGATTATTGAGGAAGGCTTACGGGTTCACCAGCCGACGCtt < 1:592083/68‑1 (MQ=255)
cGCTCAACCCACGACTCAACGTTTTGCAGATTATTGAGGAAGGCTTACGGGTTCACCAGCCGACGCtt < 1:2199124/68‑1 (MQ=255)
cGCTCAACCCACGACTCAACGTTTTGCAGATTATTGAGGAAGGCTTACGGGTTCACCAGCCGACGCtt < 1:2070539/68‑1 (MQ=255)
|
ACCTATTCGTCATCGCATTCAGGTGGTATTTCAGGATCCAAACTCCTCGCTCAACCCACGACTCAACGTTTTGCAGATTATTGAGGAAGGCTTACGGGTTCACCAGCCGACGCTT > minE/1408805‑1408919
|
| 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
