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 |
1,697,162 |
T→C |
37.2% |
V38V (GTT→GTC) |
yfhR → |
predicted peptidase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,697,162 | 0 | T | C | 37.2%
| 20.5
/ 24.5
| 43 | V38V (GTT→GTC) | yfhR | predicted peptidase |
| Reads supporting (aligned to +/- strand): ref base T (16/11); new base C (8/8); total (24/19) |
| Fisher's exact test for biased strand distribution p-value = 7.52e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.80e-01 |
AAAATTCTGTTTATTCTCTTTGTTGTTGCCTTCTGCGTTTATTTAGTGCCGCGCGTTGCCATCAACTTCTTCTATTATCCCGACGATAAAATTTACGGTCCCGATC > minE/1697106‑1697211
|
aaaaTTCTGTTTATTCTCTTTGTTGTTGCCTTCTGCGTTTATTTAGTGCCGCGCGTCGCCATCaa < 1:1127042/65‑1 (MQ=255)
aaaaTTCTGTTTATTCTCTTTGTTGTTGCCTTCTGCGTTTATTTAGTGCCGCGCGTCGCCATCaa < 1:1189062/65‑1 (MQ=255)
aaaaTTCTGTTTATTCTCTTTGTTGTTGCCTTCTGCGTTTATTTAGTGCCGCGCGTCGCCATCaa < 1:774313/65‑1 (MQ=255)
aaaaTTCTGTTTATTCTCTTTGTTGTTGCCTTCTGCGTTTATTTAGTGCCGCGCGTCGCCATCaa < 1:2837147/65‑1 (MQ=255)
aaaaTTCTGTTTATTCTCTTTGTTGTTGCCTTCTGCGTTTATTTAGTGCCGCGCGTCGCCATCaa < 1:222046/65‑1 (MQ=255)
aaaaTTCTGTTTATTCTCTTTGTTGTTGCCTTCTGCGTTTATTTAGTGCCGCGCGTCGCCATCaa < 1:218374/65‑1 (MQ=255)
aaaaTTCTGTTTATTCTCTTTGTTGTTGCCTTCTGCGTTTATTTAGTGCCGCGCGTCGCCATCaa < 1:2144557/65‑1 (MQ=255)
aaaaTTCTGTTTATTCTCTTTGTTGTTGCCTTCTGCGTTTATTTAGTGCCGCGCGTCGCCATCaa < 1:1972123/65‑1 (MQ=255)
cTGTTTATTCTCTTTGTTGTTGCCTTCTGCGTTTATTTAGTGCCGCGCGTTGCCATCAACTTCTTCtat < 1:983174/69‑1 (MQ=255)
cTGTTTATTCTCTTTGTTGTTGCCTTCTGCGTTTATTTAGTGCCGCGCGTTGCCATCAACTTCTTCtat < 1:2363072/69‑1 (MQ=255)
cTGTTTATTCTCTTTGTTGTTGCCTTCTGCGTTTATTTAGTGCCGCGCGTTGCCATCAACTTCTTCtat < 1:1951036/69‑1 (MQ=255)
cTGTTTATTCTCTTAGTTGTTGCCTTCTGCGTTTATTTAGTGCCGCGCGTTGCCATCAACTTCTTCtat < 1:1912989/69‑1 (MQ=255)
ttCTCTTTGTTGTTGCCTTCTGCGTTTATTTAGTGCCGCGCGTTGCCATCAACTTCTTCTATTATccc < 1:54660/68‑1 (MQ=255)
tgttgttgCCTTCTGCGTTTATTTAGTGCCGCGCGTTGCCATCAACTTCTTCTATTATCCCGACGAt > 1:3118918/1‑67 (MQ=255)
tgttgttgCCTTCTGCGTTTATTTAGTGCCGCGCGTTGCCATCAACTTCTTCTATTATCCCGACGATaa > 1:1888481/1‑69 (MQ=255)
tgttgttgCCTTCTGCGTTTATTTAGTGCCGCGCGTTGCCATCAACTTCTTCTATTATCCCGACGATaa > 1:3036102/1‑69 (MQ=255)
tgttgttgCCTTCTGCGTTTATTTAGTGCCGCGCGTTGCCATCAACTTCTTCTATTATCCCGACGATaa > 1:732831/1‑69 (MQ=255)
tgttgttgCCTTCTGCGTTTATTTAGTGCCGCGCGTTGCCATCAACTTCTTCTATTATCCCGACGATaa > 1:1759636/1‑69 (MQ=255)
tgttgttgCCTTCTGCGTTTATTTAGTGCCGCGCGTTGCCATCAACTTCTTCTATTATCCCGACGATaa > 1:2108990/1‑69 (MQ=255)
tgttgttgCCTTCTGCGTTTATTTAGTGCCGCGCGTTGCCATCAACTTCTTCTATTATCCCGACGATaa > 1:943531/1‑69 (MQ=255)
gttgCCTTCTGCGTTTATTTAGTGCCGGGCGTTGCCATCAACTTCTTCTATTATCCCGACGATAAAAtt > 1:411914/1‑69 (MQ=255)
gttgCCTTCTGCGTTTATTTAGTGCCGCGCGTTGCCATCAACTTCTTCTATTATCCCGACGATAAAAtt > 1:755655/1‑69 (MQ=255)
gttgCCTTCTGCGTTTATTTAGTGCCGCGCGTTGCCATCAACTTCTTCTATTATCCCGACGATAAAAtt > 1:120525/1‑69 (MQ=255)
gttgCCTTCTGCGTTTATTTAGTGCCGCGCGTTGCCATCAACTTCTTCTATTATCCCGACGATAAAAtt > 1:224516/1‑69 (MQ=255)
gttgCCTTCTGCGTTTATTTAGTGCCGCGCGTTGCCATCAACTTCTTCTATTATCCCGACGATAAAAtt > 1:3126520/1‑69 (MQ=255)
tGCGTTTATTTAGTGCCGCGCGTCGCCATCAACTTCTTCTATTATCCTGACGATAAAATATACGGTccc > 1:886833/1‑69 (MQ=255)
tGCGTTTATTTAGTGCCGCGCGTCGCCATCAACTTCTTCTATTATCCTGACGATAAAATATACGGTccc > 1:1109659/1‑69 (MQ=255)
tGCGTTTATTTAGTGCCGCGCGTCGCCATCAACTTCTTCTATTATCCTGACGATAAAATATACGGTccc > 1:2790804/1‑69 (MQ=255)
tGCGTTTATTTAGTGCCGCGCGTCGCCATCAACTTCTTCTATTATCCTGACGATAAAATATACGGTccc > 1:265987/1‑69 (MQ=255)
tGCGTTTATTTAGTGCCGCGCGTCGCCATCAACTTCTTCTATTATCCTGACGATAAAATATACGGTccc > 1:254073/1‑69 (MQ=255)
tGCGTTTATTTAGTGCCGCGCGTCGCCATCAACTTCTTCTATTATCCTGACGATAAAATATACGGTccc > 1:2378316/1‑69 (MQ=255)
tGCGTTTATTTAGTGCCGCGCGTCGCCATCAACTTCTTCTATTATCCTGACGATAAAATATACGGTccc > 1:204537/1‑69 (MQ=255)
tGCGTTTATTTAGTGCCGCGCGTCGCCATCAACTTCTTCTATTATCCTGACGATAAAATATACGGTccc > 1:1966291/1‑69 (MQ=255)
gCGTTTATTTAGTGCCGCGCGTTGCCATCAACttattc > 1:3393775/1‑38 (MQ=255)
gCGTTTATTTAGTGCCGCGCGTTGCCATCAACTtcttct > 1:2351942/1‑39 (MQ=255)
gCGTTTATTTAGTGCCGCGCGTTGCCATCAACTtcttct > 1:1776420/1‑39 (MQ=255)
gCGTTTATTTAGTGCCGCGCGTTGCCATCAACTtcttct > 1:2109870/1‑39 (MQ=255)
tttatttaGTGCCGCGCGTTGCCATCAACTTCTTCTATTATCCCGACGATAAAATTTACGGTCCCg < 1:9612/66‑1 (MQ=255)
tttatttaGTGCCGCGCGTTGCCATCAACTTCTTCTATTATCCCGACGATAAAATTTACGGTCCCGATc < 1:1208331/69‑1 (MQ=255)
tttatttaGTGCCGCGCGTTGCCATCAACTTCTTCTATTATCCCGACGATAAAATTTACGGTCCCGATc < 1:2558498/69‑1 (MQ=255)
tttatttaGTGCCGCGCGTTGCCATCAACTTCTTCTATTATCCCGACGATAAAATTTACGGTCCCGATc < 1:1237241/69‑1 (MQ=255)
tttatttaGTGCCGCGCGTTGCCATCAACTTCTTCTATTATCCCGACGATAAAATTTACGGTCCCGATc < 1:1608336/69‑1 (MQ=255)
tttatttaGTGCCGCGCGTTGCCATCAACTTCTCCTATTATCCCGACGATAAAATTTACGGTCCCGATc < 1:1858538/69‑1 (MQ=255)
|
AAAATTCTGTTTATTCTCTTTGTTGTTGCCTTCTGCGTTTATTTAGTGCCGCGCGTTGCCATCAACTTCTTCTATTATCCCGACGATAAAATTTACGGTCCCGATC > minE/1697106‑1697211
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
