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 |
389,175 |
T→G |
45.7% |
V231V (GTT→GTG) |
ybdL → |
methionine aminotransferase, PLP‑dependent |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 389,175 | 0 | T | G | 45.7%
| ‑3.3
/ 51.5
| 46 | V231V (GTT→GTG) | ybdL | methionine aminotransferase, PLP‑dependent |
| Reads supporting (aligned to +/- strand): ref base T (13/12); new base G (7/14); total (20/26) |
| Fisher's exact test for biased strand distribution p-value = 2.44e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.64e-01 |
CAGGGCCATGCCAGTGTGCTGGCGCATCCGCAGCTGCGTGAGCGGGCAGTGGCGGTTTCTTCATTTGGCAAGACCTATCATATGACCGGCTGGAAAGTGGGTTATTGTGTTGCGCCAGCGCCC > minE/389119‑389241
|
caGGGCCATGCCAGTGTGCTGGCGCATCCGCAGCTGCGTGAGCGGGCAGTGGCGGTTTCTTCATTTGGc < 1:3085969/69‑1 (MQ=255)
caGGGCCATGCCAGTGTGCTGGCGCATCCGCAGCTGCGTGAGCGGGCAGTGGCGGTTTCTTCATTTGGc < 1:225380/69‑1 (MQ=255)
gCCATGCCAGTGTGCTGGCGCATCCGCAGCTGCGTGAGCGGGCAGTGGCGGTTTCTTCATTTGGCAAGa > 1:2313353/1‑69 (MQ=255)
cATGCCAGTGTTCTGGCGCATCCGCAGCTGCGTGAGCGGTCAGTGGCGGTTTCTTCATTTGGCAAGAcc < 1:1129021/69‑1 (MQ=255)
cATGCCAGTGTGCTGGCGCATCCGCAGCTGCGTGAGCGGGCAGTGGCGGTTTCTTCATTTGGCAAGAcc < 1:3338323/69‑1 (MQ=255)
cATGCCAGTGTGCTGGCGCATCCGCAGCTGCGTGAGCGGGCAGTGGCGGTTTCTTCATTTGGCAAGAcc < 1:338402/69‑1 (MQ=255)
aTGCCAGTGTGCTGGCGCATCCGCAGCTGCGTGAGCGGGCAGTGGCGGTTTCTTCATTTGGCAAGAcc < 1:2296395/68‑1 (MQ=255)
gtgCTGGCGCATCCGCAATTGCGTGAGCGAGCGGTGGCGGTGTCATCGTTTGGCAAGACCTATCATATg < 1:1439648/69‑1 (MQ=255)
gtgCTGGCGCATCCGCAATTGCGTGAGCGAGCGGTGGCGGTGTCATCGTTTGGCAAGACCTATCATATg < 1:3175842/69‑1 (MQ=255)
gtgCTGGCGCATCCGCAATTGCGTGAGCGAGCGGTGGCGGTGTCATCGTTTGGCAAGACCTATCATATg < 1:3098355/69‑1 (MQ=255)
gtgCTGGCGCATCCGCAATTGCGTGAGCGAGCGGTGGCGGTGTCATCGTTTGGCAAGACCTATCATATg < 1:1265173/69‑1 (MQ=255)
gtgCTGGCGCATCCGCAATTGCGTGAGCGAGCGGTGGCGGTGTCATCGTTTGGCAAGACCTATCATATg < 1:2823280/69‑1 (MQ=255)
gtgCTGGCGCATCCGCAATTGCGTGAGCGAGCGGTGGCGGTGTCATCGTTTGGCAAGACCTATCATATg < 1:391184/69‑1 (MQ=255)
gtgCTGGCGCATCCGCAATTGCGTGAGCGAGCGGTGGCGGTGTCATCGTTTGGCAAGACCTATCATATg < 1:2330389/69‑1 (MQ=255)
gtgCTGGCGCATCCGCAATTGCGTGAGCGAGCGGTGGCGGTGTCATCGTTTGGCAAGACCTATCATATg < 1:605961/69‑1 (MQ=255)
gtgCTGGCGCATCCGCAATTGCGTGAGCGAGCGGTGGCGGTGTCATCGTTTGGCAAGACCTATCATATg < 1:1890535/69‑1 (MQ=255)
gtgCTGGCGCATCCGCAATTGCGTGAGCGAGCGGTGGCGGTGTCATCGTTTGGCAAGACCTATCATATg < 1:1756766/69‑1 (MQ=255)
gtgCTGGCGCATCCGCAATTGCGTGAGCGAGCGGTGGCGGTGTCATCGTTTGGCAAGACCTATCATATg < 1:325763/69‑1 (MQ=255)
gtgCTGGCGCATCCGCAATTGCGTGAGCGAGCGGTGGCGGTGTCATCGTTTGGCAAGACCTATCATATg < 1:682184/69‑1 (MQ=255)
gtgCTGGCGCATCCGCAATTGCGTGAGCGAGCGGTGGCGGTGTCATCGTTTGGCAAGACCTATCATATg < 1:1500850/69‑1 (MQ=255)
gtgCTGGCGCATCCGCAATTGCGTCAGCGAGCGGTGGCGGTGTCATCGTTTGGCAAGACCTATCATATg < 1:1932213/69‑1 (MQ=255)
tgCTGGCGCATCCGCAGCTGCGTGAGCGGGCAGTGGCGGTTTCTTCAtt > 1:2859832/1‑49 (MQ=255)
tgCTGGCGCATCCGCAGCTGCGTGAGCGGGCAGTGGCGGTTTCTTCATTTGGCAAGAcc < 1:3340606/59‑1 (MQ=255)
tgCTGGCGCATCCGCAGCTGCGTGAGCGGGCAGTGGCGGTTTCTTCATTTGGCAAGAcc < 1:1471997/59‑1 (MQ=255)
tgCTGGCGCATCCGCAGCTGCGTGAGCGGGCAGTGGCGGTTTCTTCATTTGGCAAGACCTATCat > 1:967852/1‑65 (MQ=255)
tgCTGGCGCATCCGCAGCTGCGTGAGCGGGCAGTGGCGGTTTCTTCATTTGGCAAGACCTATCat < 1:1509782/65‑1 (MQ=255)
tgCTGGCGCATCCGCAGCTGCGTGAGCGGGCAGTGGCGGTTTCTTCATTTGGCAAGACCTATCat > 1:2703159/1‑65 (MQ=255)
tgCTGGCGCATCCGCAGCTGCGTGAGCGGGCAGTGGCGGTTTCTTCATTTGGCAAGACCTATCATATGa > 1:137912/1‑69 (MQ=255)
tgCTGGCGCATCCGCAGCTGCGTGAGCCGGCAGTGGCGGTTTCTTCATTTGGCAAGACCTATCat > 1:488446/1‑65 (MQ=255)
gCTGCGTGAGCGGGCAGTGGCGGTTTCTTCATTTGGCAAGACCTATCATATGACCGGCTGGAAAGTgg > 1:1607110/1‑68 (MQ=255)
gCTGCGTGAGCGGGCAGTGGCGGTTTCTTCATTTGGCAAGACCTATCATATGACCGGCTGGAAAGTgg > 1:1847565/1‑68 (MQ=255)
gCTGCGTGAGCGGGCAGTGGCGGTTTCTTCATTTGGCAAGACCTATCATATGACCGGCTGGAAAGTgg > 1:1276176/1‑68 (MQ=255)
gCTGCGTGAGCGGGCAGTGGCGGTTTCTTCATTTGGCAAGACCTATCATATGACCGGCTGGAAAGTgg > 1:420974/1‑68 (MQ=255)
gCTGCGTGAGCGGGCAGTGGCGGTTTCTTCATTTGGCAAGACCTATCATATGACCGGCTGGAAAGTgg > 1:615155/1‑68 (MQ=255)
aGCGGGCAGTGGCGGTTTCTTCATTTGGCAAGACCTATCATATGACCGGCTGGAAAGTGGGTTATtgtg > 1:2753837/1‑69 (MQ=255)
ggCAGTGGCGGTTTCTTCATTTGGCAAGACCTATCATATGACCGGCTGGAAAGTGGGTTATTGTGTTgc < 1:1114604/69‑1 (MQ=255)
ggCAGTGGCGGTTTCTTCATTTGGCAAGACCTATCATATGACCGGCTGGAAAGTGGGTTATTGTGTTgc < 1:3221641/69‑1 (MQ=255)
gCAGTGGCGGTTTCTTCATTTGGCAAGACCTATCATATGACCGGCTGGAAAGTGGGTTATTGTGTTgc < 1:3430252/68‑1 (MQ=255)
gCGGTTTCTTCATTTGGCAAGACCTATCATATGACCGGCTGGAAAGTGGGTTATTGTGTTGCGCCAgcg > 1:1339321/1‑69 (MQ=255)
ggTGTCATCGTTTGGCAAGACCTATCATATGACCGGCTGGAAAGTgg > 1:3010036/1‑47 (MQ=255)
ggTGTCATCGTTTGGCAAGACCTATCATATGACCGGCTGGAAAGTGGGTTATTGCGTtgcgcctgcgcc > 1:799519/1‑69 (MQ=255)
ggTGTCATCGTTTGGCAAGACCTATCATATGACCGGCTGGAAAGTGGGTTATTGCGTtgcgcctgcgcc > 1:2809399/1‑69 (MQ=255)
ggTGTCATCGTTTGGCAAGACCTATCATATGACCGGCTGGAAAGTGGGTTATTGCGTtgcgcctgcgcc > 1:3142824/1‑69 (MQ=255)
ggTGTCATCGTTTGGCAAGACCTATCATATGACCGGCTGGAAAGTGGGTTATTGCGTtgcgcctgcgcc > 1:1683570/1‑69 (MQ=255)
ggTGTCATCGTTTGGCAAGACCTATCATATGACCGGCTGGAAAGTGGGTTATTGCGTtgcgcctgcgcc > 1:1982728/1‑69 (MQ=255)
ggTGTCATCGTTTGGCAAGACCTATCATATGACCGGCTGGAAAGTGGGTTATTGCGTtgcgcctgcgcc > 1:3303420/1‑69 (MQ=255)
tttCTTCATTTGGCAAGACCTATCATATGACCGGCTGGAAAGTGGGTTATTGTGTTGCGCCAGCGccc > 1:2011179/1‑68 (MQ=255)
tttCTTCATTTGGCAAGACCTATCATATGACCGGCTGGAAAGTGGGTTATTGTGTTGCGCCAGCGccc > 1:97426/1‑68 (MQ=255)
tttCTTCATTTGGCAAGACCTATCATATGACCGGCTGGAAAGTGGGTTATTGTGTTGCGCCAGCGccc > 1:971379/1‑68 (MQ=255)
tttCTTCATTTGGCAAGACCTATCATATGACCGGCTGGAAAGTGGGTTATTGTGTTGCGCCAGCGccc > 1:1491399/1‑68 (MQ=255)
tttCTTCATTTGGCAAGACCTATCATATGACCGGCTGGAAAGTGGGTTATTGTGTTGCGCCAGCGccc > 1:48634/1‑68 (MQ=255)
tttCTTCATTTGGCAAGACCTATCATATGACCGGCTGGAAAGTGGGTTATTGTGTTGCGCCAGCGccc > 1:210468/1‑68 (MQ=255)
tttCTTCATTTGGCAAGACCTATCATATGACCGGCTGGAAAGTGGGTTATTGTGTTGCGCCAGCGccc > 1:3388225/1‑68 (MQ=255)
tttCTTCATTTGGCAAGACCTATCATATGACCGGCTGGAAAGTGGGTTATTGTGTTGCGCCAGCGccc > 1:3259853/1‑68 (MQ=255)
ttcttcATTTGGCAAGACCTATCATATGACCGGCTGGAAAGTGGGTTATTGTGTTGCGCCAGCGccc > 1:516525/1‑67 (MQ=255)
ttcttcATTTGGCAAGACCTATCATATGACCGGCTGGAAAGTGGGTTATTGTGTTGCGCCAGCGccc > 1:2547129/1‑67 (MQ=255)
ttcttcATTTGGCAAGACCTATCATATGACCGGCTGGAAAGTGGGTTATTGTGTTGCGCCAGCGccc > 1:2637388/1‑67 (MQ=255)
ttcttcATTTGGCAAGACCTATCATATGACCGGCTGGAAAGTGGGTTATTGTGTTGCGCCAGCGccc > 1:1470549/1‑67 (MQ=255)
ttcttcATTTGGCAAGACCTATCATATGACCGGCTGGAAAGTGGGTTATTGTGTTGCGCCAGCGccc > 1:1386122/1‑67 (MQ=255)
ttcttcATTTGGCAAGACCTATCATATGACCGGCTGGAAAGTGGGTTATTGTGTTGCGCCAGCGccc > 1:282809/1‑67 (MQ=255)
|
CAGGGCCATGCCAGTGTGCTGGCGCATCCGCAGCTGCGTGAGCGGGCAGTGGCGGTTTCTTCATTTGGCAAGACCTATCATATGACCGGCTGGAAAGTGGGTTATTGTGTTGCGCCAGCGCCC > minE/389119‑389241
|
| 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
