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 |
2,860,429 |
C→T |
44.7% |
D452D (GAC→GAT) |
mutL → |
methyl‑directed mismatch repair protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,860,429 | 0 | C | T | 44.7%
| 13.2
/ 52.0
| 67 | D452D (GAC→GAT) | mutL | methyl‑directed mismatch repair protein |
| Reads supporting (aligned to +/- strand): ref base C (3/34); new base T (22/8); total (25/42) |
| Fisher's exact test for biased strand distribution p-value = 2.91e-08 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.31e-01 |
TTGGTCGGGTACTGACTATCGTCCATTCCGACTGTGCGTTGCTGGAGCGCGACGGCAACATTTCACTTTTATCCTTGCCAGTGGCAGAACGTTGGCTGCGTCAGGCAC > minE/2860377‑2860484
|
ttGGTCGGGTACTGACTATCGTCCATTCCGACTGTGCGTTGCTTGAGCGCGATGGc > 1:1947663/1‑56 (MQ=255)
ttGGTCGGGTACTGACTATCGTCCATTCCGACTGTGCGTTGCTTGAGCGCGATGGCAACa > 1:1620093/1‑60 (MQ=255)
ttGGTCGGGTACTGACTATCGTCCATTCCGACTGTGCGTTGCTTGAGCGCGATGGCAACa > 1:2128535/1‑60 (MQ=255)
ttGGTCGGGTACTGACTATCGTCCATTCCGACTGTGCGTTGCTTGAGCGCGATGGCAACAt > 1:2303976/1‑61 (MQ=255)
ttGGTCGGGTACTGACTATCGTCCATTCCGACTGTGCGTTGCTTGAGCGCGATGGCAACAt > 1:178659/1‑61 (MQ=255)
ttGGTCGGGTACTGACTATCGTCCATTCCGACTGTGCGTTGCTTGAGCGCGATGGCAACAt > 1:1836082/1‑61 (MQ=255)
ttGGTCGGGTACTGACTATCGTCCATTCCGACTGTGCGTTGCTTGAGCGCGATGGCAACAt > 1:1916601/1‑61 (MQ=255)
ttGGTCGGGTACTGACTATCGTCCATTCCGACTGTGCGTTGCTTGAGCGCGATGGCAACAt > 1:1920778/1‑61 (MQ=255)
ttGGTCGGGTACTGACTATCGTCCATTCCGACTGTGCGTTGCTTGAGCGCGATGGCAACAt > 1:2067972/1‑61 (MQ=255)
ttGGTCGGGTACTGACTATCGTCCATTCCGACTGTGCGTTGCTTGAGCGCGATGGCAACAt > 1:2099653/1‑61 (MQ=255)
ttGGTCGGGTACTGACTATCGTCCATTCCGACTGTGCGTTGCTTGAGCGCGATGGCAACAt > 1:1077786/1‑61 (MQ=255)
ttGGTCGGGTACTGACTATCGTCCATTCCGACTGTGCGTTGCTTGAGCGCGATGGCAACAt > 1:2597839/1‑61 (MQ=255)
ttGGTCGGGTACTGACTATCGTCCATTCCGACTGTGCGTTGCTTGAGCGCGATGGCAACAt > 1:2920261/1‑61 (MQ=255)
ttGGTCGGGTACTGACTATCGTCCATTCCGACTGTGCGTTGCTTGAGCGCGATGGCAACAt > 1:3127185/1‑61 (MQ=255)
ttGGTCGGGTACTGACTATCGTCCATTCCGACTGTGCGTTGCTTGAGCGCGATGGCAACAt > 1:3138428/1‑61 (MQ=255)
ttGGTCGGGTACTGACTATCGTCCATTCCGACTGTGCGTTGCTTGAGCGCGATGGCAACAt > 1:3316540/1‑61 (MQ=255)
ttGGTCGGGTACTGACTATCGTCCATTCCGACTGTGCGTTGCTTGAGCGCGATGGCAACAt > 1:545512/1‑61 (MQ=255)
ttGGTCGGGTACTGACTATCGTCCATTCCGACTGTGCGTTGCTTGAGCGCGATGGCAACAt > 1:617553/1‑61 (MQ=255)
ttGGTCGGGTACTGACTATCGTCCATTCCGACTGTGCGTTGCTTGAGCGCGATGGCAACAt > 1:858870/1‑61 (MQ=255)
ttGGTCGGGTACTGACTATCGTCCATTCCGACTGTGCGTTGCTTGAGCGCGATGGCAACAt > 1:1657237/1‑61 (MQ=255)
ttGGTCGGGTACTGACTATCGTCCATTCCGACTGTGCGTTGCTTGAGCGCGATGGCAACAt > 1:1196012/1‑61 (MQ=255)
ttGGTCGGGTACTGACTATCGTCCATTCCGACTGTGCGTTGCTTGAGCGCGATGGCAACAt > 1:1611910/1‑61 (MQ=255)
gTCGGGTACTGACTATCGTCCATTCCGACTGTGCGTTGCTGGAGCGCGACGGCAACATTTCACtttt < 1:1698779/67‑1 (MQ=255)
tCGGGTACTGACTATCGTCCATTCCGACTGTGCGTTGCTGGAGCGCGACGGCAACATTTCACTTTTAt < 1:1249398/68‑1 (MQ=255)
tCGGGTACTGACTATCGTCCATTCCGACTGTGCGTTGCTGGAGCGCGACGGCAACATTTCACTTTTAt < 1:2209277/68‑1 (MQ=255)
tCGGGTACTGACTATCGTCCATTCCGACTGTGCGTTGCTGGAGCGCGACGGCAACATTTCACTTTTAt < 1:658208/68‑1 (MQ=255)
tCGGGTACTGACTATCGTCCATTCCGACTGTGCGTTGCTGGAGCGCGACGGCAACATTTCACTTTTAt < 1:3224927/68‑1 (MQ=255)
tACTGACTATCGTCCATTCCGACTGTGCGTTGCTTGAGCGCGATGGCAACATTTCACTTTTATCCTTGc < 1:1560742/69‑1 (MQ=255)
tACTGACTATCGTCCATTCCGACTGTGCGTTGCTTGAGCGCGATGGCAACATTTCACTTTTATCCTTGc < 1:3129408/69‑1 (MQ=255)
tACTGACTATCGTCCATTCCGACTGTGCGTTGCTTGAGCGCGATGGCAACATTTCACTTTTATCCTTGc < 1:1099131/69‑1 (MQ=255)
tACTGACTATCGTCCATTCCGACTGTGCGTTGCTTGAGCGCGATGGCAACATTTCACTTTTATCCTTGc < 1:1593080/69‑1 (MQ=255)
tACTGACTATCGTCCATTCCGACTGTGCGTTGCTTGAGCGCGATGGCAACATTTCACTTTTATCCTTGc < 1:2351107/69‑1 (MQ=255)
tACTGACTATCGTCCATTCCGACTGTGCGTTGCTTGAGCGCGATGGCAACATTTCACTTTTATCCTTGc < 1:2294070/69‑1 (MQ=255)
tACTGACTATCGTCCATTCCGACTGTGCGTTGCTGGAGCGCGACGGCAACATTTCACTTTTATCCTTGc < 1:484351/69‑1 (MQ=255)
tACTGACTATCGTCCATTCCGACTGTGCGTTGCTGGAGCGCGACGGCAACATTTCACTTTTATCCTTGc < 1:538611/69‑1 (MQ=255)
tACTGACTATCGTCCATTCCGACTGTGCGTTGCTGGAGCGCGACGGCAACATTTCACTTTTATCCTTGc < 1:640577/69‑1 (MQ=255)
tACTGACTATCGTCCATTCCGACTGTGCGTTGCTGGAGCGCGACGGCAACATTTCACTTTTATCCTTGc < 1:3327439/69‑1 (MQ=255)
tACTGACTATCGTCCATTCCGACTGTGCGTTGCTGGAGCGCGACGGCAACATTTCACTTTTATCCTTGc < 1:1849690/69‑1 (MQ=255)
tACTGACTATCGTCCATTCCGACTGTGCGTTGCTGGAGCGCGACGGCAACATTTCACTTTTATCCTTGc < 1:206960/69‑1 (MQ=255)
tACTGACTATCGTCCATTCCGACTGTGCGTTGCTGGAGCGCGACGGCAACATTTCACTTTTATCCTTGc < 1:682065/69‑1 (MQ=255)
aCTGACTATCGTCCATTCCGACTGTGCGTTGCTGGAGCGCGACGGCAACATTTCACTTTTATCCTTGcc > 1:2159661/1‑69 (MQ=255)
ccATTCCGACTGTGCGTTGCTGGAGCGCGACGGCAACATTTCACTTTTATCCTTGCCAGTGGCAGAAc < 1:1454079/68‑1 (MQ=255)
ttCCGACTGTCCGTTCTTGGAGCGCGACGGCAACAATTCACTTTTATCCTTGc < 1:1558319/53‑1 (MQ=255)
tCCGACTGTGCGTTGCTTGAGCGCGATGGCAACATTTCACTTTTATCCTTGc < 1:865534/52‑1 (MQ=255)
ccGACTGTGCGTTGCTGGAGCGCGACGGCAACATTTCACTTTTATc < 1:598319/46‑1 (MQ=255)
ccGACTGTGCGTTGCTGGAGCGCGACGGCAACATTTCACTTTTATc < 1:537392/46‑1 (MQ=255)
ccGACTGTGCGTTGCTGGAGCGCGACGGCAACATTTCACTTTTATc < 1:494510/46‑1 (MQ=255)
ccGACTGTGCGTTGCTGGAGCGCGACGGCAACATTTCACTTTTATc < 1:493841/46‑1 (MQ=255)
ccGACTGTGCGTTGCTGGAGCGCGACGGCAACATTTCACTTTTATc < 1:70436/46‑1 (MQ=255)
ccGACTGTGCGTTGCTGGAGCGCGACGGCAACATTTCACTTTTATc < 1:1023358/46‑1 (MQ=255)
ccGACTGTGCGTTGCTGGAGCGCGACGGCAACATTTCACTTTTATc < 1:928653/46‑1 (MQ=255)
ccGACTGTGCGTTGCTGGAGCGCGACGGCAACATTTCACTTTTATc < 1:3309405/46‑1 (MQ=255)
ccGACTGTGCGTTGCTGGAGCGCGACGGCAACATTTCACTTTTATc < 1:1202238/46‑1 (MQ=255)
ccGACTGTGCGTTGCTGGAGCGCGACGGCAACATTTCACTTTTATc < 1:2980272/46‑1 (MQ=255)
ccGACTGTGCGTTGCTGGAGCGCGACGGCAACATTTCACTTTTATc < 1:120397/46‑1 (MQ=255)
ccGACTGTGCGTTGCTGGAGCGCGACGGCAACATTTCACTTTTATc < 1:2479329/46‑1 (MQ=255)
ccGACTGTGCGTTGCTGGAGCGCGACGGCAACATTTCACTTTTATc < 1:2472657/46‑1 (MQ=255)
ccGACTGTGCGTTGCTGGAGCGCGACGGCAACATTTCACTTTTATc < 1:1937381/46‑1 (MQ=255)
ccGACTGTGCGTTGCTGGAGCGCGACGGCAACATTTCACTTTTATc < 1:1571837/46‑1 (MQ=255)
ccGACTGTGCGTTGCTGGAGCGCGACGGCAACATTTCACTTTTATc < 1:1900866/46‑1 (MQ=255)
ccGACTGTGCGTTGCTGGAGCGCGACGGCAACATTTCACTTTTATc < 1:1895417/46‑1 (MQ=255)
ccGACTGTGCGTTGCTGGAGCGCGACGGCAACATTTCACTTTTATCCTTGCCAGTGGCAGAACGTTgg > 1:3048764/1‑68 (MQ=255)
ccGACTGTGCGTTGCTGGAGCGCGACGGCAACATTTCACTTTTATCCTTGCCAGTGGCAGAACGTTGGc > 1:2009470/1‑69 (MQ=255)
cGACTGTGCGTTGCTGGAGCGCGACGGCAACATTTCACTTTTATc < 1:1168025/45‑1 (MQ=255)
gCGTTGCTTGAGCGCGATGGCAACATTTCACTTTTATCCTTGc < 1:1237948/43‑1 (MQ=38)
gTTGCTGGAGCGCGACGTCAACATTTCACTTTTATCCTTGCCAGTGGCAGAAc < 1:1558147/53‑1 (MQ=255)
ggAGCGCGACGGCAACATTTCACTTTTATCCTTGCCAGTGGCAGAACGTTGGCTGCGTCAGGcac < 1:1203891/65‑1 (MQ=255)
|
TTGGTCGGGTACTGACTATCGTCCATTCCGACTGTGCGTTGCTGGAGCGCGACGGCAACATTTCACTTTTATCCTTGCCAGTGGCAGAACGTTGGCTGCGTCAGGCAC > minE/2860377‑2860484
|
| 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
