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 |
466,055 |
A→T |
62.5% |
M299L (ATG→TTG) |
sucA → |
2‑oxoglutarate decarboxylase, thiamin‑requiring |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 466,055 | 0 | A | T | 62.5%
| 26.5
/ 32.5
| 40 | M299L (ATG→TTG) | sucA | 2‑oxoglutarate decarboxylase, thiamin‑requiring |
| Reads supporting (aligned to +/- strand): ref base A (9/6); new base T (9/16); total (18/22) |
| Fisher's exact test for biased strand distribution p-value = 1.94e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.97e-01 |
TGTTCGACGAGTTCGCCGGTAAACATAAAGAACACCTCGGCACGGGTGACGTGAAATACCACATGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTGCACCTGGCGCTGGCGTTTAACCC > minE/465993‑466119
|
tGTTCGACGAGTTCGCCGGTAAACATAAAGAACACCTCGGCACGGGTGACGTGAAATACCACATGGGCt > 1:2731412/1‑69 (MQ=255)
tgCCGGTAAACATAAAGAACACCTCGGCACGGGCGACGTGAAATACCACTTGGGCTTCTCGTCTGACtt < 1:1040075/68‑1 (MQ=255)
tgCCGGTAAACATAAAGAACACCTCGGCACGGGCGACGTGAAATACCACTTGGGCTTCTCGTCTGACtt < 1:811839/68‑1 (MQ=255)
tgCCGGTAAACATAAAGAACACCTCGGCACGGGCGACGTGAAATACCACTTGGGCTTCTCGTCTGACtt < 1:365473/68‑1 (MQ=255)
tgCCGGTAAACATAAAGAACACCTCGGCACGGGCGACGTGAAATACCACTTGGGCTTCTCGTCTGACtt < 1:340705/68‑1 (MQ=255)
tgCCGGTAAACATAAAGAACACCTCGGCACGGGCGACGTGAAATACCACTTGGGCTTCTCGTCTGACtt < 1:3163622/68‑1 (MQ=255)
tgCCGGTAAACATAAAGAACACCTCGGCACGGGCGACGTGAAATACCACTTGGGCTTCTCGTCTGACtt < 1:2678317/68‑1 (MQ=255)
tgCCGGTAAACATAAAGAACACCTCGGCACGGGCGACGTGAAATACCACTTGGGCTTCTCGTCTGACtt < 1:2607510/68‑1 (MQ=255)
tgCCGGTAAACATAAAGAACACCTCGGCACGGGCGACGTGAAATACCACTTGGGCTTCTCGTCTGACtt < 1:2025492/68‑1 (MQ=255)
tgCCGGTAAACATAAAGAACACCTCGGCACGGGCGACGTGAAATACCACTTGGGCTTCTCGTCTGACtt < 1:1956525/68‑1 (MQ=255)
tgCCGGTAAACATAAAGAACACCTCGGCACGGGCGACGTGAAATACCACTTGGGCTTCTCGTCTGACtt < 1:1919650/68‑1 (MQ=255)
tgCCGGTAAACATAAAGAACACCTCGGCACGGGCGACGTGAAATACCACTTGGGCTTCTCGTCTGACtt < 1:1823330/68‑1 (MQ=255)
tgCCGGTAAACATAAAGAACACCTCGGCACGGGCGACGTGAAATACCACTTGGGCTTCTCGTCTGACtt < 1:1124570/68‑1 (MQ=255)
tgCCGGTAAACATAAAGAACACCTCGGCACGGGCGACGTGAAATACCACTTGGGCTTCTCGTCTGACtt < 1:1588972/68‑1 (MQ=255)
tgCCGGTAAACATAAAGAACACCTCGGCACGGGCGACGTGAAATACCACTTGGGCTTCTCGTCTGACtt < 1:1439760/68‑1 (MQ=255)
gTAAACATAAAGAACACCTCGGCACGGGCGACGTGAAATACCACTTGGGCTTCTCGTCTGACtt < 1:518559/64‑1 (MQ=255)
aaGAACACCTCGGCACGGGCGACGTGAAATACCACTTGGGCTTCTCGTCTGACtt < 1:508240/55‑1 (MQ=255)
tCGGCACGGGTGACGTGAAATACCACATGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTGc < 1:1016058/69‑1 (MQ=255)
tCGGCACGGGTGACGTGAAATACCACATGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTGc < 1:2305876/69‑1 (MQ=255)
tCGGCACGGGTGACGTGAAATACCACATGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTGc < 1:2398799/69‑1 (MQ=255)
tCGGCACGGGTGACGTGAAATACCACATGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTGc < 1:1817537/69‑1 (MQ=255)
cGGCACGGGTGACGTGAAATACCACATGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTGc < 1:2850615/68‑1 (MQ=255)
cGGCACGGGTGACGTGAAATACCACATGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTGc < 1:1134021/68‑1 (MQ=255)
cGTGAAATACCACTTGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTTCACctggcgctggc > 1:1592980/1‑69 (MQ=255)
cGTGAAATACCACTTGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTTCACctggcgctggc > 1:18899/1‑69 (MQ=255)
cGTGAAATACCACTTGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTTCACctggcgctggc > 1:777993/1‑69 (MQ=255)
cGTGAAATACCACTTGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTTCACctggcgctggc > 1:725054/1‑69 (MQ=255)
cGTGAAATACCACTTGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTTCACctggcgctggc > 1:1678536/1‑69 (MQ=255)
cGTGAAATACCACTTGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTTCACctggcgctggc > 1:452163/1‑69 (MQ=255)
cGTGAAATACCACTTGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTTCACctggcgctggc > 1:431662/1‑69 (MQ=255)
cGTGAAATACCACTTGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTTCACctggcgctggc > 1:1172232/1‑69 (MQ=255)
cGTGAAATACCACTTGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTTCACctggcgctggc > 1:3043312/1‑69 (MQ=255)
gTGAAATACCACATGGGCTTCTCGTCTGACTTCCAGACCGCTGGCGGCCTGGTGCACctggcgctggcg > 1:2721677/1‑69 (MQ=255)
gTGAAATACCACATGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTGCACctggcgctggcg > 1:2199556/1‑69 (MQ=255)
gTGAAATACCACATGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTGCACctggcgctggcg > 1:2609439/1‑69 (MQ=255)
gTGAAATACCACATGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTGCACctggcgctggcg > 1:1713100/1‑69 (MQ=255)
ccACATGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTGCACCTGGCGCTGGCGTTTAAccc > 1:420028/1‑69 (MQ=255)
ccACATGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTGCACCTGGCGCTGGCGTTTAAccc > 1:3264609/1‑69 (MQ=255)
ccACATGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTGCACCTGGCGCTGGCGTTTAAccc > 1:2507961/1‑69 (MQ=255)
ccACATGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTGCACCTGGCGCTGGCGTTTAAccc > 1:1210865/1‑69 (MQ=255)
|
TGTTCGACGAGTTCGCCGGTAAACATAAAGAACACCTCGGCACGGGTGACGTGAAATACCACATGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTGCACCTGGCGCTGGCGTTTAACCC > minE/465993‑466119
|
| 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
