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 |
1,017,067 |
A→G |
71.6% |
A267A (GCA→GCG) |
manA → |
mannose‑6‑phosphate isomerase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,017,067 | 0 | A | G | 71.6%
| 57.5
/ 21.1
| 56 | A267A (GCA→GCG) | manA | mannose‑6‑phosphate isomerase |
| Reads supporting (aligned to +/- strand): ref base A (2/14); new base G (27/13); total (29/27) |
| Fisher's exact test for biased strand distribution p-value = 2.60e-04 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.98e-01 |
TGAAACACCGCACGCTTACCTGCAAGGCGTGGCGCTGGAAGTGATGGCAAACTCCGATAACGTGCTGCGTGCGGGTCTGACGCCTAAATACATTGA > minE/1017019‑1017114
|
tGAAACACCGCACGCTTACCTGCAAGGCGTGGCGCTGGAAGTGATGGCGAACTCCGATAACGtgctgc > 1:827285/1‑68 (MQ=255)
tGAAACACCGCACGCTTACCTGCAAGGCGTGGCGCTGGAAGTGATGGCGAACTCCGATAACGtgctgc > 1:2948451/1‑68 (MQ=255)
tGAAACACCGCACGCTTACCTGCAAGGCGTGGCGCTGGAAGTGATGGCGAACTCCGATAACGTGCtgcg < 1:3220009/69‑1 (MQ=255)
tGAAACACCGCACGCTTACCTGCAAGGCGTGGCGCTGGAAGTGATGGCGAACTCCGATAACGTGCtgcg > 1:2287138/1‑69 (MQ=255)
tGAAACACCGCACGCTTACCTGCAAGGCGTGGCGCTGGAAGTGATGGCGAACTCCGATAACGTGCtgcg < 1:2372813/69‑1 (MQ=255)
tGAAACACCGCACGCTTACCTGCAAGGCGTGGCGCTGGAAGTGATGGCGAACTCCGATAACGTGCtgcg < 1:2387420/69‑1 (MQ=255)
tGAAACACCGCACGCTTACCTGCAAGGCGTGGCGCTGGAAGTGATGGCGAACTCCGATAACGTGCtgcg > 1:2544982/1‑69 (MQ=255)
tGAAACACCGCACGCTTACCTGCAAGGCGTGGCGCTGGAAGTGATGGCGAACTCCGATAACGTGCtgcg > 1:254884/1‑69 (MQ=255)
tGAAACACCGCACGCTTACCTGCAAGGCGTGGCGCTGGAAGTGATGGCGAACTCCGATAACGTGCtgcg < 1:2692821/69‑1 (MQ=255)
tGAAACACCGCACGCTTACCTGCAAGGCGTGGCGCTGGAAGTGATGGCGAACTCCGATAACGTGCtgcg < 1:2887910/69‑1 (MQ=255)
tGAAACACCGCACGCTTACCTGCAAGGCGTGGCGCTGGAAGTGATGGCGAACTCCGATAACGTGCtgcg > 1:2907962/1‑69 (MQ=255)
tGAAACACCGCACGCTTACCTGCAAGGCGTGGCGCTGGAAGTGATGGCGAACTCCGATAACGTGCtgcg > 1:2992695/1‑69 (MQ=255)
tGAAACACCGCACGCTTACCTGCAAGGCGTGGCGCTGGAAGTGATGGCGAACTCCGATAACGTGCtgcg > 1:300387/1‑69 (MQ=255)
tGAAACACCGCACGCTTACCTGCAAGGCGTGGCGCTGGAAGTGATGGCGAACTCCGATAACGTGCtgcg < 1:3189809/69‑1 (MQ=255)
tGAAACACCGCACGCTTACCTGCAAGGCGTGGCGCTGGAAGTGATGGCGAACTCCGATAACGTGCtgcg > 1:1073844/1‑69 (MQ=255)
tGAAACACCGCACGCTTACCTGCAAGGCGTGGCGCTGGAAGTGATGGCGAACTCCGATAACGTGCtgcg < 1:3223978/69‑1 (MQ=255)
tGAAACACCGCACGCTTACCTGCAAGGCGTGGCGCTGGAAGTGATGGCGAACTCCGATAACGTGCtgcg < 1:335846/69‑1 (MQ=255)
tGAAACACCGCACGCTTACCTGCAAGGCGTGGCGCTGGAAGTGATGGCGAACTCCGATAACGTGCtgcg > 1:3373618/1‑69 (MQ=255)
tGAAACACCGCACGCTTACCTGCAAGGCGTGGCGCTGGAAGTGATGGCGAACTCCGATAACGTGCtgcg > 1:3421099/1‑69 (MQ=255)
tGAAACACCGCACGCTTACCTGCAAGGCGTGGCGCTGGAAGTGATGGCGAACTCCGATAACGTGCtgcg > 1:365813/1‑69 (MQ=255)
tGAAACACCGCACGCTTACCTGCAAGGCGTGGCGCTGGAAGTGATGGCGAACTCCGATAACGTGCtgcg > 1:406059/1‑69 (MQ=255)
tGAAACACCGCACGCTTACCTGCAAGGCGTGGCGCTGGAAGTGATGGCGAACTCCGATAACGTGCtgcg > 1:447662/1‑69 (MQ=255)
tGAAACACCGCACGCTTACCTGCAAGGCGTGGCGCTGGAAGTGATGGCGAACTCCGATAACGTGCtgcg > 1:506082/1‑69 (MQ=255)
tGAAACACCGCACGCTTACCTGCAAGGCGTGGCGCTGGAAGTGATGGCGAACTCCGATAACGTGCtgcg > 1:563423/1‑69 (MQ=255)
tGAAACACCGCACGCTTACCTGCAAGGCGTGGCGCTGGAAGTGATGGCGAACTCCGATAACGTGCtgcg < 1:738647/69‑1 (MQ=255)
tGAAACACCGCACGCTTACCTGCAAGGCGTGGCGCTGGAAGTGATGGCGAACTCCGATAACGTGCtgcg > 1:972618/1‑69 (MQ=255)
tGAAACACCGCACGCTTACCTGCAAGGCGTGGCGCTGGAAGTGATGGCGAACTCCGATAACGTGCtgcg > 1:220098/1‑69 (MQ=255)
tGAAACACCGCACGCTTACCTGCAAGGCGTGGCGCTGGAAGTGATGGCGAACTCCGATAACGTGCtgcg > 1:1867915/1‑69 (MQ=255)
tGAAACACCGCACGCTTACCTGCAAGGCGTGGCGCTGGAAGTGATGGCGAACTCCGATAACGTGCtgcg > 1:1152738/1‑69 (MQ=255)
tGAAACACCGCACGCTTACCTGCAAGGCGTGGCGCTGGAAGTGATGGCGAACTCCGATAACGTGCtgcg < 1:1805454/69‑1 (MQ=255)
tGAAACACCGCACGCTTACCTGCAAGGCGTGGCGCTGGAAGTGATGGCGAACTCCGATAACGTGCtgcg > 1:1780788/1‑69 (MQ=255)
tGAAACACCGCACGCTTACCTGCAAGGCGTGGCGCTGGAAGTGATGGCGAACTCCGATAACGTGCtgcg > 1:1170815/1‑69 (MQ=255)
tGAAACACCGCACGCTTACCTGCAAGGCGTGGCGCTGGAAGTGATGGCGAACTCCGATAACGTGCtgcg < 1:145480/69‑1 (MQ=255)
tGAAACACCGCACGCTTACCTGCAAGGCGTGGCGCTGGAAGTGATGGCGAACTCCGATAACGTGCtgcg > 1:149853/1‑69 (MQ=255)
tGAAACACCGCACGCTTACCTGCAAGGCGTGGCGCTGGAAGTGATGGCGAACTCCGATAACGTGCtgcg > 1:1688949/1‑69 (MQ=255)
tGAAACACCGCACGCTTACCTGCAAGGCGTGGCGCTGGAAGTGATGGCGAACTCCGATAACGAGCtgcg > 1:2523315/1‑69 (MQ=255)
tGAAACACCGCACGCTTACCTGCAAGGCGTGGCGCTGGAAGTGATGGCGAAATCCGATAACGTGCtgcg > 1:982236/1‑69 (MQ=255)
tGAAACACCGCACGCTTACCTGCAAGGCGTGGCGCTGGAAGAGATGGCGAACTCCGATAACGTGCtgcg > 1:1919809/1‑69 (MQ=255)
gCACGCTTACCTGCAAGGCGTGGCGCTGGAAGTGATGGCAAACTCCGATAACGTGCTGCGTGCGGGTCt < 1:2179594/69‑1 (MQ=255)
gCACGCTTACCTGCAAGGCGTGGCGCTGGAAGTGATGGCAAACTCCGATAACGTGCTGCGTGCGGGTCt < 1:1345168/69‑1 (MQ=255)
gCACGCTTACCTGCAAGGCGTGGCGCTGGAAGTGATGGCAAACTCCGATAACGTGCTGCGTGCGGGTCt < 1:1770361/69‑1 (MQ=255)
cACGCTTACCTGCAAGGCGTGGCGCTGGAAGTGATGGCGAACTCCGATAACGTGCtgcg < 1:101380/59‑1 (MQ=255)
aCGCTTACCTGCAAGGCGTGGCGCTGGAAGTGATGGCAAACTCCGATAACGTGCTGCGTGCGGGTCTGa < 1:3171571/69‑1 (MQ=255)
aCGCTTACCTGCAAGGCGTGGCGCTGGAAGTGATGGCAAACTCCGATAACGTGCTGCGTGCGGGTCTGa < 1:3047069/69‑1 (MQ=255)
aCGCTTACCTGCAAGGCGTGGCGCTGGAAGTGATGGCAAACTCCGATAACGTGCTGCGTGCGGGTCTGa < 1:1346885/69‑1 (MQ=255)
aCGCTTACCTGCAAGGCGTGGCGCTGGAAGTGATGGCAAACTCCGATAACGTGCTGCGTGCGGGTCTGa < 1:1259914/69‑1 (MQ=255)
aCGCTTACCTGCAAGGCGTGGCGCTGGAAGTGATGGCAAACTCCGATAACGTGCTGCGTGCGGGTCTGa < 1:1216603/69‑1 (MQ=255)
aCGCTTACCTGCAAGGCGTGGCGCTGGAAGTGATGGCAAACTCCGATAACGTGCTGCGTGCGGGTCTGa < 1:118075/69‑1 (MQ=255)
aCGCTTACCTGCAAGGCGTGGCGCTGGAAGTGATGGCAAACTCCGATAACGTGCTGCGTGCGGGTCTGa < 1:911470/69‑1 (MQ=255)
cGCTTACCTGCTAGGCGTGTCGCTGGAAGTGATGGCGAAGTGCGATAACGTGCtgcg < 1:1975152/57‑1 (MQ=255)
cGTGGCGCTGGAAGTGATGGCAAACTCCGATAACGTGCTGCGTGCGGGTCTGACGCCTAAATACATTGa > 1:1685188/1‑69 (MQ=255)
cGTGGCGCTGGAAGTGATGGCAAACTCCGATAACGTGCTGCGTGCGGGTCTGACGCCTAAATACATTGa > 1:1718250/1‑69 (MQ=255)
ggCAAACTCCGATAACGTGCTGCGTGCGGGTCTGACGCCTAAATACATTGa < 1:1709103/51‑1 (MQ=255)
ggCAAACTCCGATAACGTGCTGCGTGCGGGTCTGACGCCTAAATACATTGa < 1:1255064/51‑1 (MQ=255)
ggCAAACTCCGATAACGTGCTGCGTGCGGGTCTGACGCCTAAATACATTGa < 1:1810462/51‑1 (MQ=255)
gCAAACTCCGATAACGTGCTGCGTGCGGGTCTGACGCCTAAATACATTGa < 1:1313258/50‑1 (MQ=255)
|
TGAAACACCGCACGCTTACCTGCAAGGCGTGGCGCTGGAAGTGATGGCAAACTCCGATAACGTGCTGCGTGCGGGTCTGACGCCTAAATACATTGA > minE/1017019‑1017114
|
| 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
