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 |
511,757 |
G→A |
43.1% |
G600G (GGG→GGA) |
ybhJ → |
predicted hydratase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 511,757 | 0 | G | A | 43.1%
| 10.0
/ 28.2
| 44 | G600G (GGG→GGA) | ybhJ | predicted hydratase |
| Reads supporting (aligned to +/- strand): ref base G (6/18); new base A (16/2); total (22/22) |
| Fisher's exact test for biased strand distribution p-value = 4.48e-05 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.72e-01 |
CGCGATCCCGGTTATGTTAGCAGAAGTAAAGCGACTGCTGAGCTGGAAAATCAGCGTCTGGCGGGGAATGTCAGCGAGCTGACAGAGGTGTTTGCGCGCATTAAGCAGATTGCTGGTCAGGAGCA > minE/511692‑511816
|
cgcgATCCCGGTTATGTTAGCAGAAGTAAAGCGACTGCTGAGCTGGAAAATCAGCGTCTGGCgggg < 1:1100151/66‑1 (MQ=255)
cgcgATCCCGGTTATGTTAGCAGAAGTAAAGCGACTGCTGAGCTGGAAAATCAGCGTCTGGCgggg < 1:962960/66‑1 (MQ=255)
cgcgATCCCGGTTATGTTAGCAGAAGTAAAGCGACTGCTGAGCTGGAAAATCAGCGTCTGGCgggg < 1:411278/66‑1 (MQ=255)
cgcgATCCCGGTTATGTTAGCAGAAGTAAAGCGACTGCTGAGCTGGAAAATCAGCGTCTGGCgggg < 1:3237569/66‑1 (MQ=255)
cgcgATCCCGGTTATGTTAGCAGAAGTAAAGCGACTGCTGAGCTGGAAAATCAGCGTCTGGCgggg < 1:2948825/66‑1 (MQ=255)
cgcgATCCCGGTTATGTTAGCAGAAGTAAAGCGACTGCTGAGCTGGAAAATCAGCGTCTGGCgggg < 1:2935992/66‑1 (MQ=255)
cgcgATCCCGGTTATGTTAGCAGAAGTAAAGCGACTGCTGAGCTGGAAAATCAGCGTCTGGCgggg < 1:2447715/66‑1 (MQ=255)
cgcgATCCCGGTTATGTTAGCAGAAGTAAAGCGACTGCTGAGCTGGAAAATCAGCGTCTGGCgggg < 1:2330311/66‑1 (MQ=255)
cgcgATCCCGGTTATGTTAGCAGAAGTAAAGCGACTGCTGAGCTGGAAAATCAGCGTCTGGCgggg < 1:225575/66‑1 (MQ=255)
cgcgATCCCGGTTATGTTAGCAGAAGTAAAGCGACTGCTGAGCTGGAAAATCAGCGTCTGGCgggg < 1:1759093/66‑1 (MQ=255)
cgcgATCCCGGTTATGTTAGCAGAAGTAAAGCGACTGCTGAGCTGGAAAATCAGCGTCTGGCgggg < 1:1674695/66‑1 (MQ=255)
cgcgATCCCGGTTATGTTAGCAGAAGTAAAGCGACTGCTGAGCTGGAAAATCAGCGTCTGGCgggg < 1:1095621/66‑1 (MQ=255)
cgcgATCCCGGTTATGTTAGCAGAAGTAAAGCGACTGCTGAGCTGGAAAATCAGCGTCTGGCgggg < 1:1411773/66‑1 (MQ=255)
gcgATCCCGGTTATGTTAGCAGAAGTAAAGCGACTGCTGAGCTGGAAAATCAGCGTCTGGCgggg < 1:1886061/65‑1 (MQ=255)
cgATCCAGGTTATGTTGGCAGAAGTAAAGCGACTGCTGAGCTGGAAAATCAGCGTCTGGCGGGAAATGt < 1:141210/69‑1 (MQ=255)
gATCCAGGTTATGTTGGCAGAAGTAAAGCGACTGCTGAGCTGGAAAATCAGCGTCTGGCGGGAAATGt < 1:2568481/68‑1 (MQ=255)
aGCAGAAGTAAAGCGACTGCTGAGCTGGAAAATCAGCGTCTGGCgggg < 1:792294/48‑1 (MQ=255)
aGCAGAAGTAAAGCGACTGCTGAGCTGGAAAATCAGCGTCTGGCgggg < 1:631278/48‑1 (MQ=255)
aGCAGAAGTAAAGCGACTGCTGAGCTGGAAAATCAGCGTCTGGCgggg < 1:3219616/48‑1 (MQ=255)
aGCAGAAGTAAAGCGACTGCTGAGCTGGAAAATCAGCGTCTGGCgggg < 1:1764168/48‑1 (MQ=255)
aGCAGAAGTAAAGCGACTGCTGAGCTGGAAAATCAGCGTCTGGCgggg < 1:243281/48‑1 (MQ=255)
aaGCGACTGCTGAGCTGGAAAATCAGCGTCTGGCGGGTAATGTCAGCGAGCTGACAGAGgt < 1:1447633/61‑1 (MQ=255)
aaGCGACTGCTGAGCTGGAAAATCAGCGTCTGGCGGGGAATGTCAGCGAGCTGACAGAGgt < 1:1238025/61‑1 (MQ=255)
aaGCGACTGCTGAGCTGGAAAATCAGCGTCTGGCGGGGAATGTCAGCGAGCTGACAGAGgt < 1:1588610/61‑1 (MQ=255)
aaGCGACTGCTGAGCTGGAAAATCAGCGTCTGGCGGGGAATGTCAGCGAGCTGACAGAGgt < 1:538138/61‑1 (MQ=255)
aaGCGACTGCTGAGCTGGAAAATCAGCGTCTGGCGGGGAATGTCAGCGAGCTGACAGAGgt < 1:1898343/61‑1 (MQ=255)
aaGCGACTGCTGAGCTGGAAAATCAGCGTCTGGCGGGGAATGTCAGCGAGCTGACAGAGgt < 1:1302467/61‑1 (MQ=255)
aaGCGACTGCTGAGCTGGAAAATCAGCGTCTGGCGGGGAATGTCAGCGAGCTGACAGAGgt < 1:2528560/61‑1 (MQ=255)
aaGCGACTGCTGAGCTGAAAAATCAGCGTCTGGCGGGGAATGTCAGCGAGCTGACAGAGgt < 1:3220981/61‑1 (MQ=255)
cGACTGCTGAGCTGGAAAATCAGCGTCTGGCgggg < 1:1766053/35‑1 (MQ=255)
gACTGCTGAGCTGGAAAATCAGCGTCTGGCGGGAAATGTCAGCGAGCTGACAGAGGTGTTTgcgcgc > 1:2889171/1‑67 (MQ=255)
gACTGCTGAGCTGGAAAATCAGCGTCTGGCGGGAAATGTCAGCGAGCTGACAGAGGTGTTTGCGCGCa > 1:3328395/1‑68 (MQ=255)
gACTGCTGAGCTGGAAAATCAGCGTCTGGCGGGAAATGTCAGCGAGCTGACAGAGGTGTTTGCGCGCa > 1:219150/1‑68 (MQ=255)
gACTGCTGAGCTGGAAAATCAGCGTCTGGCGGGAAATGTCAGCGAGCTGACAGAGGTGTTTGCGCGCa > 1:455890/1‑68 (MQ=255)
gACTGCTGAGCTGGAAAATCAGCGTCTGGCGGGAAATGTCAGCGAGCTGACAGAGGTGTTTGCGCGCa > 1:450397/1‑68 (MQ=255)
gACTGCTGAGCTGGAAAATCAGCGTCTGGCGGGAAATGTCAGCGAGCTGACAGAGGTGTTTGCGCGCa > 1:394770/1‑68 (MQ=255)
gACTGCTGAGCTGGAAAATCAGCGTCTGGCGGGAAATGTCAGCGAGCTGACAGAGGTGTTTGCGCGCa > 1:3374280/1‑68 (MQ=255)
gACTGCTGAGCTGGAAAATCAGCGTCTGGCGGGAAATGTCAGCGAGCTGACAGAGGTGTTTGCGCGCa > 1:250663/1‑68 (MQ=255)
gACTGCTGAGCTGGAAAATCAGCGTCTGGCGGGAAATGTCAGCGAGCTGACAGAGGTGTTTGCGCGCa > 1:3309143/1‑68 (MQ=255)
gACTGCTGAGCTGGAAAATCAGCGTCTGGCGGGAAATGTCAGCGAGCTGACAGAGGTGTTTGCGCGCa > 1:3272171/1‑68 (MQ=255)
gACTGCTGAGCTGGAAAATCAGCGTCTGGCGGGAAATGTCAGCGAGCTGACAGAGGTGTTTGCGCGCa > 1:3229031/1‑68 (MQ=255)
gACTGCTGAGCTGGAAAATCAGCGTCTGGCGGGAAATGTCAGCGAGCTGACAGAGGTGTTTGCGCGCa > 1:1246488/1‑68 (MQ=255)
gACTGCTGAGCTGGAAAATCAGCGTCTGGCGGGAAATGTCAGCGAGCTGACAGAGGTGTTTGCGCGCa > 1:1377644/1‑68 (MQ=255)
gACTGCTGAGCTGGAAAATCAGCGTCTGGCGGGAAATGTCAGCGAGCTGACAGAGGTGTTTGCGCGCa > 1:265731/1‑68 (MQ=255)
gACTGCTGAGCTGGAAAATCAGCGTCTGGCGGGAAAAGTCAGCGAGCTGACAGAGGAGTTTGCGCGCa > 1:798582/1‑68 (MQ=255)
gACTGCTGAGCTGGAAAATCAGCGTCTGG‑GGGAAATGTCAGCGAGCTGACAGAGGTGTTTgcgcgc > 1:115555/1‑66 (MQ=255)
tgctgAGCTGGAAAATCAGCGTCTGGCGGGTAATGTCAGCGAGCTGACAGAGgt < 1:449398/54‑1 (MQ=255)
tCAGCGTCTGGCGGGGAATGTCAGCGAGCTGACAGAGGTGTTTGCGCGCATTAAGCAGATTGCTGGTc > 1:953530/1‑68 (MQ=255)
tCAGCGTCTGGCGGGGAATGTCAGCGAGCTGACAGAGGTGTTTGCGCGCATTAAGCAGATTGCTGGTc > 1:2650039/1‑68 (MQ=255)
tCAGCGTCTGGCGGGGAATGTCAGCGAGCTGACAGAGGTGTTTGCGCGCATTAAGCAGATTGCTGGTc > 1:859072/1‑68 (MQ=255)
tCAGCGTCTGGCGGGGAATGTCAGCGAGCTGACAGAGGTGTTTGCGCGCATTAAGCAGATTGCTGGTc > 1:1319003/1‑68 (MQ=255)
tCAGCGTCTGGCGGGGAATGTCAGCGAGCTGACAGAGGTGTTTGCGCGCATTAAGCAGATTGCTGGTc > 1:1613033/1‑68 (MQ=255)
tCAGCGTCTGGCGGGGAATGTCAGCGAGCTGACAGAGGTGTTTGCGCGCATTAAGCAGATTGCTGGTc > 1:1315150/1‑68 (MQ=255)
tCTGGCGGGGAATGTCAGCGAGCTGACAGAGGTGTTTGCGCGCATTAAGCAGATTGCTGGTCTGGAGCa < 1:1755852/69‑1 (MQ=255)
tCTGGCGGGGAATGTCAGCGAGCTGACAGAGGTGTTTGCGCGCATTAAGCAGATTGCTGGTCAGGAGCa < 1:2844054/69‑1 (MQ=255)
tCTGGCGGGGAATGTCAGCGAGCTGACAGAGGTGTTTGCGCGCATTAAGCAGATTGCTGGTCAGGAGCa < 1:2514650/69‑1 (MQ=255)
tCTGGCGGGGAATGTCAGCGAGCTGACAGAGGTGTTTGCGCGCATTAAGCAGATTGCTGGTCAGGAGCa < 1:728378/69‑1 (MQ=255)
tCTGGCGGGGAATGTCAGCGAGCTGACAGAGGTGTTTGCGCGCATTAAGCAGATTGCTGGTCAGGAGCa < 1:1803993/69‑1 (MQ=255)
tCTGGCGGGGAATGTCAGCGAGCTGACAGAGGTGTTTGCGCGCATTAAGCAGATTGCTGGTCAGGAGCa < 1:3427543/69‑1 (MQ=255)
cTGGCGGGGAATGTCAGCGAGCTGACAGAGGTGTTTGCGCGCATTAAGCAGATTGCTGGTCAGGAGCa < 1:1373512/68‑1 (MQ=255)
cTGGCGGGGAATGTCAGCGAGCTGACAGAGGTGTTTGCGCGCATTAAGCAGATTGCTGGTCAGGAGCa < 1:334754/68‑1 (MQ=255)
tGGCGGGGAATGTCAGCGAGCTGACAGAGGTGTTTGCGCGCATTAAGCAGATTGCTGGTCAGGAg < 1:2559661/65‑1 (MQ=255)
tGGCGGGGAATGTCAGCGAGCTGACAGAGGTGTTTGCGCGCATTAAGCAGATTGCTGGTCAGGAg < 1:2844299/65‑1 (MQ=255)
tGGCGGGGAATGTCAGCGAGCTGACAGAGGTGTTTGCGCGCATTAAGCAGATTGCTGGTCAGGAg < 1:961038/65‑1 (MQ=255)
|
CGCGATCCCGGTTATGTTAGCAGAAGTAAAGCGACTGCTGAGCTGGAAAATCAGCGTCTGGCGGGGAATGTCAGCGAGCTGACAGAGGTGTTTGCGCGCATTAAGCAGATTGCTGGTCAGGAGCA > minE/511692‑511816
|
| 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
