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 |
598,245 |
C→T |
39.9% |
G196G (GGC→GGT) |
dmsA → |
dimethyl sulfoxide reductase, anaerobic, subunit A |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 598,245 | 0 | C | T | 39.9%
| 16.8
/ 23.0
| 40 | G196G (GGC→GGT) | dmsA | dimethyl sulfoxide reductase, anaerobic, subunit A |
| Reads supporting (aligned to +/- strand): ref base C (12/12); new base T (8/8); total (20/20) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GCTCCTGGCCGCCGGGAAATACCCTGGTCGCGCGGCTGATGAACTGCTGCGGCGGCTATCTGAACCATTACGGCGACTACTCCTCCGCGCAAATTGCGGAAGGTTTGAACTA > minE/598190‑598301
|
gCTCCTGGCCGCCGGGAAATACCCTGGTCGCGCGGCTGATGAACTGCTGCGGCGGCTATCTGAACCAtt > 1:858150/1‑69 (MQ=255)
gCTCCTGGCCGCCGGGAAATACCCTGGTCGCGCGGCTGATGAACTGCTGCGGCGGCTATCTGAACCAtt > 1:128063/1‑69 (MQ=255)
gCTCCTGGCCGCCGGGAAATACCCTGGTCGCGCGGCTGATGAACTGCTGCGGCGGCTATCTGAACCAtt > 1:51933/1‑69 (MQ=255)
gCTCCTGGCCGCCGGGAAATACCCTGGTCGCGCGGCTGATGAACTGCTGCGGCGGCTATCTGAACCAtt > 1:2357733/1‑69 (MQ=255)
gCTCCTGGCCGCCGGGAAATACCCTGGTCGCGCGGCTGATGAACTGCTGCGGCGGCTATCTGAACCAtt > 1:1872194/1‑69 (MQ=255)
cccTGGTCGCGCGGCTGATGAACTGCTGCGGCGGCTATCTGAACCATTACGGCGACTACTCCTCcgcg > 1:224691/1‑68 (MQ=255)
cccTGGTCGCGCGGCTGATGAACTGCTGCGGCGGCTATCTGAACCATTACGGCGACTACTCCTCcgcg > 1:1849776/1‑68 (MQ=255)
cccTGGTCGCGCGGCTGATGAACTGCTGCGGCGGCTATCTGAACCATTACGGCGACTACTCCTCcgc > 1:2168812/1‑67 (MQ=255)
tGGTCGCGCGGCTAATGAACTGCTGCGGCGGTTATCTGAACCATTATGGCGACTACTCCTCCGCGCaaa > 1:976480/1‑69 (MQ=255)
tGGTCGCGCGGCTAATGAACTGCTGCGGCGGTTATCTGAACCATTATGGCGACTACTCCTCCGCGCaaa > 1:70364/1‑69 (MQ=255)
tGGTCGCGCGGCTAATGAACTGCTGCGGCGGTTATCTGAACCATTATGGCGACTACTCCTCCGCGCaaa > 1:2833711/1‑69 (MQ=255)
tGGTCGCGCGGCTAATGAACTGCTGCGGCGGTTATCTGAACCATTATGGCGACTACTCCTCCGCGCaaa > 1:2573647/1‑69 (MQ=255)
tGGTCGCGCGGCTAATGAACTGCTGCGGCGGTTATCTGAACCATTATGGCGACTACTCCTCCGCGCaaa > 1:1743985/1‑69 (MQ=255)
tGGTCGCGCGGCTAATGAACTGCTGCGGCGGTTATCTGAACCATTATGGCGACTACTCCTCCGCGCaaa > 1:1425882/1‑69 (MQ=255)
tGGTCGCGCGGCTAATGAACTGCTGCGGCGGTTATCTGAACCATTATGGCGACTACTCCTCCGCGCaaa > 1:151911/1‑69 (MQ=255)
tGGTCGCGCGGCTAATGAACAGCTGCGGCGGTTATCTGAACCATTATGGCGACTACTCCTCCGCGCaaa > 1:2870499/1‑69 (MQ=255)
gTCGCGCGGCTGATGAACTGCTGCGGCGGCTATCTGGACCATTACGGCGACTACTCCTCCGCGCAAAtt > 1:1643637/1‑69 (MQ=255)
gTCGCGCGGCTGATGAACTGCTGCGGCGGCTATCTGAACCATTACGGCGACTACTCCTCCGCGCAAAtt > 1:1678160/1‑69 (MQ=255)
gTCGCGCGGCTGATGAACTGCTGCGGCGGCTATCTGAACCATTACGGCGACTACTCCTCCGCGCAAAtt > 1:2261557/1‑69 (MQ=255)
gTCGCGCGGCTGATGAACTGCTGCGGCGGCTATCTGAAACATTACGGCGACTACTCCTCCGCGCAAAtt > 1:1765870/1‑69 (MQ=255)
gaACTGCTGCGGCGGCTATCTGAACCATTACGGCGACTACTCCTCCGCGCAAATTGCGGAAGGTTTg < 1:1927173/67‑1 (MQ=255)
gaACTGCTGCGGCGGCTATCTGAACCATTACGGCGACTACTCCTCCGCGCAAATTGCGGAAGGTTTg < 1:788063/67‑1 (MQ=255)
gaACTGCTGCGGCGGCTATCTGAACCATTACGGCGACTACTCCTCCGCGCAAATTGCGGAAGGTTTg < 1:536917/67‑1 (MQ=255)
gaACTGCTGCGGCGGCTATCTGAACCATTACGGCGACTACTCCTCCGCGCAAATTGCGGAAGGTTTg < 1:1475076/67‑1 (MQ=255)
gaACTGCTGCGGCGGCTATCTGAACCATTACGGCGACTACTCCTCCGCGCAAATTGCGGAAGGTTTg < 1:2653944/67‑1 (MQ=255)
gaACTGCTGCGGCGGCTATCTGAACCATTACGGCGACTACTCCTCCGCGCAAATTGCGGAAGGTTTg < 1:1725796/67‑1 (MQ=255)
gaACTGCTGCGGCGGCTATCTGAACCATTACGGCGACTACTCCTCCGCGCAAATTGCGGAAGGTTTg < 1:216511/67‑1 (MQ=255)
aaCTGCTGCGGCGGCTATCTGCACCATTACGGCGACTACTCCTCCGCGCAAATTGCGGAAGGTTTGAAc < 1:1035475/69‑1 (MQ=255)
aaCTGCTGCGGCGGCTATCTGAACCATTACGGCGACTACTCCTCCGCGCAAATTGCGGAAGGTTTGAAc < 1:2520035/69‑1 (MQ=255)
aaCTGCTGCGGCGGCTATCTGAACCATTACGGCGACTACTCCTCCGCGCAAATTGCGGAAGGTTTGAAc < 1:153515/69‑1 (MQ=255)
aaCTGCTGCGGCGGCTATCTGAACCATTACGGCGACTACTCCTCCGCGCAAATTGCGGAAGGTTTGAAc < 1:3130460/69‑1 (MQ=255)
aaCTGCTGCGGCGGCTATCTGAACCATTACGGCGACTACTCCTCCGCGCAAATTGCGGAAGGTTTGAAc < 1:611823/69‑1 (MQ=255)
ctgctgCGGCGGTTATCTGAACCATTATGGCGACTACTCCTCCGCGCAAATTGCGGAAGGTCTGAACta < 1:2499329/69‑1 (MQ=255)
ctgctgCGGCGGTTATCTGAACCATTATGGCGACTACTCCTCCGCGCAAATTGCGGAAGGTCTGAACta < 1:2332049/69‑1 (MQ=255)
ctgctgCGGCGGTTATCTGAACCATTATGGCGACTACTCCTCCGCGCAAATTGCGGAAGGTCTGAACta < 1:1457156/69‑1 (MQ=255)
ctgctgCGGCGGTTATCTGAACCATTATGGCGACTACTCCTCCGCGCAAATTGCGGAAGGTCTGAACta < 1:626833/69‑1 (MQ=255)
ctgctgCGGCGGTTATCTGAACCATTATGGCGACTACTCCTCCGCGCAAATTGCGGAAGGTCTGAACta < 1:1885844/69‑1 (MQ=255)
ctgctgCGGCGGTTATCTGAACCATTATGGCGACTACTCCTCCGCGCAAATTGCGGAAGGTCTGAACta < 1:909878/69‑1 (MQ=255)
tgctgcGGCGGTTATCTGAACCATTATGGCGACTACTCCTCCGCGCAAATTGCGGAAGGTCTGAACta < 1:2123543/68‑1 (MQ=255)
tgctgcGGCGGTTATCTGAACCATTATGGCGACTACTCCTCCGCGCAAATTGCGGAAGGTCTGAACta < 1:1050960/68‑1 (MQ=255)
|
GCTCCTGGCCGCCGGGAAATACCCTGGTCGCGCGGCTGATGAACTGCTGCGGCGGCTATCTGAACCATTACGGCGACTACTCCTCCGCGCAAATTGCGGAAGGTTTGAACTA > minE/598190‑598301
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
