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 |
600,640 |
T→C |
40.7% |
F176F (TTT→TTC) |
dmsB → |
dimethyl sulfoxide reductase, anaerobic, subunit B |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 600,640 | 0 | T | C | 40.7%
| 28.7
/ 37.0
| 54 | F176F (TTT→TTC) | dmsB | dimethyl sulfoxide reductase, anaerobic, subunit B |
| Reads supporting (aligned to +/- strand): ref base T (11/21); new base C (12/10); total (23/31) |
| Fisher's exact test for biased strand distribution p-value = 1.70e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.48e-02 |
CTATCGACGAGCTGCGTAAAAAACATGGCGATCTGGCGGCCGTTGCGCCGTTGCCGCGAGCTCACTTTACCAAACCGAATATTGTGATCAAACCCAATGCCAATAGCCGCCCGACCGGGGATACCACTGGCT > minE/600573‑600704
|
cTATCGACGAGCTGCGTAAAAAACATGGCGATCTGGCGGCCGTTGCGCCGTTGCCGCGTGCTCACTTTa < 1:2569101/69‑1 (MQ=255)
cTATCGACGAGCTGCGTAAAAAACATGGCGATCTGGCGGCCGTTGCGCCGTTGCCGCGAGCTCACTTTa < 1:751555/69‑1 (MQ=255)
cTATCGACGAGCTGCGTAAAAAACATGGCGATCTGGCGGCCGTTGCGCCGTTGCCGCGAGCTCACTTTa < 1:2316222/69‑1 (MQ=255)
cTATCGACGAGCTGCGTAAAAAACATGGCGATCTGGCGGCCGTTGCGCCGTTGCCGCGAGCTCACTTTa < 1:2313159/69‑1 (MQ=255)
cTATCGACGAGCTGCGTAAAAAACATGGCGATCTGGCGGCCGTTGCGCCGTTGCCGCGAGCTCACTTTa < 1:1805159/69‑1 (MQ=255)
cTATCGACGAGCTGCGCAAAAAACATGGCGATCTGGCGGCCGTTGCGCCGTTGCCGCGAGCTCACTTTa < 1:3235764/69‑1 (MQ=255)
tCGACGAGCTGCGTAAAAAACATGGCGATCTGGCGGCCGTTGCGCCGTTGCCGCGAGCTCACTTTACCa > 1:3254663/1‑69 (MQ=255)
tCGACGAGCTGCGTAAAAAACATGGCGATCTGGCGGCCGTTGCGCCGTTGCCGCGAGCTCACTTTACCa > 1:2789216/1‑69 (MQ=255)
tCGACGAGCTGCGTAAAAAACATGGCGATCTGGCGGCCGTTGCGCCGTTGCCGCGAGCTCACTTTACCa > 1:2545236/1‑69 (MQ=255)
tCGACGAGCTGCGTAAAAAACATGGCGATCTGGCGGCCGTTGCGCCGTTGCCGCGAGCTCACTTTACCa > 1:2388409/1‑69 (MQ=255)
tCGACGAGCTGCGTAAAAAACATGGCGATCTGGCGGCCGTTGCGCCGTTGCCGCGAGCTCACTTTACCa > 1:2174998/1‑69 (MQ=255)
tCGACGAGCTGCGTAAAAAACATGGCGATCTGGCGGCCGTTGCGCCGTTGCCGCGAGCTCACTTTACCa > 1:3165755/1‑69 (MQ=255)
tCGACGAGCTGCGTAAAAAACATGGCGATCTGGCGGCCGTTGCGCCGTTGCCGCGAGCTCACTTTACCa > 1:329078/1‑69 (MQ=255)
tCGACGAGCTGCGTAAAAAACATGGCGATCTGGCGGCCGTTGCGCCGTTGCCGCGAGCTCACTTTACCa > 1:1789396/1‑69 (MQ=255)
tCGACGAGCTGCGTAAAAAACATGGCGATCTGGCGGCCGTTGCGCCGTTGCCGCGAGCTCACTTTACCa > 1:3338724/1‑69 (MQ=255)
tCGACGAGCTGCGTAAAAAACATGGCGATCTGGCGGCCGTTGCGCCGTTGCCGCGAGCTCACTTTACCa > 1:838285/1‑69 (MQ=255)
tCGACGAGCTGCGTAAAAAACATGGCGATCTGGCGGCCGTTGCGCCGTTGCCGCGAGCTCACTTTACCa > 1:539101/1‑69 (MQ=255)
gCTGCGTAAAAAACATGGCGATCTGGCGGCCGTTGCGCCGTTGCCGCGAGCTCACTTTACCAAACCGaa < 1:1642728/69‑1 (MQ=255)
gCTGCGTAAAAAACATGGCGATCTGGCGGCCGTTGCGCCGTTGCCGCGAGCTCACTTTACCAAACCGaa < 1:2944504/69‑1 (MQ=255)
ggCGATCTGGTGGCCGTTGCGCCGTTGCCGCGAGCTCACTTTACCAAACCGAATATTGTGATCAAAccc < 1:1022455/69‑1 (MQ=255)
ggCGATCTGGCGGCCGTTGCGCCGTTGCCGCGAGCTCACTTTACCAAACCGAATATTGTGATCAAAccc < 1:2261339/69‑1 (MQ=255)
ggCGATCTGGCGGCCGTTGCGCCGTTGCCGCGAGCTCACTTTACCAAACCGAATATTGTGATCAAAccc < 1:518891/69‑1 (MQ=255)
ggCGATCTGGCGGCCGTTGCGCCGTTGCCGCGAGCTCACTTTACCAAACCGAATATTGTGATCAAAccc < 1:1615599/69‑1 (MQ=255)
ggCGATCTGGCGGCCGTTGCGCCGTTGCCGCGAGCTCACTTTACCAAACCGAATATTGTGATCAAAccc < 1:1361765/69‑1 (MQ=255)
ggCGATCTGGCGGCCGTTGCGCCGTTGCCGCGAGCTCACTTTACCAAACCGAATATTGTGATCAAAccc < 1:2581829/69‑1 (MQ=255)
ggCGATATGGCGGCCGTTGCGCCGTTGCCGCGAGCTCACTTTACCAAACCGAATATTGTGATCAAAccc < 1:483429/69‑1 (MQ=255)
ggcCGTTGCGCCGTTGCCGCGAGCTCACTTTACCAAACCGAATATTGTGATCAAACCCAATGcc < 1:2946783/64‑1 (MQ=255)
ggcCGTTGCGCCGTTGCCGCGAGCTCACTTTACCAAACCGAATATTGTGATCAAACCCAATGcc < 1:579287/64‑1 (MQ=255)
ggcCGTTGCGCCGTTGCCGCGAGCTCACTTTACCAAACCGAATATTGTGATCAAACCCAATGcc < 1:3090806/64‑1 (MQ=255)
ggcCGTTGCGCCGTTGCCGCGAGCTCACTTTACCAAACCGAATATTGTGATCAAACCCAATGcc < 1:946247/64‑1 (MQ=255)
ggcCGTTGCGCCGTTGCCGCGAGCTCACTTTACCAAACCGAATATTGTGATCAAACCCAATGcc < 1:2565478/64‑1 (MQ=255)
ggcCGTTGCGCCGTTGCCGCGAGCTCACTTTACCAAACCGAATATTGTGATCAAACCCAATGcc < 1:2068549/64‑1 (MQ=255)
cgttgcCGCGTGCGCACTTCACCAAACCGAATATTGTGATCAAACCTAACGCCAATAGCCGCCCAACCg < 1:1132918/69‑1 (MQ=14)
cgttgcCGCGTGCGCACTTCACCAAACCGAATATTGTGATCAAACCTAACGCCAATAGCCGCCCAACCg < 1:2754564/69‑1 (MQ=14)
cgttgcCGCGTGCGCACTTCACCAAACCGAATATTGTGATCAAACCTAACGCCAATAGCCGCCCAACCg < 1:611161/69‑1 (MQ=14)
cgttgcCGCGTGCGCACTTCACCAAACCGAATATTGTGATCAAACCTAACGCCAATAGCCGCCCAACCg < 1:2294519/69‑1 (MQ=14)
cgttgcCGCGTGCGCACTTCACCAAACCGAATATTGTGATCAAACCTAACGCCAATAGCCGCCCAACCg < 1:1612339/69‑1 (MQ=14)
cgttgcCGCGTGCGCACTTCACCAAACCGAATATTGTGATCAAACCTAACGCCAATAGCCGCCCAACCg < 1:1694529/69‑1 (MQ=14)
cgttgcCGCGTGCGCACTTCACCAAACCGAATATTGTGATCAAACCTAACGCCAATAGCCGCCCAACCg < 1:1998667/69‑1 (MQ=14)
cgttgcCGCGTGCGCACTTCACCAAACCGAATATTGTGATCAAACCTAACGCCAATAGCCGCCCAACCg < 1:1986411/69‑1 (MQ=14)
gttgcCGCGTGCGCACTTCACCAAACCGAATATTGTGATCAAACCTAACGCCAATAGCCGCCCAACCg < 1:1869732/68‑1 (MQ=14)
gttgcCGCGTGCGCACTTCACCAAACCGAATATTGTGATCAAACCTAACGCCAATAGCCGCCCAACCg < 1:2023196/68‑1 (MQ=14)
ccTTCACCAAACCGAATATTGTGATCAAACCTAACGCCAATAGCCGCCCAACCGGGGATACCACTGGc > 1:1415494/2‑68 (MQ=17)
aCTTCACCAAACCGAATATTGTGATCAAACCTAACGCCAATAGCCGCCCAACCGGGGATACCACTGGc > 1:2614088/1‑68 (MQ=17)
aCTTCACCAAACCGAATATTGTGATCAAACCTAACGCCAATAGCCGCCCAACCGGGGATACCACTGGc > 1:926649/1‑68 (MQ=17)
aCTTCACCAAACCGAATATTGTGATCAAACCTAACGCCAATAGCCGCCCAACCGGGGATACCACTGGCt > 1:1998413/1‑69 (MQ=17)
aCTTCACCAAACCGAATATTGTGATCAAACCTAACGCCAATAGCCGCCCAACCGGGGATACCACTGGCt > 1:2634767/1‑69 (MQ=17)
aCTTCACCAAACCGAATATTGTGATCAAACCTAACGCCAATAGCCGCCCAACCGGGGATACCACTGGCt > 1:405885/1‑69 (MQ=17)
aCTTCACCAAACCGAATATTGTGATCAAACCTAACGCCAATAGCCGCCCAACCGGGGATACCACTGGCt > 1:1441293/1‑69 (MQ=17)
aCTTCACCAAACCGAATATTGTGATCAAACCTAACGCCAATAGCCGCCCAACCGGGGATACCACTGGCt > 1:628226/1‑69 (MQ=17)
aCTTCACCAAACCGAATATTGTGATCAAACCTAACGCCAATAGCCGCCCAACCGGGGATACCACTGGCt > 1:125046/1‑69 (MQ=17)
aCTTCACCAAACCGAATATTGTGATCAAACCTAACGCCAATAGCCGCCCAACCGGGGATACCACTGGCt > 1:1235497/1‑69 (MQ=17)
aCTTCACCAAACCGAATATTGTGATCAAACCTAACGCCAATAGCCGCCCAACCGGGGATACCACTGGCt > 1:2741310/1‑69 (MQ=17)
aCTTCACCAAACCGAATATTGTGATCAAACCTAACGCCAATAGCAGCCCAACCGGGGATACCACTGGCt > 1:2951432/1‑69 (MQ=17)
|
CTATCGACGAGCTGCGTAAAAAACATGGCGATCTGGCGGCCGTTGCGCCGTTGCCGCGAGCTCACTTTACCAAACCGAATATTGTGATCAAACCCAATGCCAATAGCCGCCCGACCGGGGATACCACTGGCT > minE/600573‑600704
|
| 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
