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 |
600,571 |
C→A |
32.4% |
G153G (GGC→GGA) |
dmsB → |
dimethyl sulfoxide reductase, anaerobic, subunit B |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 600,571 | 0 | C | A | 32.4%
| 60.3
/ 24.9
| 49 | G153G (GGC→GGA) | dmsB | dimethyl sulfoxide reductase, anaerobic, subunit B |
| Reads supporting (aligned to +/- strand): ref base C (16/17); new base A (9/7); total (25/24) |
| Fisher's exact test for biased strand distribution p-value = 7.62e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ACCGTGTTGCGGAGGGTAAAAAGCCGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATCGACGAGCTGCGTAAAAAACATGGCGATCTGGCGGCCGTTGCGCCGTTGCCGCGAGCT > minE/600504‑600634
|
aCCGTGTTGCGGAGGGTAAAAAGCCGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGc > 1:234379/1‑68 (MQ=255)
aCCGTGTTGCGGAGGGTAAAAAGCCGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGc > 1:811681/1‑68 (MQ=255)
aCCGTGTTGCGGAGGGTAAAAAGCCGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGc > 1:1443125/1‑68 (MQ=255)
gtTGCGGAGGGTAAAAAGCCGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATc < 1:3182408/69‑1 (MQ=255)
gtTGCGGAGGGTAAAAAGCCGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATc < 1:1454588/69‑1 (MQ=255)
gtTGCGGAGGGTAAAAAGCCGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATc < 1:3057055/69‑1 (MQ=255)
gtTGCGGAGGGTAAAAAGCCGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATc < 1:1825213/69‑1 (MQ=255)
gtTGCGGAAGGTAAAAAGCCGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATc < 1:2990846/69‑1 (MQ=255)
aaaaaGCCGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATCGACGAGCTGCg > 1:372127/1‑68 (MQ=255)
aaaaaGCCGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATCGACGAGCTGCg > 1:3142960/1‑68 (MQ=255)
aaaaaGCCGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATCGACGAGCTGCg > 1:3034058/1‑68 (MQ=255)
aaaaaGCCGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATCGACGAGCTGCg > 1:1918571/1‑68 (MQ=255)
aaaaaGCCGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATCGACGAGCTGCg > 1:1787895/1‑68 (MQ=255)
aaaaaGCCGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATCGACGAGCTGCg > 1:148853/1‑68 (MQ=255)
aaaaaGCCGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATCGACGAGCTGCg > 1:817901/1‑68 (MQ=255)
aaaaaGCCGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATCGACGAGCTGCg > 1:937652/1‑68 (MQ=255)
aGCCGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATCGACGAGCTGCGTaaaa > 1:638323/1‑69 (MQ=255)
aGCCGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATCGACGAGCTGCGTaaaa > 1:1677454/1‑69 (MQ=255)
aGCCGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATCGACGAGCTGCGTaaaa > 1:1654183/1‑69 (MQ=255)
aGCCGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATCGACGAGCTGCGTaaaa > 1:2563538/1‑69 (MQ=255)
aGCCGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATCGACGAGCTGCGTaaaa > 1:2137095/1‑69 (MQ=255)
aGCCGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATCGACGAGCTGCGTaaaa > 1:2944792/1‑69 (MQ=255)
ccGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATCGACGAGCTGCGTaaaaaa < 1:3245806/69‑1 (MQ=255)
ccGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATCGACGAGCTGCGTaaaaaa < 1:2517649/69‑1 (MQ=255)
ccGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATCGACGAGCTGCGTaaaaaa < 1:2293559/69‑1 (MQ=255)
ccGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATCGACGAGCTGCGTaaaaaa < 1:2056622/69‑1 (MQ=255)
ccGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATCGACGAGCTGCGTaaaaaa < 1:2052734/69‑1 (MQ=255)
ccGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATCGACGAGCTGCGTaaaaaa < 1:660962/69‑1 (MQ=255)
ccGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATCGACGAGCTGCGTaaaaaa < 1:1201173/69‑1 (MQ=255)
aTCTGCGTCGAATCTTGCCCGCTACGGGCGCTGGCTTTCGGACCTATCGACGAGCTGCGTAAAAAACa > 1:2233302/1‑68 (MQ=255)
aTCTGCGTCGAATCTTGCCCGCTACGGGCGCTGGATTTCGGACCTATCGACGAGCTGCGTAAAAAACac > 1:3133524/1‑68 (MQ=255)
aTCTGCGTCGAATCTTGCCCGCTACGGGCGCTGGATTTCGGACCTATCGACGAGCTGCGTAAAAAACac > 1:3232381/1‑68 (MQ=255)
aTCTGCGTCGAATCTTGCCCGCTACGGGCGCTGGATTTCGGACCTATCGACGAGCTGCGTAAAAAACac > 1:976327/1‑68 (MQ=255)
aTCTGCGTCGAATCTTGCCCGCTACGGGCGCTGGATTTCGGACCTATCGACGAGCTGCGTAAAAAACac > 1:2829044/1‑68 (MQ=255)
aTCTGCGTCGAATCTTGCCCGCTACGGGCGCTGGATTTCGGACCTATCGACGAGCTGCGTAAAAAACac > 1:1206470/1‑68 (MQ=255)
aTCTGCGTCGAATCTTGCCCGCTACGGGCGCTGGATTTCGGACCTATCGACGAGCTGCGTAAAAAACac > 1:1741115/1‑68 (MQ=255)
aTCTGCGTCGAATCTTGCCCGCTACGGGCGCTGGATTTCGGACCTATCGACGAGCTGCGTAAAAAACac > 1:2142610/1‑68 (MQ=255)
aTCTGCGTCGAATCTTGCCCGCTACGGGCGCTGGATTTCGGACCTATCGACGAGCTGCGTAAAAAACac > 1:2440226/1‑68 (MQ=255)
cTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATCGACGAGCTGCGTaaaa < 1:1151059/62‑1 (MQ=255)
cTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATCGACGAGCTGCGTaaaa < 1:2754409/62‑1 (MQ=255)
ttGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATCGACGAGCTGCGTaaaaaa < 1:3000979/59‑1 (MQ=255)
ttGCCCGCTACGGGCGCTGGATTTCGGACCTATCGACGAGCTGCGTaaaaaa < 1:2467035/52‑1 (MQ=255)
ttGCCCGCTACGGGCGCTGGATTTCGGACCTATCGACGAGCTGCGTaaaaaa < 1:2096578/52‑1 (MQ=255)
ttGCCCGCTACGGGCGCTGGATTTCGGACCTATCGACGAGCTGCGTaaaaaa < 1:1734795/52‑1 (MQ=255)
ttGCCCGCTACGGGCGCTGGATTTCGGACCTATCGACGAGCTGCGTaaaaaa < 1:1324400/52‑1 (MQ=255)
ttGCCCGCTACGGGCGCTGGATTTCGGACCTATCGACGAGCTGCGTaaaaaa < 1:2793834/52‑1 (MQ=255)
ttGCCCGCTACGGGCGCTGGATTTCGGACCTATCGACGAGCTGCGTaaaaaa < 1:1202253/52‑1 (MQ=255)
tacGGGCGCTGGATTTCGGACCTATCGACGAGCTGCGTaaaaaa < 1:1405285/42‑1 (MQ=38)
ttCGGCCCTATCGACGAGCTGCGTAAAAAACATGGCGATCTGGCGgccgttgcgccgttg > 1:2016841/1‑60 (MQ=255)
ttCGGCCCTATCGACGAGCTGCGTAAAAAACATGGCGATCTGGCGGCCGTTGCGCCGTTGCCGCGAGCt < 1:2515862/69‑1 (MQ=255)
ttCGGCCCTATCGACGAGCTGCGTAAAAAACATGGCGATCTGGCGGCCGTTGCGCCGTTGCCGCGAGCt < 1:90452/69‑1 (MQ=255)
ttCGGCCCTATCGACGAGCTGCGTAAAAAACATGGCGATCTGGCGGCCGTTGCGCCGTTGCCGCGAGCt > 1:287806/1‑69 (MQ=255)
|
ACCGTGTTGCGGAGGGTAAAAAGCCGATCTGTGTTGAATCTTGTCCGCTGCGGGCGCTGGATTTCGGCCCTATCGACGAGCTGCGTAAAAAACATGGCGATCTGGCGGCCGTTGCGCCGTTGCCGCGAGCT > minE/600504‑600634
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
