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 |
|
A5 F21 I0 R2
|
316 |
65.6 |
5147759 |
97.4% |
5013917 |
60.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,564,985 |
T→C |
29.8% |
F21L (TTT→CTT) |
yihS → |
predicted glucosamine isomerase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,564,985 | 0 | T | C | 29.8%
| 63.5
/ 37.4
| 47 | F21L (TTT→CTT) | yihS | predicted glucosamine isomerase |
| Reads supporting (aligned to +/- strand): ref base T (15/18); new base C (9/5); total (24/23) |
| Fisher's exact test for biased strand distribution p-value = 3.41e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TAAAAGGAATGAAATGGTTTAACACCCTAAGCCACAACCGTTGGCTGGAACAGGAAACCGACCGCATCTTTGATTTTGGTAAAAATTCCGTAGTGCCGACTGGTTTTGGCTGGTTAGGCAATAAAGGGCAAATCA > W3110S.gb/3564917‑3565051
|
tAAAAGGAATGAAATGGTTTAACACCCTAAGCCACAACCGTTGGCTGGAACAGGAAACCGACCGCATCttt < 1:4944489/71‑1 (MQ=255)
tAAAAGGAATGAAATGGTTTAACACCCTAAGCCACAACCGTTGGCTGGAACAGGAAACCGAACGCATCttt < 1:429655/71‑1 (MQ=255)
aaaaGGAATGAAATGGTTTAACACCCTAAGCCACAACCGTTGGCTGGAACAGGAAACCGACCGCATCctt > 1:1589011/1‑70 (MQ=255)
aaaaGGAATGAAATGGTTTAACACCCTAAGCCACAACCGTTGGCTGGAACAGGAAACCGACCGCATCctt > 1:4695779/1‑70 (MQ=255)
aGGAATGAAATGGTTTAACACCCTAAGCCACAACCGTTGGCTGGAACAGGAAACCGACCGCATCTTTGAtt < 1:2253590/71‑1 (MQ=255)
ggAATGAAATGGTTTAACACCCTAAGCCACAACCGTTGGCTGGAACAGGAAACCGACCGCATCTTTGAttt < 1:2982501/71‑1 (MQ=255)
gAAATGGTTTAACACCCTAAGCCACAACCGTTGGCTGGAACAGGAAACCGACCGCATCTTTGATTTTGGt > 1:1979839/1‑70 (MQ=255)
aaaTGGTTTAACACCCTAAGCCACAACCGTTGGCTGGAACAGGAAACCGACCGCATCTTTGATTTTGGTa < 1:2834635/70‑1 (MQ=255)
aaaTGGTTTAACACCCTAAGCCACAACCGTTGGCTGGAACAGGAAACCGACCGCATCCTTGATTTTGGTa > 1:4898519/1‑70 (MQ=255)
aTGGTTTAACACCCTAAGCCACAACCGTTGGCTGGAACAGGAAACCGACCGCATCTTTGATTTTGGTaaa > 1:3730606/1‑70 (MQ=255)
tGGTTTAACACCCTAAGCCACAACCGTTGGCTGGAACAGGAAACCGACCGCATCTTTGATTTTGGTaaaaa > 1:3738647/1‑71 (MQ=255)
tGGTTTAACACCCTAAGCCACAACCGTTGGCTGGAACAGGAAACCGACCGCATCCTTGATTTTGGTaaaaa < 1:3400643/71‑1 (MQ=255)
gTTTAACACCCTAAGCCACAACCGTTGGCTGGAACAGGAAACCGACCGCATCTTTGATTTTGGTAAAAAtt > 1:3520366/1‑71 (MQ=255)
tttAACACCCTAAGCCACAACCGTTGGCTGGAACAGGAAACCGACCGCATCCTTGATTTTGGTAAAAATTc < 1:5102347/71‑1 (MQ=255)
acacCCTAAGCCACAACCGTTGGCTGGAACAGGAAACCGACCGCATCTTTGATTTTGGTAAAAATTCCg < 1:3348542/69‑1 (MQ=255)
acacCCTAAGCCACAACCGTTGGCTGGAACAGGAAACCGACCGCATCTTTGATTTTGGTAAAAATTCCGt < 1:4186897/70‑1 (MQ=255)
acacCCTAAGCCACAACCGTTGGCTGGAACAGGAAACCGACCGCATCCTTGATTTTGGTAAAAATTCCGt < 1:4819518/70‑1 (MQ=255)
cccTAAGCCACAACCGTTGGCTGGAACAGGAAACCGACCGCATCTTTGATTTTGGTAAAAATTCCg < 1:3084037/66‑1 (MQ=255)
ccTAAGCCACAACCGTTGGCTGGAACAGGAAACCGACCGCATCt < 1:1681279/44‑1 (MQ=255)
cTAAGCCACAACCGTTGGCTGGAACAGGAAACCGACCGCATCTTTGATTTTGGTAAAAAt > 1:4126793/1‑60 (MQ=255)
cTAAGCCACAACCGTTGGCTGGAACAGGAAACCGACCGCATCTTTGATTTTGGTAAAAATTCCGTa > 1:850788/1‑66 (MQ=255)
cTAAGCCACAACCGTTGGCTGGAACAGGAAACCGACCGCATCTTTGATTTTGGTAAAAATTCCGTa > 1:182346/1‑66 (MQ=255)
cTAAGCCACAACCGTTGGCTGGAACAGGAAACCGACCGCATCTTTGATTTTGGTAAAAATTCCGTAGTGcc > 1:2747598/1‑71 (MQ=255)
cTAAGCCACAACCGTTGGCTGGAACAGGAAACCGACCGCATCTTTGATTTTGGTAAAAATTCCGTAGTGcc > 1:2902009/1‑71 (MQ=255)
cTAAGCCACAACCGTTGGCTGGAACAGGAAACCGACCGCATCCTTGATTTTGGTAAAAATTCCGTAGTGcc < 1:2667358/71‑1 (MQ=255)
tAAGCCACAACCGTTGGCTGGAACAGGAAACCGACCGCATCCTTGATTTTGGTAAAAATTCCGTAg > 1:597141/1‑66 (MQ=255)
aGCCACAACCGTTGGCTGGAACAGGAAACCGCCCGCATCTTTGATTTTGGTAAAAATTCCGTAGTgac > 1:4527379/1‑66 (MQ=255)
acaACCGTTGGCTGGAACAGGAAACCGACCGCATCCTTGATTTTGGTAAAAATTCCGTAGTGCCGACTGGt > 1:2428076/1‑71 (MQ=255)
acaACCGTTGGCTGGAACAGGAAACCGACCGCATCCTTGATTTTGGTAAAAATTCCGTAGTGCCGACTGGt > 1:3086710/1‑71 (MQ=255)
caACCGTTGGCTGCAACAGGAAACCGACCGCATCTTTGATTTTGGTAAAAATTCCGTAGTGCCGACTGGtt > 1:1938676/1‑71 (MQ=255)
aCCGTTGGCTGGAACAGTAAACCGACCGCATCTTTGATTTTGGTAAAAATTCCGTAGTGCCGACTGGtttt > 1:324013/1‑71 (MQ=255)
aCCGTTGGCTGGAACAGGAAACCGACCGCATCTTTGATTTTGGTAAAAATTCCGTAGTGCCGACTGGtttt < 1:3218888/71‑1 (MQ=255)
aCCGTTGGCTGGAACAGGAAACCGACCGCATCCTTGATTTTGGTAAAAATTCCGTAGTGCCGACTGGtttt > 1:3583797/1‑71 (MQ=255)
aCCGTTGGCTGGAACAGGAAACCGACCGCATCCTTGATTTTGGTAAAAATTCCGTAGTGCCGACTGGtttt > 1:3665382/1‑71 (MQ=255)
ccGTTGGCTGGAACAGGAAACCGACCGCATCCTTGATTTTGGTAAAAATTCCGTAGTGCCGACTGGTTTTg > 1:4579502/1‑71 (MQ=255)
tGGAACAGGAAACCGACCGCATCTTTGATTTTGGTAAAAATTCCGTAGTGCCGACTGGTTTTGGCTGGt > 1:1819521/1‑69 (MQ=255)
aaCAGGAAACCGACCGCATCTTTGATTTTGGTaaaaa > 1:99105/1‑37 (MQ=255)
aCAGGAAACCGACCGCATCTTTGATTTTGGTAAAAATTCCGTAGTGCCg < 1:4852940/49‑1 (MQ=255)
ggAAACCGACCGCATCTTTGATTTTGGTAAAAATTCCGTAGTGCCGACTGGTTTTGGCTGGTTAGGCAATa < 1:4782204/71‑1 (MQ=255)
ggAAACCGACCGCATCTTTGATTTTGGTAAAAATTCCGTAGTGCCGACTGGTTTTGGCTGGTTAGGCAATa < 1:2292615/71‑1 (MQ=255)
ggAAACCGACCGCATCCTTGATTTTGGTAAAAATTCCGTAGTGCCGACTGGTTTTGGCTGGTTAGGCAATa < 1:2291360/71‑1 (MQ=255)
gAAACCGACCGCATCTTTGATTTTGGTAAAAATTCCGTAGTGCCGACTGGTTTTGGCTGGTTAGGCAATa < 1:3163796/70‑1 (MQ=255)
ccgaccgCATCTTTGATTTTGGTAAAAATTCCGTAGTGCCGACTGGTTTTGGCTGGTTAGGCAAt < 1:4911379/65‑1 (MQ=255)
ccgaccgCATCTTTGATTTTGGTAAAAATTCCGTAGTGCCGACTGGTTTTGGCTGGTTAGGCAAt < 1:450566/65‑1 (MQ=255)
ccgCATCTTTGATTTTGGTAAAAATTCCGTAGTGCCGACTGGTTTTGGCTGGTTAGGCAATaa < 1:678707/63‑1 (MQ=255)
ccgCATCTTTGATTTTGGTAAAAATTACGTAGTGCCGACTGGTTTTGGCTGGTTAGGCAATaa < 1:1126025/63‑1 (MQ=255)
gCATCTTTGATTTTGGTAAAAATTCCGTAGTGCCGACTGGTTTTGGCTGGTTAGGCAATAAAg > 1:2561613/1‑63 (MQ=255)
cATCTTTGATTTTGGTAAAAATTCCGTAGTGCCGACTGGTTTTGGCTGGTTAGGCAATAAAGGGCAAATCa < 1:3193835/71‑1 (MQ=255)
cATCTTTGATTTTGGTAAAAATTCCGTAGTGCCGACTGGTTTTGGCTGGTTAGGCAATAAAGGGCAAATCa < 1:667402/71‑1 (MQ=255)
cATCCTTGATTTTGGTAAAAATTCCGTAGTGCCGACTGGTTTTGGCTGGTTAGGCAATAAAGGGCAAATc > 1:2391001/1‑70 (MQ=255)
aTCTTTGATTTTGGTAAAAATTCCGTAGTGCCGACTGGTTTTGGCTGGTTAGGCAATAAAGGTCAAATCa < 1:2067105/70‑1 (MQ=255)
aTCCTTGATTTTGGTAAAAATTCCGTAGTGCCGACTGGTTTTGGCTGGTTAGGCAATAAAg > 1:705403/1‑61 (MQ=255)
tttGATTTTGGTAAAAATTCCGTAGTGCCGACTGGTTTTGGCTGGTTa > 1:170701/1‑48 (MQ=255)
|
TAAAAGGAATGAAATGGTTTAACACCCTAAGCCACAACCGTTGGCTGGAACAGGAAACCGACCGCATCTTTGATTTTGGTAAAAATTCCGTAGTGCCGACTGGTTTTGGCTGGTTAGGCAATAAAGGGCAAATCA > W3110S.gb/3564917‑3565051
|
| 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
