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 |
2,533,467 |
C→T |
24.0% |
G47S (GGT→AGT) |
ypeB ← |
hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,533,467 | 0 | C | T | 24.0%
| 97.0
/ 27.8
| 50 | G47S (GGT→AGT) | ypeB | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base C (18/20); new base T (7/5); total (25/25) |
| Fisher's exact test for biased strand distribution p-value = 7.42e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CTTCAGGGGCTGGACCAGTTGCGTCAGCCCCTCGGTTTTAATCAGCAGCGTGATTTGCATTAGCTCACCGAGCTTCCCTGCCGGGAACTCATCTTTGCGGGCAAACCACAGCAGATACTCCTCCGGCAGGTCGATTA > W3110S.gb/2533399‑2533535
|
cTTCAGGGGCTGGACCAGTTGCGTCAGCCCCTCGGTTTTAATCAGCAGCGTGATTTGCATTAGCTCACCGa < 1:1907231/71‑1 (MQ=255)
tCAGGGGCTGGACCAGTTGCGTCAGCCCCTCGGTTTTAATCAGCAGCGTGATTTGCATTAGCTCACCGAGc > 1:2661795/1‑71 (MQ=255)
ccAGTTGCGTCAGCCCCTCGGTTTTAATCAGCAGCGTGATTTGCATTAGCTCACCGAGCTTCCCTGCCggg < 1:1768952/71‑1 (MQ=255)
gCGTCAGCCCCTCGGTTTTAATCAGCAGCGTGATTTGCATTAGCTCACTGAGc < 1:2837296/53‑1 (MQ=255)
gCGTCAGCCCCTCGGTTTTAATCAGCAGCGTGATTTGCATTAGCTCACTGAGc < 1:1926656/53‑1 (MQ=255)
gCGTCAGCCCCTCGGTTTTAATCAGCAGCGTGATTTGCATTAGCTCACCGAGCTTcc > 1:65453/1‑57 (MQ=255)
gCGTCAGCCCCTCGGTTTTAATCAGCAGCGTGATTTGCATTAGCTCACCGAGCTTcc > 1:237454/1‑57 (MQ=255)
gCGTCAGCCCCTCGGTTTTAATCAGCAGCGTGATTTGCATTAGCTCACCGAGCTTCCCTGCCGGGAACTc > 1:2069709/1‑70 (MQ=255)
tCAGCCCCTCGGTTTTAATCAGCAGCGTGATTTGCATTAGCTCACTGAGCTTc < 1:3402901/53‑1 (MQ=255)
cAGCCCCTCGGTTTTAATCAGCAGCGTGATTTGCATTAGCTCACCGAGCTTCCCTGCCGGGAACTCATCtt > 1:4385573/1‑71 (MQ=255)
cTCGGTTTTAATCAGCAGCGTGATTTGCATTAGCTCACCGAGCTTCCCTGCCGGGAACTCATCTTTGCggg < 1:2411033/71‑1 (MQ=255)
cTCGGTTTTAATCAGCAGCGTGATTTGCATTAGCTCACCGAGCTTCCCTGCCGGGAACTCATCTTTGCg > 1:3189625/1‑69 (MQ=255)
tCGGTTTTAATCAGCAGCGTGATTTGCATTAGCTCACCGAGCTTCCCTGCCGGGAACTCATCTTTGCggg > 1:890692/1‑70 (MQ=255)
cGGTTTTAATCAGCAGCGTGATTTGCATTAGCTCACCGAGCTTccc > 1:1808397/1‑46 (MQ=255)
cGGTTTTAATCAGCAGCGTGATTTGCATTAGCTCACCGAGCTTCCCTGCCGGGAACTCATCTTTGCg > 1:390321/1‑67 (MQ=255)
ggTTTTAATCAGCAGCGTGATTTGCATTAGCTCACTGAGCTTCCCTGCCGGGAACTCATCTTTGCGGGCa > 1:5050538/1‑70 (MQ=255)
ggTTTTAATCAGCAGCGTGATTTGCATTAGCTCACTGAGCTTCCCTGCCGGGAACTCATCTTTGCGGGCa < 1:1103081/70‑1 (MQ=255)
ggTTTTAATCAGCAGCGTGATTTGCATTAGCTCACTGAGATTCCCTGCCGGGAACTCATCTTTGCGGGCa > 1:3692009/1‑70 (MQ=255)
ggTTTTAATCAGCAGCGTGATTTGCATTAGCTCACCGAGCTTCCCTGACGGGAACTCATCTTTGCGGGCaa < 1:3316390/71‑1 (MQ=255)
aaTCAGCAGCGTGATTTGCATTAGCTCACTGAGCTTCCCTGCCGGGAACTCATCTTTGCGGGCAAACcac < 1:4986763/70‑1 (MQ=255)
aTCAGCAGCTTGATTTGCATTAGCTCACCGAGCTTCCCTGCCg > 1:2979655/1‑43 (MQ=255)
aTCAGCAGCGTGATTTGCATTAGCTCACCGAGCTTCCCTGCCg > 1:1564464/1‑43 (MQ=255)
aTCAGCAGCGTGATTTGCATTAGCTCACCGAGCTTCCCTGCCg > 1:3718882/1‑43 (MQ=255)
aTCAGCAGCGTGATTTGCATTAGCTCACCGAGCTTCCCTGCCg > 1:2831761/1‑43 (MQ=255)
aTCAGCAGCGTGATTTGCATTAGCTCACCGAGCTTCCCTGCCg > 1:1827705/1‑43 (MQ=255)
aTCAGCAGCGTGATTTGCATTAGCTCACCGAGCTTCCCTGCCg > 1:2541293/1‑43 (MQ=255)
aTCAGCAGCGTGATTTGCATTAGCTCACCGAGCTTCCCTGCCGGGAACTCATCTTTGCGGGCAAAc < 1:3252389/66‑1 (MQ=255)
aTCAGCAGCGTGATTTGCATTAGCTCACCGAGCTTCCCTGCCGGGAACTCATCTTTGCGGGCAAAc < 1:3258189/66‑1 (MQ=255)
aTCAGCAGCGTGATTTGCATTAGCTCACCGAGCTTCCCTGCCGGGAACTCATCTTTGCGGGCAAAc < 1:1914050/66‑1 (MQ=255)
aTCAGCAGCGTGATTTGCATTAGCTCACCGAGCTTCCCTGCCGGGAACTCATCTTTGCGGGCAAACCAcag < 1:2916341/71‑1 (MQ=255)
aTCAGCAGCGTGATTTGCATTAGCTCACCGAGCTTCCCTGCCGGGAACTCATCTTTGCGGGCAAACCAcag < 1:2544133/71‑1 (MQ=255)
agcagcGTGATTTGCATTAGCTCACCGAGCTTCCCTGCCGGGAACTCATCTTTGCGGGCAAACCAcag > 1:2218603/1‑68 (MQ=255)
gcagcGTGATTTGCATTAGCTCACCGAGCTTCCCTGCCGGGAACTCATCTTTGCGGGCAAACCACAGCAGa < 1:2979501/71‑1 (MQ=255)
gcagcGTGATTTGCATTAGCTCACCGAGCTTCCCTGCCGGGAACTCATCTTTGCGGGCAAACCACAGCAGa < 1:886930/71‑1 (MQ=255)
gcagcGTGATTTGCATTAGCTCACCGAGCTTCCCTGCCGGGAACTCATCTTTGCGGGCAAACCACAGCAGa < 1:2005145/71‑1 (MQ=255)
gcagcGTGATTTGCATTAGCTCACCGAGCTTCCCTGCCGGGAACTCATCTTTGCGGGCAAACCACAGCAGa < 1:3785808/71‑1 (MQ=255)
cagcGTGATTTGCATTAGCTCACTGAGCTTCCCTGCCGGGAACTCATCTTTGCGGGCAAACCACAGCAGa > 1:5017505/1‑70 (MQ=255)
gcGTGATTTGCATTAGCTCACCGAGCTTCCCTGCCGGGAACTCATCTTTGCGGGCaa < 1:2223844/57‑1 (MQ=255)
gTGATTTGCATTAGCTCACTGAGCTTCCCTGCCGGGAACTCATCt > 1:922462/1‑45 (MQ=255)
gTGATTTGCATTAGCTCACCGAGCTTCCCTGCCggg < 1:3669585/36‑1 (MQ=255)
tGATTTGCATTAGCTCACTGAGCTTCCCTGCCGGGAACTCATCTTTGCggg > 1:327517/1‑51 (MQ=255)
tttGCATTAGCTCACCGAGCTTCCCTGCCGGGAACTCAt < 1:1969232/39‑1 (MQ=255)
tGCATTAGCTCACCGAGCTTCCCTGCCGGGAACTCATCTTTGc < 1:3117388/43‑1 (MQ=255)
tGCATTAGCTCACCGAGCTTCCCTGCCGGGAACTCATCTTTGCGGGCAAACCACAGCAGATACTCCTCCgg > 1:4923951/1‑71 (MQ=255)
gCATTAGCTCACTGAGCTTCCCTGCCGGGAACTCATCTTTGCGGGCAAACCAcagcag > 1:2821339/1‑58 (MQ=255)
gCATTAGCTCACTGAGCTTCCCTGCCGGGAACTCATCTTTGCGGGCAAACCAcagcag > 1:3159397/1‑58 (MQ=255)
cACCGAGCTTCCCTGCCGGGAACTCATCTTTGCGGGCAAACCACAGCAGATACTCCTCCGGCAGGTCGAt > 1:866461/1‑70 (MQ=255)
aCCGAGCTTCCCTGCCGGGAACTCATCTTTGCGGGCAAACCACAGCAGATACTCCTCCGGCAGGTCGAtt < 1:2387472/70‑1 (MQ=255)
aCCGAGCTTCCCTGCCGGGAACTCATCTTTGCGGGCAAACCACAGCAGATACTCCTCCGGCAGGTCGAtt < 1:3285422/70‑1 (MQ=255)
aCCGAGCTTCCCTGCCGGGAACTCATCTTTGCGGGCAAACCACAGCAGATACTCCTCCGGCAGGTCGATTa < 1:3460087/71‑1 (MQ=255)
ccGAGCTTCCCTGCCGGGAACTCATCTTTGCGGGCAAACCACAGCAGa < 1:2539775/48‑1 (MQ=255)
|
CTTCAGGGGCTGGACCAGTTGCGTCAGCCCCTCGGTTTTAATCAGCAGCGTGATTTGCATTAGCTCACCGAGCTTCCCTGCCGGGAACTCATCTTTGCGGGCAAACCACAGCAGATACTCCTCCGGCAGGTCGATTA > W3110S.gb/2533399‑2533535
|
| 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
