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 |
|
A1 F8 I0 R1
|
311 |
50.1 |
4085234 |
95.9% |
3917739 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
690,095 |
A→G |
47.1% |
D403D (GAT→GAC) |
lnt ← |
apolipoprotein N‑acyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 690,095 | 0 | A | G | 47.1%
| ‑1.8
/ 46.7
| 34 | D403D (GAT→GAC) | lnt | apolipoprotein N‑acyltransferase |
| Reads supporting (aligned to +/- strand): ref base A (6/12); new base G (8/8); total (14/20) |
| Fisher's exact test for biased strand distribution p-value = 4.87e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.49e-01 |
GCCATGGACCAATAGATTTACCAAACCACGCATCGTTGGAGATAGTCAGCAGATAGTCGGTATCCGGGCGGAAGTTATCGCGCACTTGCTCGCCGAGAATGATCTCGTAGCAAATAGCCGCAGTAAGCTC > W3110S.gb/690034‑690163
|
gCCATGGACCAATAGATTTACCAAACCACGCATCGTTGGAGATAGTCAGCAGATAGTCGGTGTCCGGGCg > 1:1350057/1‑70 (MQ=255)
gACCAATAGATTTACGAAACCACGCATCGTTGGAGATAGTCAGCAGATAGTCGGTATCCGGGCGGAAGTTa > 1:3539825/1‑71 (MQ=255)
gACCAATAGATTTACCAAACCACGCATCGTTGGAGATAGTCAGCAGATAGTCGGTATCCGGGCGGAAGTTa > 1:3631908/1‑71 (MQ=255)
gACCAATAGATTTACCAAACCACGCATCGTTGGAGATAGTCAGCAGATAGTCGGTATCAGGGCGGAAGTTa > 1:3143508/1‑71 (MQ=255)
aTAGATTTACCAAACCACGCATCGTTGGAGATAGTCAGCAGATAGTCGGTATCCGGGCGGAAGTTATcgcg < 1:375419/71‑1 (MQ=255)
aTAGATTTACCAAACCACGCATCGTTGGAGATAGTCAGCAGATAGTCGGTATCCGGGCGGAAGTTATcgcg < 1:21484/71‑1 (MQ=255)
tAGATTTACCAAACCACGCATCGTTGGAGATAGTCAGCAGATAGTCGGTGTCCGGGCGGAAGTTATCgcgc < 1:2426452/71‑1 (MQ=255)
aTTTACCAAACCACGCATCGTTGGAGATAGTCAGCAGATAGTCGGTGTCCGGGCGGAAGTTATCgcgc < 1:2235084/68‑1 (MQ=255)
ttACCAAACCACGCATCGTTGGAGATAGTCAGCAGATAGTCGGTGTCCGGGCGGAAGTTATCGCGCAc > 1:3117198/1‑68 (MQ=255)
ttACCAAACCACGCATCGTTGGAGATAGTCAGCAGATAGTCGGTGTCCGGGCGGAAGTTATCGCGCAc > 1:3857927/1‑68 (MQ=255)
cATCGTTGGAGATAGTCAGCAGATAGTCGGTGTCCGGGCGGAAGTTATCGCGCACTTGCTCGCCGAGAATg < 1:2579453/71‑1 (MQ=255)
aTCGTTGGAGATAGTCAGCAGATAGTCGGTATCCGGGCGGAAGTTATCGCGCACTTGCTCGCCGAGAATg < 1:851623/70‑1 (MQ=255)
cGTTGGAGATACTCAGCAGATAGTCGGTATCCGGGCGGAAGTTATCGCGCACTTGCTCGCCGAGAATg < 1:1883575/68‑1 (MQ=255)
ttGGAGATAGTCAGCAGATAGTCGGTATCCGGGCGGAAGTTATCGCGCACTTGCTCGCCGAGAATGAtctc < 1:3856738/71‑1 (MQ=255)
gaTAGTCAGCAGATAGTCGGTGTCCGGGCGGAAGTTATCGCGCACTTGCTCGCCGAGAATGAt > 1:2464141/1‑63 (MQ=255)
gaTAGTCAGCAGATAGTCGGTGTCCGGGCGGAAGTTATCGCGCACTTGCTCGCCGAGAATGAt > 1:2850470/1‑63 (MQ=255)
gaTAGTCAGCAGATAGTCGGTGTCCGGGCGGAAGTTATCGCGCACTTGCTCGCCGAGAATGAt > 1:505880/1‑63 (MQ=255)
gaTAGTCAGCAGATAGTCGGTGTCCGGGCGGAAGTTATCGCGCACTTGCTCGCCGAGAATGAt > 1:3939987/1‑63 (MQ=255)
aTAGTCAGCAGATAGTCGGTGTCCGGGCGGAAGTTATCGCGCa < 1:2164113/43‑1 (MQ=255)
aTAGTCAGCAGATAGTCGGTGTCCGGGCGGAAGTTATCGCGCa < 1:476015/43‑1 (MQ=255)
aTAGTCAGCAGATAGTCGGTGTCCGGGCGGAAGTTATCGCGCACTTGCTCGCCGAGAATGATCTCGTAGCa < 1:2389998/71‑1 (MQ=255)
aTAGTCAGCAGATAGTCGGTATCCGGGCGGAAGTTATCGCGCACTTGCTCGCCGAGAATGATCTCGTAGc > 1:3208880/1‑70 (MQ=255)
aTAGTCAGCAGATAGTCGGTATCCGGGCGGAAGTTATCGCGCACTTGCTCGCCGAGAATGATCTCGTAGCa < 1:3570688/71‑1 (MQ=255)
aTAGTCAGCAGATAGTCGGTATCCGGGCGGAAGTTATCGCGCACTTGCTCGCCGAGAATGATCTCGTAGCa < 1:4084558/71‑1 (MQ=255)
tAGTCAGCAGATAGTCGGTATCCGGGCGGAAGTTATCGCGCACTTGCTCGCCGAGAATGATCTCGTAGCa < 1:1935991/70‑1 (MQ=255)
aGTCAGCAGATAGTCGGTGTCCGGGCGGAAGTTATCGCGCACTTGCTCGCCGAGAATGATCTCGTAGCaaa > 1:3826225/1‑71 (MQ=255)
tCAGCAGATAGTCGGTATCCGGGCGGAAGTTATCGCGCACTTGCTCGCCGAGAATGATCTCGTAGCa < 1:222491/67‑1 (MQ=255)
agcagATAGTCGGTATCCGGGCGGAAGTTATCGCGCACTTGCTCGCCGAGAATGATCTCGTAGCAAATAGc > 1:2191390/1‑71 (MQ=255)
agcagATAGTCGGTATCCGGGCGGAAGTTATCGCGCACTTGCTCGCCGAGAATGATCTCGTAGCAAATAGc > 1:1611137/1‑71 (MQ=255)
gTCGGTGTCCGGGCGGAAGTTATCGCGCACTTGCTCGCCGAGAATGATCTCGTAGCAAATAGCCGCAGTa < 1:1295379/70‑1 (MQ=255)
gTCGGTGTCCGGGCGGAAGTTATCGCGCACTTGCTCGCCGAGAATGATCTCGTAGCAAATAGCCGCAGTa < 1:2665795/70‑1 (MQ=255)
gTCGGTATCCGGGCGGAAGTTATCGCGCACTTGCTCGCCGAGAATg < 1:611010/46‑1 (MQ=255)
gTCGGTATCCGGGCGGAAGTTATCGCGCACTTGCTCGCCGAGAATGATCTCGTAGCAAATAGCCGCAGTa < 1:1476868/70‑1 (MQ=255)
gTATCCGGGCGGAAGTTATCGCGCACTTGCTCGCCGAGAATGATCTCGTAGCAAATAGCCGCAGTAAGCTc < 1:3752148/71‑1 (MQ=255)
|
GCCATGGACCAATAGATTTACCAAACCACGCATCGTTGGAGATAGTCAGCAGATAGTCGGTATCCGGGCGGAAGTTATCGCGCACTTGCTCGCCGAGAATGATCTCGTAGCAAATAGCCGCAGTAAGCTC > W3110S.gb/690034‑690163
|
| 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
