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 F3 I0 R2
|
260 |
44.3 |
3360226 |
90.5% |
3041004 |
64.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,380,993 |
C→T |
37.5% |
H466Y (CAT→TAT) |
ycjT → |
predicted hydrolase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,380,993 | 0 | C | T | 37.5%
| 30.1
/ 38.7
| 40 | H466Y (CAT→TAT) | ycjT | predicted hydrolase |
| Reads supporting (aligned to +/- strand): ref base C (4/21); new base T (6/9); total (10/30) |
| Fisher's exact test for biased strand distribution p-value = 1.35e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.48e-01 |
GCGCTACTTCTGGAGACGGCAAAGTTCTGGATTAGCCGCGCGGTGAGAGTTAACGATCGTCTGGAAATTCATGATGTTATTGGGCCAGACGAATATACCGAACATGTCAATAATAATGCATACACCAGCTATAT > W3110S.gb/1380924‑1381057
|
gcgcTACTTCTGGAGACGGCAAAGTTCTGGATTAGCCGCGCGGTGAGAGTTAACGATCGTCTGGAAATTc < 1:3215650/70‑1 (MQ=255)
gcgcTACTTCTGGAGACGGCAAAGTTCTGGATTAGCCGCGCGGTGAGAGTTAACGATCGTCTGGAAATTc < 1:2453315/70‑1 (MQ=255)
gcgcTACTTCTGGAGACGGCAAAGTTCTGGATTAGCCGCGCGGTGAGAGTTAACGATCGTCTGGAAATTc < 1:2658511/70‑1 (MQ=255)
gcgcTACTTCTGGAGACGGCAAAGTTCTGGATTAGCCGCGCGGTGAGAGTTAACGATCGTCTGGAAATTc < 1:75281/70‑1 (MQ=255)
gcgcTACTTCTGGAGACGGCAAAGTTCTGGATTAGCCGCGCGGTGAGAGTTAACGATCGTCTGGAAATTc < 1:1455880/70‑1 (MQ=255)
gcgcTACTTCTGGAGACGGCAAAGTTCTGGATTAGCCGCGCGGTGAGAGTTAACGATCGTCTGGAAATTc < 1:3300927/70‑1 (MQ=255)
gcgcTACTTCTGGAGACGGCAAAGTTCTGGATTAGCCGCGCGGTGAGAGTTAACGATCGTCTGGAAATTc < 1:1035623/70‑1 (MQ=255)
gcgcTACTTCTGGAGACGGCAAAGTTCTGGATTACCCGCGCGGTGAGAGTTAACGATCGTCTGGAAATTc < 1:2998563/70‑1 (MQ=255)
gcgcTACTTATGGAGACGGCAAAGTTCTGGATTAGCCGCGCGGTGAGAGTTAACGATCGTCTGGAAATTc < 1:456213/70‑1 (MQ=255)
cTTCTGGAGACGGCAAAGTTCTGGATTAGCCGCGCGGTGAGAGTTAACGATCGTCTGGAAATTCATGATGt < 1:747374/71‑1 (MQ=255)
cTTCTGGAGACGGCAAAGTTCTGGATTAGCCGCGCGGTGAGAGTTAACGATCGTCTGGAAATTCATGATGt < 1:2857700/71‑1 (MQ=255)
cTTCTGGAGACGGCAAAGTTCTGGATTAGCCGCGCGGTGAGAGTTAACGATCGTCTGGAAATTCATGATGt < 1:1128424/71‑1 (MQ=255)
cTTCTGGAGACGGCAAAGTTCTGGATTAGCCGCGCGGTGAGAGTTAACGATCGTCTGGAAATTCATGATGt < 1:1745274/71‑1 (MQ=255)
cTTCTGGAGACGGCAAAGTTCTGGATTAGCCGCGCGGTGAGAGTTAACGATCGTCTGGAAATTCATGATGt < 1:590778/71‑1 (MQ=255)
cTTCTGGAGACGGCAAAGTTCTGGATTAGCCGCGCGGTGAGAGTTAACGATCGTCTGGAAATTCATGATGt < 1:2604820/71‑1 (MQ=255)
cTTCTGGAGACGGCAAAGTTCTGGATTAGCCGCGCGGTGAGAGTTAACGATCGTCTGGAAATTCATGATGt < 1:2120150/71‑1 (MQ=255)
cGGCAAAGTTCTGGATTAGGCGCGCGGTGAGAGTTAACGATCGTCTGGAAATTCat < 1:2433401/56‑1 (MQ=255)
cGGCAAAGTTCTGGATTAGCCGCGCGGTGAGAGTTAACGATCGTCTGGAAATTCat < 1:2441557/56‑1 (MQ=255)
cGGCAAAGTTCTGGATTAGCCGCGCGGTGAGAGTTAACGATCGTCTGGAAATTCat < 1:382667/56‑1 (MQ=255)
cGGCAAAGTTCTGGATTAGCCGCGCGGTGAGAGTTAACGATCGTCTGGAAATTCat < 1:721287/56‑1 (MQ=255)
cGGCAAAGTTCTGGATTAGCCGCGCGGTGAGAGTTAACGATCGTCTGGAAATTCat < 1:2844527/56‑1 (MQ=255)
cGGCAAAGTTCTGGATTAGCCGCGCGGTGAGAGTTAACGATCGTCTGGAAATTCat < 1:2865091/56‑1 (MQ=255)
ggCAAAGTTCTGGATTAGCCGCGCGGTGAGAGTTAACGATCGTCTGGAAATTCATGATGTTATTGGGc > 1:1374341/1‑68 (MQ=255)
aGTTCTGGATTAGCGGCGCGGTGAGAGTTAACGATCGTCTGGAAATTCATGATGTTATTGGGCCAGACGaa < 1:1932050/71‑1 (MQ=255)
aGTTCTGGATTAGCCGCGCGGTGAGAGTTAACGATCGTCTGGAAATTCATGATGTTATTGGGCCAGACGaa < 1:3246456/71‑1 (MQ=255)
aGTTCTGGATTAGCCGCGCGGTGAGAGTTAACGATCGTCTGGAAATTCATGATGTTATTGGGCCAGACGaa < 1:1605639/71‑1 (MQ=255)
ggTGAGAGTTAACGATCGTCTGGAAATTTATGATGTTATTGGGCCAGACGAATATACCGAACATGTCaata < 1:334096/71‑1 (MQ=255)
ggTGAGAGTTAACGATCGTCTGGAAATTTATGATGTTATTGGGCCAGACGAATATACCGAACATGTCaata < 1:955219/71‑1 (MQ=255)
ggTGAGAGTTAACGATCGTCTGGAAATTTATGATGTTATTGGGCCAGACGAATATACCGAACATGTCaata < 1:3239611/71‑1 (MQ=255)
ggTGAGAGTTAACGATCGTCTGGAAATTTATGATGTTATTGGGCCAGACGAATATACCGAACATGTCaata < 1:3227964/71‑1 (MQ=255)
ggTGAGAGTTAACGATCGTCTGGAAATTTATGATGTTATTGGGCCAGACGAATATACCGAACATGTCaata < 1:1643347/71‑1 (MQ=255)
ggTGAGAGTTAACGATCGTCTGGAAATTTATGATGTTATTGGGCCAGACGAATATACCGAACATGTCaata < 1:167735/71‑1 (MQ=255)
ggTGAGAGTTAACGATCGTCTGGAAATTTAAGATGTTATTGGGCCAGACGAATATACCGAACATGTCaata < 1:2603384/71‑1 (MQ=255)
gTGAGAGTTAACGATCGTCTGGAAATTTATGATGTTATTGGGCCAGACGAATATACCGAACATGTCaata < 1:508613/70‑1 (MQ=255)
gTGAGAGTTAACGATCGTCTGGAAATTTATGATGTTATTGGGCCAGACGAATATACCGAACATGTCaata < 1:556103/70‑1 (MQ=255)
gagaGTTAACGATCGTCTGGAAATTTATGATGTTa > 1:991796/1‑35 (MQ=255)
gagaGTTAACGATCGTCTGGAAATTTATGATGTTa > 1:513231/1‑35 (MQ=255)
gagaGTTAACGATCGTCTGGAAATTTATGATGTTa > 1:3299568/1‑35 (MQ=255)
gagaGTTAACGATCGTCTGGAAATTTATGATGTTa > 1:3244736/1‑35 (MQ=255)
gagaGTTAACGATCGTCTGGAAATTTATGATGTTa > 1:1504048/1‑35 (MQ=255)
gagaGTTAACGATCGTCTGGAAATTTATGATGTTa > 1:1122095/1‑35 (MQ=255)
ttAACGATCGTCTGGAAATTCATGATGTTATTGGGCCAGACGAATATACCGAACATGTCAATAATAATGCa < 1:252277/71‑1 (MQ=255)
ttAACGATCGTCTGGAAATTCATGATGTTATTGGGCCAGACGAATATACCGAACATGTCAATAATAATGCa < 1:1722198/71‑1 (MQ=255)
ttAACGATCGTCTGGAAATTCATGATGTTATTGGGCCAGACGAATATACCGAACATGTCAATAATAATGCa < 1:1240547/71‑1 (MQ=255)
tGGAAATTCATGATGTTATTGGGCCAGACGAATATACCGAACATGTCAATAATAATGCATACACCAGCta < 1:2307680/70‑1 (MQ=255)
gAAATTCATGATGTTATTGGGCCAGACGAATATACCGAACATGTCAATAATAATGCATACACCAGCta < 1:950966/68‑1 (MQ=255)
gAAATTCATGATGTTATTGGGCCAGACGAATATACCGAACATGTCAATAATAATGCATACACCAGCTatat > 1:2228553/1‑71 (MQ=255)
gAAATTCATGATGTTATTGGGCCAGACGAATATACCGAACATGTCAATAATAATGCATACACCAGCTatat > 1:183635/1‑71 (MQ=255)
gAAATTCATGATGTTATTGGGCCAGACGAATATACCGAACATGTCAATAATAATGCATACACCAGCTatat > 1:1481289/1‑71 (MQ=255)
|
GCGCTACTTCTGGAGACGGCAAAGTTCTGGATTAGCCGCGCGGTGAGAGTTAACGATCGTCTGGAAATTCATGATGTTATTGGGCCAGACGAATATACCGAACATGTCAATAATAATGCATACACCAGCTATAT > W3110S.gb/1380924‑1381057
|
| 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
