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 R1
|
560 |
56.4 |
4650532 |
94.9% |
4413354 |
59.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,701,075 |
T→C |
30.4% |
L107L (TTA→TTG) |
rbsC ← |
D‑ribose transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,701,075 | 0 | T | C | 30.4%
| 58.9
/ 35.9
| 46 | L107L (TTA→TTG) | rbsC | D‑ribose transporter subunit |
| Reads supporting (aligned to +/- strand): ref base T (10/22); new base C (10/4); total (20/26) |
| Fisher's exact test for biased strand distribution p-value = 2.21e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.46e-01 |
GCGATAAACGCCTGGACGCGACCTTTCGCTACAATCACCCCGGTTACCGCACCAATTGCGGCACCTAACGCGAGAGCAGCAGCGACAGCCACCAGCGCATTGACTTCAATGCCGACGATAGATGCAGCAACTGCGC > W3110S.gb/3701010‑3701145
|
gCGATAAACGCCTGGACGCGACCTTTCGCTACAATCACCCCGGTTACCGCACCAATTGCGGCACCCAAcgc > 1:2248864/1‑71 (MQ=255)
gCGATAAACGCCTGGACGCGACCTTTCGCTACAATCACCCCGGTTACCGCACCAATTGCGGCACCCAAcgc > 1:1945899/1‑71 (MQ=255)
cGATAAACGCCTGGGCGCGACCTTTCGCTACAATCACCCCGGTTACCGCACCAATTGCGGCACCTAAcgc > 1:4327877/1‑70 (MQ=255)
aaaCGCCTGGACGCGACCTTTCGCTACAATCACCCCGGTTACCGCACCAATTGCGGCACCTAACGCGagag > 1:1886819/1‑71 (MQ=255)
aaaCGCCTGGACGCGACCTTTCGCTACAATCACCCCGGTTACCGCACCAATTGCGGCACCCAACGCga > 1:895918/1‑68 (MQ=255)
aaaCGCCTGGACGCGACCTTTCGCTACAATCACCCCGGTTACCGCACCAATTGCGGCACCCAACGCGagag > 1:2853903/1‑71 (MQ=255)
cGCCTGGACGCGACCTTTCGCTACAATCACCCCGGTTACCGCACCAATTGCGGCACCTAACGCGAGagcag < 1:307502/71‑1 (MQ=255)
cGCCTGGACGCGACCTTTCGCTACAATCACCCCGGTTACCGCACCAATTGCGGCACCTAACGCGAGagcag < 1:1761896/71‑1 (MQ=255)
gACGCGACCTTTCGCTACAATCACCCCGGTTACCGCACCAATTGCGGCACCTAACGCGAGagcagcagc < 1:2438725/69‑1 (MQ=255)
gACGCGACCTTTCGCTACAATCACCCCGGTTACCGCACCAATTGCGGCACCTAACGCGAGAGCAGCAGCg > 1:3259539/1‑70 (MQ=255)
gACGCGACCTTTCGCTACAATCACCCCGGTTACCGCACCAATTGCGGCACCTAACGCGAGAGCAGCAGCGa > 1:2626271/1‑71 (MQ=255)
gACGCGACCTTTCGCTACAATCACCCCGGTTACCGCACCAATTGCGGCACCTAACGCGAGAGCAGCAGCGa < 1:1355139/71‑1 (MQ=255)
gACGCGACCTTTCGCTACAATCACCCCGGTAACCGCACCAATTGCGGCACCTAACGCGAGAGCAGCAGCGa > 1:1845479/1‑71 (MQ=255)
gACCTTTCGCTACAATCACCCCGGTTACCGCACCAATTGCGGCACCTAACGCGAGAGCAGCAGCGACAGc > 1:4500258/1‑70 (MQ=255)
cTTTCGCTACAATCACCCCGGTTACCGCACCAATTGCGGCTCCCAACGCGAGAGCAGCAGCGACAGccacc < 1:336625/71‑1 (MQ=255)
cTTTCGCTACAATCACCCCGGTTACCGCACCAATTGCGGCACCTa < 1:2763347/45‑1 (MQ=255)
tttCGCTACAATCACCCCGGTTACCGCACCAATTGCGGCACCCAACGCGAGAGCAGCAGCGa > 1:3051819/1‑62 (MQ=255)
ttCGCTACAATCACCCCGGTTACCGCACCAATTGCGGCACCTAACGCGAGagcagcag > 1:3383618/1‑58 (MQ=255)
tACAATCACCCCGGTTACCGCACCAATTGCGGCACCTAACGCga > 1:3593241/1‑44 (MQ=255)
cAATCACCCCGGTTACCGCACCAATTGCGGCACCTAACGCGAGAGCAGCAGCGACAGCCACCAGCGCAtt < 1:2854155/70‑1 (MQ=255)
cAATCACCCCGGTTACCGCACCAATTGCGGCACCTAACGCGAGAGCAGCAGCGACAGCCACCAGCGCATTg < 1:835413/71‑1 (MQ=255)
cAATCACCCCGGTTACCGCACCAATTGCGGCACCCAACGCGAGAGCAGCAGCGACAGCCACCAGCGCAtt < 1:4419102/70‑1 (MQ=255)
aTCACCCCGGTTACCGCACCAATTGCGGCACCTAACGCGAGAGCAGCAGCGACAGCCACCAGCGCATTGAc < 1:4446267/71‑1 (MQ=255)
tCACCCCGGTTACCGCACCAATTGCGGCACCTAACGCGAGAGCAGCAGCGACAGCCACCAGCGCATTGACt < 1:2948581/71‑1 (MQ=255)
tCACCCCGGTTACCGCACCAATTGCGGCACCCAACGCGAGAGCAGCAGCGCCAGCCACCAGCGCATTGa > 1:1295865/1‑69 (MQ=255)
aCCCCGGTTACCGCACCAATTGCGGCACCTAACGCGAGAGCAGCAGCGACAGCCACCAGCGCATTGACTTc < 1:2170428/71‑1 (MQ=255)
aCCCCGGTTACCGCACCAATTGCGGCACCTAACGCGAGAGCAGCAGCGACAGCCACCAGCGCATTGACTTc < 1:3720405/71‑1 (MQ=255)
aCCCCGGTTACCGCACCAATTGCGGCACCTAACGCGAGAGCAGCAGCGACAGCCACCAGCGCATTGACTTc < 1:3221744/71‑1 (MQ=255)
aCCCCGGTTACCGCACCAATTGCGGCACCTAACGCGAGAGCAGCAGCGACAGCCACCAGCGCATTGACTTc < 1:1606238/71‑1 (MQ=255)
cGGTTACCGCACCAATTGCGGCACCCAACGCGAGAGCAGCAGCGACAGCCACCAGCGCATTGACTTc < 1:883910/67‑1 (MQ=255)
ttACCGCACCAATTGCGGCACCTAACGCGAGAGCAGCAGCGACAGCCACCAGCGCATTGACTTc < 1:758628/64‑1 (MQ=255)
aCCGCACCAATTGCGGCACCCAACGCGAGagcagca > 1:2588609/1‑36 (MQ=255)
aCCGCACCAATTGCGGCACCCAACGCGAGAGCAGCAGCGACAGc < 1:2749176/44‑1 (MQ=255)
aaTTGCGGCACCTAACGCGAGAGCAGCAGCGACAGccacc > 1:4269707/1‑40 (MQ=255)
aaTTGCGGCACCTAACGCGAGAGCAGCAGCGACAGCCACCAGCGCATTGACt < 1:580920/52‑1 (MQ=255)
ttGCGGCACCTAACGCGAGAGCAGCAGCGACAGCCACCAGCGCATTGACt < 1:201101/50‑1 (MQ=255)
ttGCGGCACCTAACGCGAGAGCAGCAGCGACAGCCACCAGCGCATTGACTTCAATGCCGACGATAGATgc < 1:3018083/70‑1 (MQ=255)
tGCGGCACCTAACGCGAGAGCAGCAGCGACAGCCACCAGCGCATTGACTTCAATGCCGACGATAGATgcag > 1:2580193/1‑71 (MQ=255)
gCGGCACCCAACGCGAGAGCAGCAGCGACAGCCACCAGCGCATTGACTTCAATGCCGACGATAGATgcag > 1:3859240/1‑70 (MQ=255)
gCGGCACCCAACGCGAGAGCAGCAGCGACAGCCACCAGCGCATTGACTTCAATGCCGACGATAGATgcag > 1:2582747/1‑70 (MQ=255)
cACCCAACGCGAGAGCAGAAGCGACAGCCACCAGCGCATTGACTTCaa > 1:887317/1‑48 (MQ=38)
ccTAACGCGAGAGCAGCAGCGACAGCCACCAGCGCATTGACTTCAATGCCGACGATAGATgcagca < 1:109284/66‑1 (MQ=255)
ccTAACGCGAGAGCAGCAGCGACAGCCACCAGCGCATTGACTTCAATGCCGACGATAGATGCAGCAACTgc < 1:1893667/71‑1 (MQ=255)
cTAACGCGAGAGCAGCAGCGACAGCCACCAGCGCATTGACTTc < 1:4375767/43‑1 (MQ=255)
cTAACGCGAGAGCAGCAGCGACAGCCACCAGCGCATTGACTTc < 1:3600293/43‑1 (MQ=255)
cTAACGCGAGAGCAGCAGCGACAGCCACCAGCGCATTGACTTc < 1:1906354/43‑1 (MQ=255)
tAACGCGAGAGCAGCAGCGACAGCCACCAGCGCATTGACTTCaa < 1:3981423/44‑1 (MQ=255)
tAACGCGAGAGCAGCAGCGACAGCCACCAGCGCATTGACTTCAATGCCGACGATAGATGCAGCAACTgcgc > 1:1034713/1‑71 (MQ=255)
tAACGCGAGAGCAGCAGCGACAGCCACCAGCGCATTGACTTCAATGACGACGATAGa > 1:3631604/1‑57 (MQ=255)
|
GCGATAAACGCCTGGACGCGACCTTTCGCTACAATCACCCCGGTTACCGCACCAATTGCGGCACCTAACGCGAGAGCAGCAGCGACAGCCACCAGCGCATTGACTTCAATGCCGACGATAGATGCAGCAACTGCGC > W3110S.gb/3701010‑3701145
|
| 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
