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 |
2,413,837 |
T→C |
32.3% |
C277C (TGT→TGC) |
yfbQ → |
predicted aminotransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,413,837 | 0 | T | C | 32.3%
| 70.1
/ 53.2
| 62 | C277C (TGT→TGC) | yfbQ | predicted aminotransferase |
| Reads supporting (aligned to +/- strand): ref base T (19/23); new base C (3/17); total (22/40) |
| Fisher's exact test for biased strand distribution p-value = 2.46e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.92e-01 |
TGAACGGGCCGAAAAAACACGCCAAAGGCTACATCGAAGGTCTGGAAATGCTGGCTTCAATGCGCCTGTGTGCTAACGTTCCTGCGCAACACGCCATTCAGACCGCGCTAGGTGGTTATCAGAGCATCAGTGAATTTAT > W3110S.gb/2413767‑2413905
|
tGAACGGGCCGAAAAAACACGCCAAAGGCTACATCGAAGGTCTGGAAATGCTGGCTTCAATGCGCCtgtgt > 1:2058800/1‑71 (MQ=255)
aaCGGGCCGAAAAAACACGCCAAAGGCTACATCGAAGGTCTGGAAATGCTGGCTTCAATGCGCCTGTGTGc > 1:3400444/1‑71 (MQ=255)
cGGGCCGAAAAAACACGCCAAAGGCTACATCGAAGGTCTGGAAATGCTGGCTTCAATGCGCCTGTGTGCt > 1:1202076/1‑70 (MQ=255)
gggCCGAAAAAACACGCCAAAGGCTACATCGAAGGTCTGGAAATGCTGGCTTCAATGCGCCTGTGTGCTaa > 1:1686245/1‑71 (MQ=255)
gggCCGAAAAAACACGCCAAAGGCTACATCGAAGGTCTGGAAATGCTGGCTTCAATGCGCCTGTGTGCTaa > 1:1646261/1‑71 (MQ=255)
cGAAAAAACACGCCAAAGGCTACATCGAAGGTCTGGAAATGCTGGCTTCAATGCGCCTGTGTGCTAACGtt > 1:3241516/1‑71 (MQ=255)
aaaaaaCACGCCAAAGGCTACATCGAAGGTCTGGAAATGCTGGCTTCAATGCGCCTGTGTGCTAACGTTcc > 1:2118607/1‑71 (MQ=255)
aaaaaaCACGCCAAAGGCTACATCGAAGGTCTGGAAATGCTGGCTTCAATGCGCCTGTGTGCTAACGTTcc < 1:1676260/71‑1 (MQ=255)
acacGCCAAAGGCTACATCGAAGGTCTGGAAATGCTGGCTTCAATGCGCCTGTGTGCTAACGTTCCTgcgc < 1:3111599/71‑1 (MQ=255)
acGCCAAAGGCTACATCGAAGGTCTGGAAATGCTGGCTTCAATGCGGCTGTGCGCTa < 1:252662/57‑1 (MQ=39)
acGCCAAAGGCTACATCGAAGGTCTGGAAATGCTGGCTTCAATGCGCCTGTGTGCTAACGTTCCTGCGCaa < 1:3723667/71‑1 (MQ=255)
acGCCAAAGGCTACATCGAAGGTCTGGAAATGCTGGCTTCAATGCGCCTGTGCGCTa < 1:1537331/57‑1 (MQ=255)
acGCCAAAGGCTACATCGAAGGTCTGGAAATGCTGGCTTCAATGCGCCTGTGCGCTAACGTTCCTGCGCaa < 1:1654897/71‑1 (MQ=255)
acGCCAAAGGCTACATCGAAGGTCTGGAAATGCTGGCTTCAATGCGCCTGTGCGCTAACGTTCCTGCGCaa < 1:3729916/71‑1 (MQ=255)
cAAAGGCTACATCGAAGGTCTGGAAATGCTGGCTTCAATGCGCCTGTGCGCTAACGTTCCTGCGCAACACg < 1:197126/71‑1 (MQ=255)
aaGGCTACATCGAAGGTCTGGAAATGCTGGCTTCAATGCGCCTGTGTGCTAACGTTCCTGCGCAACACGcc < 1:1202979/71‑1 (MQ=255)
aGGCTACATCGAAGGTCTGGAAATGCTGGCTTCAATGCGCCTGTGTGCTAACGTTCCTGCGCaa > 1:3274796/1‑64 (MQ=255)
gCTACATCGAAGGTCTGGAAATGCTGGCTTCAATGCGCCTGTGCGCTAACGTTCCTGCGCAACACGCCAtt < 1:3356881/71‑1 (MQ=255)
gCTACATCGAAGGTCTGGAAATGCTGGCTTCAATGCGCCTGTGCGCTAACGTTCCTGCGCAACACGCCAtt < 1:1547878/71‑1 (MQ=255)
cTACATCGAAGGTCTGGAAATGCTGGCTTCAATGCGCCTGTGTGCTAACGTTCCTgcgc < 1:1042872/59‑1 (MQ=255)
cTACATCGAAGGTCTGGAAATGCTGGCTTCAATGCGCCTGTGTGCTAACGTTCCTGCGCAACACGCCATTc < 1:3532752/71‑1 (MQ=255)
cATCGAAGGTCTGGAAATGCTGGCTTCAATGCGCCTGTGTGCTAACGTTCCTGCGCAACACGCCATTCAg < 1:2599707/70‑1 (MQ=255)
aTCGAAGGTCTGGAAATGCTGGCTTCAATGCGCCTGTGCGCt < 1:2710861/42‑1 (MQ=255)
gAAGGTCTGGAAATGCTGGCTTCAATGCGCCTGTGTGCTAACGTTCCTGCGCAACACGCCa > 1:2716336/1‑61 (MQ=255)
gAAGGTCTGGAAATGCTGGCTTCAATGCGCCTGTGTGCTAACGTTCCTGCGCAACACGCCa > 1:4385379/1‑61 (MQ=255)
gAAGGTCTGGAAATGCTGGCTTCAATGCGCCTGTGTGCTAACGTTCCTGCGCAACACGCCATTCAGACcgc < 1:1340536/71‑1 (MQ=255)
gAAGGTCTGGAAATGCTGGCTTCAATGCGCCTGTGTGCTAACGTTCCTGCGCAACACGCCATTCAGACcgc < 1:2079938/71‑1 (MQ=255)
gAAGGTCTGGAAATGCTGGCTTCAATGCGCCTGTGTGCTAACGTTCCTGCGCAACACGCCATTCAGACcgc < 1:1214131/71‑1 (MQ=255)
gAAGGTCTGGAAATGCTGGCTTCAATGCGCCTGTGCGCTAACGTTCCTGCGCAACACGCCATTCAGACagc > 1:3206291/1‑71 (MQ=255)
ggTCTGGAAATGCTGGCTTCAATGCGCCTGTGTGCTAACGTTCCTGCGCAACACGCCATTCAGACCGCGCt < 1:3095314/71‑1 (MQ=255)
ggTCTGGAAATGCTGGCTTCAATGCGCCTGTGTGCTAACGTTCCTGCGCAACACGCCATTCAGACCGCGCt < 1:2678261/71‑1 (MQ=255)
ggTCTGGAAATGCTGGCTTCAATGCGCCTGTGTGCTAACGTTCCTGCGCAACACGCCATTCAGACCGCGCt < 1:980036/71‑1 (MQ=255)
cTGGAAATGCTGGCTTCAATGCGCCTGTGTGCTAACg > 1:1338312/1‑37 (MQ=255)
cTGGAAATGCTGGCTTCAATGCGCCTGTGTGCTAACGTTCCTGCGCAACACGCCATTCa > 1:2560911/1‑59 (MQ=255)
cTGGAAATGCTGGCTTCAATGCGCCTGTGTGCTAACGTTCCTGCGCAACACGCCATTCa > 1:4487770/1‑59 (MQ=255)
tGGAAATGCTGGCTTCAATGCGCCTGTGTGCTAAc < 1:1836622/35‑1 (MQ=255)
tGGAAATGCTGGCTTCAATGCGCCTGTGTGCTAACGTTCCTGCGCAACACGCCa < 1:1649821/54‑1 (MQ=255)
tGGAAATGCTGGCTTCAATGCGCCTGTGTGCTAACGTTCCTGCGCAACACGCCATTCAGACCGCGCTa < 1:3701504/68‑1 (MQ=255)
ggAAATGCTGTCTTCAATGCGCCTGTGTGCTAACGTTCCTGCGCAACACGCCa < 1:762218/53‑1 (MQ=255)
ggAAATGCTGGCTTCAATGCGCCTGTGTGCTAACGTTCCTGCGCaa < 1:4155144/46‑1 (MQ=255)
gAAATGCTGGCTTCAATGCGCCTGTGCGCTAACGTTCCTGCGCAACACGCCATTCAGACCGCGCTAggtgg > 1:2609350/1‑71 (MQ=255)
gAAATGCTGGCTTCAATGCGCCTGTGCGCTAACGTTCCTGCGCAACACGCCATTCAGACCGCGCTAggt < 1:3193562/69‑1 (MQ=255)
gAAATGCTGGCTTCAATGCGCCTGTGCGCTAACGTTCCTGCGCAACACGCCATTCAGACCGCGCTAgg < 1:3581902/68‑1 (MQ=255)
aaaTGCTGGCTTCAATGCGCCTGTGTGCTAACGTTCCTGCGCAACACGc > 1:2012941/1‑49 (MQ=255)
aaTGCTGGCTTCAATGCGCCTGTGTGCTAACGTTCCTGCGCAACACGCCATTCAGACCGCGCTAggtggt > 1:3697805/1‑70 (MQ=255)
aTGCTGGCTTCAATGCGCCTGTGCGCTAACGTTCCTGCGCAACACGCCATTCAGACCGCGCTAgg < 1:1623665/65‑1 (MQ=255)
aTGCTGGCTTCAATGCGCCTGTGCGCTAACGTTCCTGCGCAACACGCCATTCAGACCGCGCTAgg < 1:1470265/65‑1 (MQ=255)
aTGCTGGCTTCAATGCGCCTGTGCGCTAACGTTCCTGCGCAACACGCCATTCAGACCGCGCTAgg < 1:3609467/65‑1 (MQ=255)
tGCTGGCTTCAATGCGCCTGTGTGCTAACGTTCCTGCGCAACACGCCATTCAGACCGCGCTAGGTGGTTAt < 1:1435078/71‑1 (MQ=255)
tGCTGGCTTCAATGCGCCTGTGCGCTAACGTTCCTGCGCAACACGCCATTCAGACCGCGCTAgg < 1:1667088/64‑1 (MQ=255)
tGCTGGCTTCAATGCGCCTGTGCGCTAACGTTCCTGCGCAACACGCCATTCAGACCGCGCTAGGTGGTTAt < 1:1945848/71‑1 (MQ=255)
gCTGGCTTCAATGCGCCTGTTCGCTAACGTTCCTGCGCAACACGCCATTCAGACCGCGCTAGGTGGTTAt > 1:553523/1‑70 (MQ=255)
ggCTTCAATGCGCCTGTGTGCTAACGTTCCTGCGCAACACGCCATTCAGACCGCGCTAGGTGGTTATCa > 1:4534901/1‑69 (MQ=255)
ggCTTCAATGCGCCTGTGTGCTAACGTTCCTGCGCAACACGCCATTCAGACCGCGCTAGGTGGTTATCa > 1:289533/1‑69 (MQ=255)
gCTTCAATGCGCCTGTGCGCTAACGTTCCTGCGCAACACGCCATTCAGACCGCGCTAGGTGGTTATCag < 1:971060/69‑1 (MQ=255)
cTTCAATGCGCCTGTGTGCTAACGTTCCTGCGCAACACGCCATTCAGACCGCGCTAGGTGGTTATCAGAGc < 1:2978616/71‑1 (MQ=255)
cAATGCGCCTGTGTGCTAACGTTCCTGCGCAACACGCCATTCAGAc > 1:2322476/1‑46 (MQ=255)
aaTGCGCCTGTGTGCTAACGTTCCTGCGCAACACGCCATTc < 1:4609003/41‑1 (MQ=255)
aTGCGCCTGTGTGCTAACGTTCCTGCGCAACACGCCATTCAGACCGCGCTAGGTGGTTATCAGAGCATCAg < 1:1915642/71‑1 (MQ=255)
cgcCTGTGTGCTAACGTTCCTGCGCAACACGCCATTCAGACCGCGCTAGGTGGTTATCAGAGCATCAg > 1:2348760/1‑68 (MQ=255)
ccTGTGTGCTAACGTTCCTGCGCAACACGCCATTCAGACCGCGCTAGGTGGTTATc > 1:475666/1‑56 (MQ=255)
cTGTGTGCTAACGTTCCTGCGCAACACGCCATTCAGACCGCGCTAGGTGGTTATCAGAGCATCAGTGAAtt < 1:416142/71‑1 (MQ=255)
cTGTGCGCTAACGTTCCTGCGCAACACGCCATTCAGACCGCGCTAGGTGGTTATCAGAGCATCAGTGAAtt < 1:3940351/71‑1 (MQ=255)
tgtgtgCTAACGTTCCTGCGCAACACGCCATTCAGACCGCGCTAgg < 1:3206183/46‑1 (MQ=255)
tgtgtgCTAACGTTCCTGCGCAACACGCCATTCAGACCGCGCTAGGTGGTTATCAGAGCATCAGTGAAtt > 1:3496917/1‑70 (MQ=255)
tgtgCTAACGTTCCTGCGCAACACGCCATTCAGACCGCGCTAggtg < 1:1603503/46‑1 (MQ=255)
tgtgCTAACGTTCCTGCGCAACACGCCATTCAGACCGCGCTAg > 1:3361045/1‑43 (MQ=255)
tgtgCTAACGTTCCTGCGCAACACGCCATTCAGACCGCGCTAGGTGGTTAt < 1:4525588/51‑1 (MQ=255)
tgtgCTAACGTTCCTGCGCAACACGCCATTCAGACCGCGCTAGGTGGTTATCAGAGCATCAGTGAAtt < 1:2601429/68‑1 (MQ=255)
tgtgCTAACGTTCCTGCGCAACACGCCATTCAGACCGCGCTAGGTGGTTATCAGAGCATCAGTGAAtt < 1:3822184/68‑1 (MQ=255)
tgtgCTAACGTTCCTGCGCAACACGCCATTCAGACCGCGCTAGGTGGTTATCAGAGCATCAGTGAATttat > 1:1356163/1‑71 (MQ=255)
|
TGAACGGGCCGAAAAAACACGCCAAAGGCTACATCGAAGGTCTGGAAATGCTGGCTTCAATGCGCCTGTGTGCTAACGTTCCTGCGCAACACGCCATTCAGACCGCGCTAGGTGGTTATCAGAGCATCAGTGAATTTAT > W3110S.gb/2413767‑2413905
|
| 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
