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 |
301,283 |
A→C |
10.9% |
V172G (GTG→GGG) |
yagT ← |
predicted xanthine dehydrogenase, 2Fe‑2S subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 301,283 | 0 | A | C | 10.9%
| 117.5
/ 11.0
| 55 | V172G (GTG→GGG) | yagT | predicted xanthine dehydrogenase, 2Fe‑2S subunit |
| Reads supporting (aligned to +/- strand): ref base A (22/27); new base C (3/3); total (25/30) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GTTTCTGGAGCGGAAACCAAATCGACCGTGACGTGACTGGGAATGCCGTCCTGAATCTCTTTTAGCACCGCTACTGATGAGCAAATTTGCCCGGAGGTGCAGTAGCCGCACTGGAAGCCATCATGCTTGATA > W3110S.gb/301217‑301348
|
gttTCTGGAGCGGAAACCAAATCGACCGTGACGTGACTGGGAATGCCGTCCTGAATCTCTTTTAGCACCGc > 1:36216/1‑71 (MQ=255)
gttTCTGGAGCGGAAACCAAATCGACCGTGACGTGACTGGGAATGCCGTCCTGAATCTCTTTTAGCACCGc > 1:3368661/1‑71 (MQ=255)
tCTGGAGCGGAAACCAAATCGACCGTGACGTGACTGGGAATGCCGTCCTGAATCTCTTTTAGCAc > 1:1440820/1‑65 (MQ=255)
tCTGGAGCGGAAACCAAATCGACCGTGACGTGACTGGGAATGCCGTCCTGAATCTCTTTTAGCACCGCTAc > 1:3732658/1‑71 (MQ=255)
gAGCGGAAACCAAATCGACCGTGACGTGACTGGGAATGCCGTCCTGAATCTCTTTTAGCACCGCTACt < 1:3635589/68‑1 (MQ=255)
gAGCGGAAACCAAATCGACCGTGACGTGACTGGGAATGCCGTCCTGAATCTCTTTTAGCACCGCTACt < 1:3009258/68‑1 (MQ=255)
cGGAAACCAAATCGACCGTGACGTGACTGGGAATGCCGTCCTGAATCTCTTTTAGCACCGc < 1:2309910/61‑1 (MQ=255)
cGGAAACCAAATCGACCGTGACGTGACTGGGAATGCCGTCCTGAATCTCTTTTAGCACCGc < 1:153853/61‑1 (MQ=255)
aaaCCAAATCGACCGTGACGTGACTGGGAATGCCGTCCTGAATCTCTTTTAGCa < 1:3664576/54‑1 (MQ=255)
aaCCAAATCGACCGTGACGTGACTGGGAATGCCGTCCTGAATCTCTTTTAGCCCCGCTACTGATGAGCaaa > 1:285191/1‑71 (MQ=255)
aaCCAAATCGACCGTGACGTGACTGGGAATGCCGTCCTGAATCTCTTTTAGCACCGCTACTGATGAGCaaa < 1:1112477/71‑1 (MQ=255)
aaCCAAATCGACCGTGACGTGACTGGGAATGCCGTCCTGAATCTCTTTTAGCACCGCTACTGATGAGCaaa < 1:705944/71‑1 (MQ=255)
aCCAAATCGACCGTGACGTGACTGGGAATGCCCTCCTGAATCTCTTTTAGCACCGCTACTGATGAGCAAAt < 1:2112096/71‑1 (MQ=255)
ccAAATCGACCGTGACGTGACTGGGAATGCCGTCCTGAATCTCTTTTAGCACCGCTACTGATGAGCaaa < 1:3291747/69‑1 (MQ=255)
cAAATCGACCGTGACGTGACTGGGAATGCCGTCCTGAATCTCTTTTAGCa > 1:4045708/1‑50 (MQ=255)
aaTCGACCGTGACGTGACTGGGAATGCCGTCCTGAATCTCTTTTAGCACCGCTACTGATGAGCAAATTTGc < 1:2475283/71‑1 (MQ=255)
aTCGACCGTGACGTGACTGGGAATGCCGTCCTGAATCTCTTTTAGCACCGCTa > 1:128706/1‑53 (MQ=255)
aTCGACCGTGACGTGACTGGGAATGCCGTCCTGAATCTCTTTTAGCACCGCTa > 1:489764/1‑53 (MQ=255)
gACCGTGACGTGACTGGGAATGCCGTCCTGAATCTCTTTTAGCACCGCTACTGATGAGCAAATTTGCCCgg < 1:2345008/71‑1 (MQ=255)
cctgacgtgacTGGGAATGCCGTCCTGAATCTCTTTTAGcccc < 1:527671/41‑1 (MQ=38)
tgacgtgacTGGGAATGCCGTCCTGAATCTCTTTTAGCACCGCTACTGATGAGCAAATTTGCCCGGAGGTg < 1:820650/71‑1 (MQ=255)
gacgtgacTGGGAATGCCGTCCTGAATCTCTTTTAGCCCCGCTACtgatga > 1:2448013/1‑51 (MQ=255)
gacgtgacTGGGAATGCCGTCCTGAATCTCTTTTAGCACCGCTACTGATGAGCAAATTTGCCCGGAGGTg > 1:4028378/1‑70 (MQ=255)
acgtgacTGGGAATGCCGTCCTGAATCTCTTTTAGCACCGc < 1:2032751/41‑1 (MQ=255)
acgtgacTGGGAATGCCGTCCTGAATCTCTTTTAGCACCGCTACTGATGAGCAAATTTGCCCGGAGGTGc < 1:1748404/70‑1 (MQ=255)
acgtgacTGGGAATGCCGTCCTGAATCTCTTTTAGCACCGCTACTGATGAGCAAATTTGCCCGGAGGTGCa < 1:865858/71‑1 (MQ=255)
gtgacTGGGAATGCCGTCCTGAATCTCTTTTAGCAc > 1:2534917/1‑36 (MQ=255)
gtgacTGGGAATGCCGTCCTGAATCTCTTTTAGCAc > 1:1351747/1‑36 (MQ=255)
gggAATGCCGTCCTGAATCTCTTTTAGCCCCGCTACTGATGAGCAAATTTGcc < 1:2034872/53‑1 (MQ=255)
ggAATGCCGTCCTGAATCTCTTTTAGCCCCGCTACTGATGAGCAAATTTGcc < 1:3375388/52‑1 (MQ=255)
ggAATGCCGTCCTGAATCTCTTTTAGCACCGCTACTGATGAGCAAATTTGCCCGGAGGTTCAGTAGCCg < 1:4607378/69‑1 (MQ=255)
ggAATGCCGTCCTGAATCTCTTTTAGCACCGCTACTGATGAGCAAATTTGCCCGGAGGTGCAGTAGCCg < 1:3830378/69‑1 (MQ=255)
aTGCCGTCCTGAATCTCTTTTAGCACCGCTACTGATGAGCAAATTTGCCCGGAGGTGCAg > 1:1873791/1‑60 (MQ=255)
aTGCCGTCCTGAATCTCTTTTAGCACCGCTACTGATGAGCAAATTTGCCCGGAGGTGCAGt > 1:3211641/1‑61 (MQ=255)
aTGCCGTCCTGAATCTCTTTTAGCACCGCTACTGATGAGCAAATTTGCCCGGAGGTGCAGt > 1:73781/1‑61 (MQ=255)
tGCCGTCCTGAATCTCTTTTAGCACCGCTACtgatg < 1:2540998/36‑1 (MQ=255)
ccGTCCTGAATCTCTTTTAGCCCCGCTACTGATGAGCAAATTTGCCCGGAGGTGCAGTAGCCGCACTgg > 1:1149696/1‑69 (MQ=255)
ccGTCCTGAATCTCTTTTAGCACCGCTACTGATGAGCAAATTTGCCCGGAGGTGCAGTAGCCGCAc > 1:4542570/1‑66 (MQ=255)
ccGTCCTGAATCTCTTTTAGCACCGCTACTGATGAGCAAATTTGCCCGGAGGTGCAGTAGCCGCACTgg > 1:748954/1‑69 (MQ=255)
cGTCCTGAATCTCTTTTAGCACCGCTACTGATGAGCAAATTTGCCCGGAGGTGCAGTAGCCGCACTGGAAg < 1:2994137/71‑1 (MQ=255)
tCCTGAATCTCTTTTAGCCCCGCTACTGATGAGCAAATTTGcc < 1:1928571/43‑1 (MQ=255)
cTGAATCTCTTTTAGCACCGCTACTGATGAGCAAATTTGCCCGGAGGTGCAGTa < 1:1389519/54‑1 (MQ=255)
cTGAATCTCTTTTAGCACCGCTACTGATGAGCAAATTTGCCCGGAGGTGCAGTAGCCGCACTGGAAGCcat > 1:2143418/1‑71 (MQ=255)
tGAATCTCTTTTAGCACCGCTACTGATGAGCAAATTTGCCCGGAGGTGCAGTAGCCGCACTGGAAGCcat > 1:439872/1‑70 (MQ=255)
tGAATCTCTTTTAGCACCGCTACTGATGAGCAAATTTGCCCGGAGGTGCAGTAGCCGCACTGGAAGCcat > 1:2257226/1‑70 (MQ=255)
tctcTTTTAGCACCGCTACTGATGAGCAAATTTGCCCgg < 1:866826/39‑1 (MQ=255)
tctcTTTTAGCACCGCTACTGATGAGCAAATTTGCCCgg < 1:2021903/39‑1 (MQ=255)
tctcTTTTAGCACCGCTACTGATGAGCAAATTTGCCCg < 1:1073862/38‑1 (MQ=255)
tctcTTTTAGCACCGCTACTGATGAGCAAATTTGCCCg < 1:189348/38‑1 (MQ=255)
tctcTTTTAGCACCGCTACTGATGAGCAAATTTGCCCGGAGGTGc < 1:4634602/45‑1 (MQ=255)
tctcTTTTAGCACCGCTACTGATGAGCAAATTTGCCCGGAGGTGCAGTAGCCGCACTGGAAGCcatca > 1:1641291/1‑68 (MQ=255)
ctctTTTAGCACCGCTACTGATGAGCAAATTTGCCCGGAGGTGCAGTAGCCGCACTGGAAGCCATCATGCt > 1:1770846/1‑71 (MQ=255)
tctTTTAGCACCGCTACTGATGAGCAAATTTGCCCGGAGGTGCAGTAGCCGCAc > 1:2332513/1‑54 (MQ=255)
ttttAGCACCGCTACTGATGAGCAAATTTGCCCGGAGGTGCAGTAGCCGCACTGGAAGCcat < 1:3063432/62‑1 (MQ=255)
ttAGCACCGCTACTGATGAGCAAATTTGCCCGGAGGTGCAGTAGCCGCACTGGAAGCcatca > 1:3729322/1‑62 (MQ=255)
ttAGCACCGCTACTGATGAGCAAATTTGCCCGGAGGTGCAGTAGCCGCACTGGAAGCcatca > 1:4468168/1‑62 (MQ=255)
tAGCACCGCTACTGATGAGCAAATTTGCCCGGAGGTGCAGTAGCCGCACTGGAAGCCATCATGCTTGATa < 1:411538/70‑1 (MQ=255)
tAGCACCGCTACTGATGAGCAAATTTGCCCGGAGGTGCAGTAGCCGCACTGGAAGCCATCATGCTTGATa < 1:2665450/70‑1 (MQ=255)
|
GTTTCTGGAGCGGAAACCAAATCGACCGTGACGTGACTGGGAATGCCGTCCTGAATCTCTTTTAGCACCGCTACTGATGAGCAAATTTGCCCGGAGGTGCAGTAGCCGCACTGGAAGCCATCATGCTTGATA > W3110S.gb/301217‑301348
|
| 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
