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 F21 I0 R1
|
476 |
35.3 |
2812105 |
96.7% |
2719305 |
61.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,404,742 |
G→A |
83.5% |
intergenic (+429/‑549) |
yhdH → / → accB |
predicted oxidoreductase, Zn‑dependent and NAD(P)‑binding/acetyl CoA carboxylase, BCCP subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,404,742 | 0 | G | A | 83.5%
| 143.4
/ 22.2
| 62 | intergenic (+429/‑549) | yhdH/accB | predicted oxidoreductase, Zn‑dependent and NAD(P)‑binding/acetyl CoA carboxylase, BCCP subunit |
| Reads supporting (aligned to +/- strand): ref base G (4/6); new base A (22/29); total (26/36) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.59e-01 |
TAATTTTGCGTGCTTTAGCATTCACATCTATCCAGACGATGCAGTGAAAATTGGGTAATCCCCAGCAACCGCTGCGTAATGTCGTCTATCTTGTCGCGATCCTGGCATCCCTACATTATTTGTGGTCTGTGAAGAT > W3110S.gb/3404672‑3404807
|
tAATTTTGCGTGCTTTAGCATTCACATCTATCCAGACGATGCAGTGAAAATTGGGTAATCCCCAGCAACCg > 1:5331/1‑71 (MQ=255)
gCGTGCTTTAGCATTCACATCTATCCAGACGATGCAGTGAAAATTGGGTAATCCCCAGCAACCACTGCGt < 1:1630545/70‑1 (MQ=255)
gTGCTTTAGCATTCACATCTATCCAGACGATGCAGTGAAAATTGGGTAATCCCCAGCAACCACTGCGTAAt < 1:199360/71‑1 (MQ=255)
gTGCTTTAGCATTCACATCTATCCAGACGATGCAGTGAAAATTGGGTAATCCCCAGCAACCACTGCGTAAt < 1:2371181/71‑1 (MQ=255)
gTGCTTTAGCATTCACATCTATCCAGACGATGCAGTGAAAATTGGGTAATCCCCAGCAACCACTGCGTAAt < 1:443887/71‑1 (MQ=255)
tGCTTTAGCATTCACATCTATCCAGACGATGCAGTGAAAATTGGGTAATCCCCAGCAACCACTGCGTAATg > 1:2584729/1‑71 (MQ=255)
cTTTAGCATTCACATCTATCCAGACGATGCAGTGAAAATTGGGTAATCCCCAGCAACCACTGCGTAATgtc > 1:704199/1‑71 (MQ=255)
gCATTCACATCTATCCAGACGATGCAGTGAAAATTGGGTAATCCCCAGCAACCGCTGCGTAATGTCGTCt < 1:441231/70‑1 (MQ=255)
cacaTCTATCCAGACGATGCAGTGAAAATTGGGTAATCCCCAGCAACCACTGCGTaa > 1:507594/1‑57 (MQ=255)
cacaTCTATCCAGACGATGCAGTGAAAATTGGGTAATCCCCAGCAACCACTGCGTaa > 1:2802190/1‑57 (MQ=255)
cacaTCTATCCAGACGATGCAGTGAAAATTGGGTAATCCCCAGCAACCACTGCGTAAt > 1:1039916/1‑58 (MQ=255)
cacaTCTATCCAGACGATGCAGTGAAAATTGGGTAATCCCCAGCAACCACTGCGTAATgt > 1:1588496/1‑60 (MQ=255)
cacaTCTATCCAGACGATGCAGTGAAAATTGGGTAATCCCCAGCAACCACTGCGTAATGTCGTCTATCtt < 1:311887/70‑1 (MQ=255)
cacaTCTATCCAGACGATGCAGTGAAAATTGGGTAATCCCCAGCAACCACTGCGTAATGTCGTCTATCTTg > 1:212014/1‑71 (MQ=255)
caTCTATCCAGACGATGCAGTGAAAATTGGGTAATCCCCAGCAACCACTGCGTAATGTCGTCTATCTTGTc > 1:2185242/1‑71 (MQ=255)
tCTATCCAGACGATGCAGTGAAAATTGGGTAATCCCCAGCAACCGCTGCGTAATGTCGTCTATc > 1:449854/1‑64 (MQ=255)
cTATCCAGACGATGCAGTGAAAATTGGGTAATCCCCAGCAACCACTGCGTAATGTCGTCTATCTTGTcgc > 1:1239119/1‑70 (MQ=255)
cTATCCAGACGATGCAGTGAAAATTGGGTAATCCCCAGCAACCACTGCGTAATGTCGTCTATCTTGTcgc > 1:1864707/1‑70 (MQ=255)
tATCCAGACGATGCAGTGAAAATTGGGTAATCCCCAGCAACCACTGCGTAATGTCGTCTATCTTGTCGCGa > 1:2199876/1‑71 (MQ=255)
tCCAGACGATGCAGTGAAAATTGGGTAATCCCCAGCAACCACTGCGTAATGTCGTCTATCTTGTCGCGAt < 1:1716288/70‑1 (MQ=255)
aGACGATGCAGTGAAAATTGGGTAATCCCCAGCAACCACTGCGTAATGTCGTCTATCTTGTCGCGATCCTg < 1:1195235/71‑1 (MQ=255)
gACGATTCAGTGAAAATTGGGTAATCCCCAGCAACCACTGCGTAATGTCGTCt < 1:689106/53‑1 (MQ=255)
gACGATGCAGTGAAAATTGGGTAATCCCCAGCAACCACTGCGTAATGTCGTCt < 1:973278/53‑1 (MQ=255)
aCGATGCAGTGAAAATTGGGTAATCCCCAGCAACCGCTGCGTaa > 1:1663323/1‑44 (MQ=255)
aCGATGCAGTGAAAATTGGGTAATCCCCAGCAACCACTGCGTAATgtcgtc < 1:2473665/51‑1 (MQ=255)
cGATGCAGTGAAAATTGGGTAATCCCCAGCAACCACTGCGTAATGTCGTCTATCttt > 1:463842/1‑56 (MQ=255)
gATGCAGTGAAAATTGGGTAATCCCCAGCAACCACTGCGTAATGTCGTCTATCTTGTCGCGATCCTGGCAt > 1:265920/1‑71 (MQ=255)
aTGCAGTGAAAATTGGGTAATCCCCAGCAACCACTGCGTAATGTCGTCTATCtt < 1:659932/54‑1 (MQ=255)
aTGCAGTGAAAATTGGGTAATCCCCAGCAACCACTGCGTAATGTCGTCTATCtt < 1:30055/54‑1 (MQ=255)
aTGCAGTGAAAATTGGGTAATCCCCAGCAACCACTGCGTAATGTCGTCTATCtt < 1:2793637/54‑1 (MQ=255)
tGCAGTGAAAATTGGGTAATCCCCAGCAACCGCTGCGTAATGTCGTCTATCTTGTcgcg < 1:1688838/59‑1 (MQ=255)
cAGTGAAAATTGGGTAATCCCCAGCAACCGCTGCGTAATGTCGTCTATCTTGTCGCGATCCTGGCATcc > 1:64052/1‑69 (MQ=255)
tGAAAATTGGGTAATCCCCAGCAACCACTGCGTAATGTCGTCTATCTTg < 1:1637231/49‑1 (MQ=255)
tGAAAATTGGGTAATCCCCAGCAACCACTGCGTAATGTCGTCTATCTTGTCGCGATCCTGGCATCCCTACa < 1:2527485/71‑1 (MQ=255)
gAAAATTGGGTAATCCCCAGCAACCACTGCGTAAt > 1:1097778/1‑35 (MQ=255)
gAAAATTGGGTAATCCCCAGCAACCACTGCGTAATGTCGTCTATCTTg < 1:1704397/48‑1 (MQ=255)
aaaaTTGGGTAATCCCCAGCAACCACTGCGTAATGTCGTCTATCTTTTCGCGATCCTGGCATGCCTACat > 1:488941/1‑70 (MQ=255)
aaaaTTGGGTAATCCCCAGCAACCACTGCGTAATGTCGTCTATCTTGTCGCGATCCTGGCATCCCTACat > 1:2733092/1‑70 (MQ=255)
aaaaTTGGGTAATCACCAGCAACCACTGCGTAATGTCGTCTAt > 1:2259406/1‑43 (MQ=38)
aaaaTTGGGTAATCACCAGCAACCACTGCGTAATGTCGTCTATcg > 1:2262597/1‑44 (MQ=38)
aaaTTGGGTAATCCCCAGCAACCACTGCGTAATGTCGTCTATCTTGTCGCGATCCTGGCATCCCTACatta < 1:489854/71‑1 (MQ=255)
aTTGGGTAATCCCCAGCAACCACTGCGTAATGTCGTCTATCTTGTCGCGATCCTGGCATCCCTACattatt < 1:1157058/71‑1 (MQ=255)
tAATCCCCAGCAACCACTGCGTAATGTCGTCTATCTTGTCGCGATCCTGGc < 1:146564/51‑1 (MQ=255)
tAATCCCCAGCAACCACTGCGTAATGTCGTCTATCTTGTCGCGATCCTGGc < 1:1008269/51‑1 (MQ=255)
aaTCCCCAGCAACCACTGCGTAATGTCGTCTATCTTGTCGCGCTCCTGGCATccc > 1:944622/1‑55 (MQ=38)
tCCCCAGCAACCACTGCGTAATGTCGTCTATCTTGTCGCGATCCTGGCATCCCTACATTATTTGTGGTCtg > 1:887192/1‑71 (MQ=255)
cccAGCAACCGCTGCGTAATGTCGTCTATCTTGTCGCGATCCTGGCATCCCTACATTATTTGTGGTCtgtg < 1:1751698/71‑1 (MQ=255)
cccAGCAACCACTGCGTAATGTCGTCTATCTTGTcgc > 1:1112532/1‑37 (MQ=255)
cAGCAACCACTGCGTAATGTCGTCTATCTTGTcgc > 1:96545/1‑35 (MQ=255)
cAGCAACCACTGCGTAATGTCGTCTATCTTGTCGCGATCCTGGCATCCCTACATTATTTGTGGTCTGTGaa < 1:1091763/71‑1 (MQ=255)
cAGCAACCACTGCGTAATGTCGTCTATCTTGTCGCGATCCTGGCATCCCTACATTATTTGTGGTCTGTGaa < 1:1583074/71‑1 (MQ=255)
cAGCAACCACCGCGTAATGTCGTCTATCTTGTCGCGATCCTGGCATCCCTACATTATTTGTGGTCTGTGaa < 1:1106830/71‑1 (MQ=255)
aGCAACCTCTGCGTAATGTCGTCTATCTTGTCGCGATCCTGGCATCCCTACATTATTTGTGGTCTGTGAAg < 1:651100/71‑1 (MQ=255)
aGCAACCGCTGCGTAATGTCGTCTATCTTGTCGCGATCCTGGCATCCCTACATTATTTGTGGTCTGTGAAg < 1:2047356/71‑1 (MQ=255)
aGCAACCACTGCGTAATGTCGTCTATCTTGTCGCGATCCTGGCATCCCTACATTATTTGTGGTCTGTGAAg < 1:1122396/71‑1 (MQ=255)
cAACCGCTGCGTAATGTCGTCTATCTTGTCGCGATCCTGGCATCCCTACATTATTtgtg < 1:1466295/59‑1 (MQ=255)
cAACCACTGCGTAATGTCGTCTATCTTGTCGCGATCCTGGCATCCCTACATTATTTGTGGTCTGTGaa < 1:1747526/68‑1 (MQ=255)
cAACCACTGCGTAATGTCGTCTATCTTGTCGCGATCCTGGCATCCCTACATTATTTGTGGTCTGTGAAGAt < 1:2716913/71‑1 (MQ=255)
cAACCACTGCGTAATGTCGTCTATCTTGTCGCGATCCTGGCATCCCTACATTATTTGTGGTCTGTGAAGAt < 1:2228022/71‑1 (MQ=255)
cAACCACTGCGTAATGTCGTCTATCTTGTCGCGATCCTGGCATCCCTACATTATTTGTGGTCTGTGAAGAt < 1:2199610/71‑1 (MQ=255)
aCCGCTGCGTAATGTCGTCTATCTTGTCGCGATCCTGGCATCCCTACATTATTTGTGGTCTGTGAAGAt < 1:642308/69‑1 (MQ=255)
aCCGCTGCGTAATGACGTCTATCTTGTCGCGATCCTGGCATCCCTACATTATTTGTGGTCTGTGaa > 1:2765175/1‑66 (MQ=255)
aCCACTGCGTAATGTCGTCTATCTTGTCGCGATCCTGGCATCCCTACatt < 1:1322194/50‑1 (MQ=255)
gCTGCGTAATGTCGTCTATCTTGTCGCGATCCTGGCATCCCTACATTATTTGTGGTCTGTGa > 1:2392248/1‑62 (MQ=255)
|
TAATTTTGCGTGCTTTAGCATTCACATCTATCCAGACGATGCAGTGAAAATTGGGTAATCCCCAGCAACCGCTGCGTAATGTCGTCTATCTTGTCGCGATCCTGGCATCCCTACATTATTTGTGGTCTGTGAAGAT > W3110S.gb/3404672‑3404807
|
| 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
