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 F8 I0 R2
|
422 |
46.8 |
3726540 |
94.7% |
3529033 |
61.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,164,775 |
C→T |
63.2% |
A534T (GCA→ACA) |
ygiS ← |
predicted transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,164,775 | 0 | C | T | 63.2%
| 46.4
/ 60.0
| 57 | A534T (GCA→ACA) | ygiS | predicted transporter subunit |
| Reads supporting (aligned to +/- strand): ref base C (8/13); new base T (21/15); total (29/28) |
| Fisher's exact test for biased strand distribution p-value = 1.75e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.80e-01 |
GAGTCACAGGAGATCAACGTGAATAGCGCCGCCGGACGTGCTCCGACGGCGATAAAGGCATCAATGTGCCTTGATATACAACTCTTTGCTGTAGACATAATCCTGGGGATTATGCAGCGGAAAACCGCCAACGTAGG > W3110S.gb/3164707‑3164843
|
gAGTCACAGGAGATCAACGTGAATAGCGCCGCCGGACGTGCTCCGACGGCGATAAAGGCATCAATGTGCCt > 1:50708/1‑71 (MQ=255)
gAGTCACAGGAGATCAACGTGAATAGCGCCGCCGGACGTGCTCCGACGGCGATAAAGGCATCAATGTGCCt > 1:269150/1‑71 (MQ=255)
gTCACAGGAGATCAACGTGAATAGCGCCGCCGGACGTGCTCCGACGGCGATAAAGGCATCAATGTGTCTTg < 1:2992823/71‑1 (MQ=255)
acaGGAGATCAACGTGAATAGCGCCGCCGGACGTGCTCCGACGGCGATAAAGGCATCAATGTGTCTTGata > 1:2565687/1‑71 (MQ=255)
ggAGATCAACGTGAATAGCGCCGCCGGACGTGCTCCGACGGCGATAAAGGCATCAATGTGTCTTGAtata > 1:1085939/1‑70 (MQ=255)
ggAGATCAACGTGAATAGCGCCGCCGGACGTGCTCCGACGGCGATAAAGGCATCAATGTGTCTTGAtata > 1:868002/1‑70 (MQ=255)
ggAGATCAACGTGAATAGCGCCGCCGGACGTGCTCCGACGGCGATAAAGGCATCAATGTGTCTTGAtata > 1:1833404/1‑70 (MQ=255)
cAACGTGAATAGCGCCGCCGGACGTGCTCCGACGGCGATAAAGGCATCAATGTGTCTTGata > 1:997464/1‑62 (MQ=255)
cAACGTGAATAGCGCCGCCGGACGTGCTCCGACGGCGATAAAGGCATCAATGTGTCTTGATATACAActct > 1:2342623/1‑71 (MQ=255)
cAACGTGAATAGCGCCGCCGGACGTGCTCCGACGGCGATAAAGGCATCAATGTGTCTTGATATACAActct > 1:2672024/1‑71 (MQ=255)
cAACGTGAATAGCGCCGCCGGACGTGCTCCGACGGCGATAAAGGCATCAATGTGTCTTGATATACAActct > 1:2476120/1‑71 (MQ=255)
cAACGTGAATAGCGCCGCCGGACGTGCTCCGACGGCGATAAAGGCATCAATGTGTCTTGATATACAActct > 1:2016528/1‑71 (MQ=255)
aaCGTGAATAGCGCCGCCGGACGTGCTCCGACGGCGATAAAGGCATCAATGTGTCTTGATATACAACTCtt > 1:1661633/1‑71 (MQ=255)
aaCGTGAATAGCGCCGCCGGACGTGCTCCGACGGCGATAAAGGCATCAATGTGTCTTGATATACAACTCtt > 1:603904/1‑71 (MQ=255)
aaTAGCGCCGCCGGACGTGCTCCGACGGCGATAAAGGCATCAATGTGTCTTGATATACAACTCTTTGCTg > 1:1629005/1‑70 (MQ=255)
gcgcCGCCGGACGTGCTCTGACGGCGATAAAGGCATCAATGTGTCTTGATATACAACTCTTTGCTGTa > 1:594048/1‑68 (MQ=255)
gcgcCGCCGGACGTGCTCCGACGGCGATAAAGGCATCAATGTGTCTTGATATACAACTCTTTGCTGTa > 1:1540557/1‑68 (MQ=255)
gcgcCGCCGGACGTGCTCCGACGGCGATAAAGGCATCAATGTGCCTTGATATACAACTCTTTGCTGTAGa < 1:2247740/70‑1 (MQ=255)
cgGACGTGCTCCGACGGCGATAAAGGCATCAATGTGCCTTGATATACAACTCTTTGCTGTAGACATAATcc < 1:417538/71‑1 (MQ=255)
cgGACGTGCTCCGACGGCGATAAAGGCATCAATGTGCCTTGATATACAACTCTTTGCTGTAGACATAATcc < 1:432149/71‑1 (MQ=255)
ggACGTGCTCCGACGGCGATAAAGGCATCAATGTGCCTTGATATACAACTCTTTGCTGTAGACATAATcc < 1:1600827/70‑1 (MQ=255)
gTGCTCCGACGGCGATAAAGGCATCAATGTGTCTTGATATACAACTCTTTGCTGTAGACATAATcc < 1:1560265/66‑1 (MQ=255)
tGCTCCGACGGCGATAAAGGCATCAATGTGTCTTGATATACAACTCTTTGCTGTAGACATAATcc < 1:32097/65‑1 (MQ=255)
tGCTCCGACGGCGATAAAGGCATCAATGTGTCTTGATATACAACTCTTTGCTGTAGACATAATcc < 1:2382981/65‑1 (MQ=255)
cTCCGACGGCGATAAAGGCATCAATGTGTCTTGATATACAACTCTTTGCTGTAGACATAATCCTGGGGAt < 1:1283400/70‑1 (MQ=255)
cTCCGACGGCGATAAAGGCATCAATGTGTCTTGATATACAACTCTTTGCTGTAGACATAATCCTGGGGAt < 1:1367154/70‑1 (MQ=255)
cTCCGACGGCGATAAAGGCATCAATGTGTCTTGATATACAACTCTTTGCTGTAGACATAATCCTGGGGAt < 1:109224/70‑1 (MQ=255)
ccGACGGCGATAAAGGCATCAATGTGTCTTGATATACAACTCTTTGCTGTAGACATAATCCTGGGGATTAt > 1:455126/1‑71 (MQ=255)
cGACGGCGATAAAGGCATCAATCTGTCTTGATATACAACTCTTTGCTGTAGACATAATCCTGGGGATTATg < 1:2535040/71‑1 (MQ=255)
aTAAAGGCATCAATGTGTCTTGATATACAACTCTTTGCTGTAGACATAATCCTGGGGATTATGCAGCGGaa < 1:2949479/71‑1 (MQ=255)
aTAAAGGCATCAATGTGTCTTGATATACAACTCTTTGCTGTAGACATAATCCTGGGGATTATGCAGCGGaa < 1:2945259/71‑1 (MQ=255)
tAAAGGCATCAATGTGTCTTGATATACAACTCTTTGCTGTAGACATAATcc < 1:1033919/51‑1 (MQ=255)
tAAAGGCATCAATGTGTCTTGATATACAACTCTTTGCTGTAGACATAATCCTGGGGATTATGCAGCGGaaa < 1:661040/71‑1 (MQ=255)
tAAAGGCATCAATGTGTCTTGATATACAACTCTTTGCTGTAGACATAATCCTGGGGATTATGCAGCGGaaa < 1:1630597/71‑1 (MQ=255)
gCATCAATGTGCCTTGATATACAACTCTTTGCTGTAGACATAATcc < 1:528632/46‑1 (MQ=255)
tCAATGTGTCTTGATATACAACTCTTTGCTGTAGACATaa < 1:1363151/40‑1 (MQ=255)
tCAATGTGCCTTGATATACAACTCTTTGCTGTAGACATaa < 1:193028/40‑1 (MQ=255)
tCAATGTGCCTTGATATACAACTCTTTGCTGTAGACATaa < 1:1605098/40‑1 (MQ=255)
tCAATGTGCCTTGATATACAACTCTTTGCTGT‑GACATaa < 1:2652033/39‑1 (MQ=39)
cAATGTGTCTTGATATACAACTCTTTGCTGTAGACATAATCCTTGGGATTATGCAGCGGAAAACCGCCAAc > 1:71419/1‑71 (MQ=255)
aaTGTGTCTTGATATACAACTCTTTGCTGTAGACATAATc > 1:153650/1‑40 (MQ=255)
aaTGTGTCTTGATATACAACTCTTTGCTGTAGACATAATc > 1:2813673/1‑40 (MQ=255)
aaTGTGTCTTGATATACAACTCTTTGCTGTAGACATAATCCTGGGGATTATGCAGCGGAAAACCGCCaa > 1:3313290/1‑69 (MQ=255)
aaTGTGTCTTGATATACAACTCTTTGCTGTAGACATAATCCTGGGGATTATGCAGCGGAAAACCGCCAACg > 1:2711871/1‑71 (MQ=255)
aaTGTGTCTTGATATACAACTCTTTGCTGTAGACATAATCCTGGGGATTATGCAGCGGAAAACCGCCAACg > 1:1940043/1‑71 (MQ=255)
tgtgTCTTGATATACAACTCTTTGCTGTAGACATAATCCTGGGGATTATGCAGCGGAAAACCGCCAACGTa < 1:1385741/71‑1 (MQ=255)
tgtgCCTTGATATACAACTCTTTGCTGTAGACATAATCCTGGGGa < 1:3097514/45‑1 (MQ=255)
tgtgCCTTGATATACAACTCTTTGCTGTAGACATAATCCTGGGGa < 1:1382024/45‑1 (MQ=255)
tgtgCCTTGATATACAACTCTTTGCTGTAGACATAATCCTGGGGa < 1:1821061/45‑1 (MQ=255)
tgtgCCTTGATATACAACTCTTTGCTGTAGACATAATCCTGGGGa < 1:1753986/45‑1 (MQ=255)
tgtgCCTTGATATACAACTCTTTGCTGTAGACATAATCCTGGGGa < 1:1748091/45‑1 (MQ=255)
tgCCTTGATATACAACTCTTTGCTGTAGACATAATCCTGGGGAtt > 1:341274/1‑45 (MQ=255)
tgCCTTGATATACAACTCTTTGCTGTAGACATAATCCTGGGGAtt > 1:3452445/1‑45 (MQ=255)
tgCCTTGATATACAACTCTTTGCTGTAGACATAATCCTGGGGAtt > 1:35408/1‑45 (MQ=255)
tgCCTTGATATACAACTCTTTGCTGTAGACATAATCCTGGGGAtt > 1:2982395/1‑45 (MQ=255)
tgCCTTGATATACAACTCTTTGCTGTAGACATAATCCTGGGGATTATGCAGCGGAAAACCGCCAACGTAgg > 1:3278657/1‑71 (MQ=255)
tgCCTTGATATACAACTCTTTGCTGTAGACATAATCCTGGGGATTATGCAGCGGAAAACCGCCAACGTAgg > 1:529599/1‑71 (MQ=255)
|
GAGTCACAGGAGATCAACGTGAATAGCGCCGCCGGACGTGCTCCGACGGCGATAAAGGCATCAATGTGCCTTGATATACAACTCTTTGCTGTAGACATAATCCTGGGGATTATGCAGCGGAAAACCGCCAACGTAGG > W3110S.gb/3164707‑3164843
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
