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 |
3,488,502 |
C→T |
15.2% |
L47L (CTG→TTG) |
yijO → |
predicted DNA‑binding transcriptional regulator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,488,502 | 0 | C | T | 15.2%
| 117.8
/ 12.5
| 46 | L47L (CTG→TTG) | yijO | predicted DNA‑binding transcriptional regulator |
| Reads supporting (aligned to +/- strand): ref base C (19/20); new base T (4/3); total (23/23) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.55e-01 |
GCAGTAACGGCCCGGTGCCCGATCTTGCGTATCAGGTCGATTTTCCACGGCTGGAAATTGTGCTGGAAGGTGAGTTTGTTGATACCGGCGCTGGAGCAACGTTAGTTCCCGGCGATGTGCTG > W3110S.gb/3488440‑3488561
|
gcagTAACGGCCCTGTGCCCGATCTTGCGTATCAGGTCGATTTTCCACGGCTGGAAATTGTGCTGTAAGGt < 1:1130293/71‑1 (MQ=255)
aCGGCCCGGTGCCCGATCTTGCGTATCAGGTCGATTTTCCACGGCTGGAAATTGTGTTGGAAGGTGAGttt > 1:2445586/1‑71 (MQ=255)
ggCCCGGTGCCCGATCTTGCGTATCAGGTCGATTTTCCACGGCTGGAAATTGTGCTGGAAGGTGAGTttgt > 1:712920/1‑71 (MQ=255)
cccGGTGCCCGATCTTGCGTATCAGGTCGATTTTCCACGGCTGGAAATTGTGCTGGAAGGTGAGTttgtt < 1:156385/70‑1 (MQ=255)
cGGTGCCCGATCTTGCGTATCAGGTCGATTTTCCACGGCTGGAAATTGTGCTGGAAGGTGAGTTTGTTGAt < 1:2146243/71‑1 (MQ=255)
tGCCCGATCTTGCGTATCAGGTCGATTTTCCACGGCTGGAAATTGTGTTGGAAGGTGAGTttgtt < 1:1753940/65‑1 (MQ=255)
tGCCCGATCTTGCGTATCAGGTCGATTTTCCACGGCTGGAAATTGTGCTgg < 1:1307081/51‑1 (MQ=255)
cccGATCTTGCGTATCAGGTCGATTTTCCACGGCTGGAAATTGTGCTGGAAGGTGa > 1:929737/1‑56 (MQ=255)
cccGATCTTGCGTATCAGGTCGATTTTCCACGGCTGGAAATTGTGCTGGAAGGTGa > 1:27993/1‑56 (MQ=255)
ccGATCTTGCGTATCAGGTCGATTTTCCACGGCTGGAAATTGTGCTGGAAGGTGAGTttg < 1:1864325/60‑1 (MQ=255)
tCTTGCGTATCAGGTCGATTTTCCACGGCTGGAAATTGTGCTGGAAGGTGAGTTTGTTGAt < 1:355453/61‑1 (MQ=255)
cTTGCGTATCAGGTCGATTTTCCACGGCTGGAAATTGTGCt > 1:168241/1‑41 (MQ=255)
cTTGCGTATCAGGTCGATTTTCCACGGCTGGAAATTGTGCt > 1:454630/1‑41 (MQ=255)
cTTGCGTATCAGGTCGATTTTCCACGGCTGGAAATTGTGCTGGAAGGTGAGTTTGTTGATACCGGCGCTg > 1:1627193/1‑70 (MQ=255)
cTTGCGTATCAGGTCGATTTTCCACGGCTGGAAATTGTGCTGGAAGGTGAGTTTGTTGATACCGGCGCTg > 1:1781480/1‑70 (MQ=255)
cTTGCGTATCAGGTCGATTTTCCACGGCTGGAAATTGTGCTGGAAGGTGAGTTTGTTGATACCGGCGCTg > 1:2275801/1‑70 (MQ=255)
cTTGAGTATCAGGTCGATTTTCCACGGCTGGAAATTGTGCTGGAAGGTGAGTTTGTTGATACCGGCGCTg > 1:2656651/1‑70 (MQ=255)
cGTATCAGGTCGATTTTCCACGGCTGGAAATTGTGCTGGAAGGTGAGTTTGTTGATACCGGCGCTGGAGc < 1:1766343/70‑1 (MQ=255)
cGTATCAGGTCGATTTTCCACGGCTGGAAATTGTGCTGGAAGGTGAGTTTGTTGATACCGGCGCTGGAGc < 1:1404500/70‑1 (MQ=255)
tATCAGGTCGATTTTCCACGGCTGGAAATTGTGCTGGaa < 1:2546908/39‑1 (MQ=255)
tCAGGTCGATTTTCCACGGCTGGAAATTGTGTTGGAAGGTGAGTTTGTTGATACCGGCGCTGGAGCAACGt < 1:724552/71‑1 (MQ=255)
tCAGGTCGATTTTCCACGGCTGGAAATTGTGTTGGAAGGTGAGTTTGTTGATACCGGCGCTGGAGCAACGt < 1:563015/71‑1 (MQ=255)
tCAGGTCGATTTTCCACGGCTGGAAATTGTGCTGGaa > 1:666432/1‑37 (MQ=255)
aGGTCGATTTTCCACGGCTGGAAATTGTGTTGGAAGGTGAGTTTGTTGATACCGGCGCTGGAGCAACGt > 1:81295/1‑69 (MQ=255)
gTCGATTTTCCACGGCTGGAAATTGTGCTGGAAGGTGAGTttgtt < 1:432253/45‑1 (MQ=255)
gTCGATTTTCCACGGCTGGAAATTGTGCTGGAAGGTGAGTttgtt < 1:970698/45‑1 (MQ=255)
gTCGATTTTCCACGGCTGGAAATTGTGCTGGAAGGTGAGTTTGTTGATACCGGCGCTGGAGc < 1:881057/62‑1 (MQ=255)
tCGATTTTCCACGGCTGGAAATTGTGCTGGAAGGTGAGTttgtt < 1:2377833/44‑1 (MQ=255)
tCGATTTTCCACGGCTGGAAATTGTGCTGGAAGGTGAGTttgtt < 1:474657/44‑1 (MQ=255)
cGATTTTCCACGGCTGGAAATTGTGTTGGAAGGTGa > 1:2203971/1‑36 (MQ=255)
cGATTTTCCACGGCTGGAAATTGTGTTGGAAGGTGAGTTTGTTGATACCGGCGCTGGAGCAACGTTAGTTc > 1:1907119/1‑71 (MQ=255)
cGATTTTCCACGGCTGGAAATTGTGCTGGAAGGTGAGTTTGTTGATACCGGCGCTGGAGCAACGTTAGTTc > 1:409877/1‑71 (MQ=255)
gATTTTCCACGGCTGGAAATTGTGCTGGAAGGTGAGTttg > 1:840277/1‑40 (MQ=255)
gATTTTCCACGGCTGGAAATTGTGCTGGAAGGTGAGTttg > 1:1634182/1‑40 (MQ=255)
ttttCCACGGCTGGAAATTGTGCTGGAAGGTGAGtt < 1:2624726/36‑1 (MQ=255)
ttttCCACGGCTGGAAATTGTGCTGGAAGGTGAGTTTGTTGATACCGGCGCTGGAGCAACGTTAGtt > 1:2415134/1‑67 (MQ=255)
tttCCACGGCTGGAAATTGTGCTGGAAGGTGAGTttgtt > 1:1353662/1‑39 (MQ=255)
ttCCACGGCTGGAAATTGTGCTGGAAGGTGAGTTTGTTGATACCGgcgc > 1:690256/1‑49 (MQ=255)
ttCCACGGCTGGAAATTGTGCTGGAAGGTGAGTTTGTTGATACCGgcgc > 1:1876242/1‑49 (MQ=255)
tCCACGGCTGGAAATTGTGCTGGAAGGTGAGTTTGTTGATACCGGCGCTGGAGCAACGTTAGTTCCCGGc < 1:2057310/70‑1 (MQ=255)
ggCTGGAAATTGTGCTGGAAGGTGAGTTTGTTGATACCGGCGCTGGAGCAACGTTAGTTCCCGGCGAtgtg < 1:1596892/71‑1 (MQ=255)
gAAATTGTGCTGGAAGGTGAGTTTGTTGATACCGGCGCTGGAGCAACGTTAGTTCCCGGCGATGTGCTg < 1:1934555/69‑1 (MQ=255)
aTTGTGCTGGAAGGTGAGTTTGTTGATACCGGCGCTGGAGCAACGtt < 1:1344190/47‑1 (MQ=255)
tgtgCTGGAAGGTGAGTTTGTTGATACCGGCGCTGGAGCAAc > 1:1254694/1‑42 (MQ=255)
gtgCTGGAAGGTGAGTTTGTTGATACCGGCGCTGGAGCAACGTTAg > 1:1251485/1‑46 (MQ=255)
tgCTGTAAGGTGAGTTTGTTGATACCGGCGCTGGAGCAACGtt < 1:2364204/43‑1 (MQ=255)
|
GCAGTAACGGCCCGGTGCCCGATCTTGCGTATCAGGTCGATTTTCCACGGCTGGAAATTGTGCTGGAAGGTGAGTTTGTTGATACCGGCGCTGGAGCAACGTTAGTTCCCGGCGATGTGCTG > W3110S.gb/3488440‑3488561
|
| 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
