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 F17 I0 R2
|
276 |
45.3 |
3729697 |
93.0% |
3468618 |
60.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
4,528,968 |
A→G |
83.0% |
L242P (CTA→CCA) |
yjhH ← |
predicted lyase/synthase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,528,968 | 0 | A | G | 83.0%
| 127.3
/ 18.3
| 53 | L242P (CTA→CCA) | yjhH | predicted lyase/synthase |
| Reads supporting (aligned to +/- strand): ref base A (7/2); new base G (29/15); total (36/17) |
| Fisher's exact test for biased strand distribution p-value = 7.01e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.84e-01 |
CTGCATGCTGTATTTGATCAGTGAGACAAACGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTAGTTTTTTATTCAGCGTCGCAGCGGTCGCCAGATCGCCTTCACGCCAGGCGCGGTAGATGCCG > W3110S.gb/4528901‑4529030
|
cTGCATGCTGTATTTGATCAGTGAGACAAACGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGtagtag > 1:3536115/1‑69 (MQ=255)
gCATGCTGTATTTGATCAGTGAGACAAACGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTAGtt > 1:210057/1‑69 (MQ=255)
cATGCTGTATTTGATCAGTGAGACAAACGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGttt > 1:3590740/1‑69 (MQ=255)
cATGCTGTATTTGATCAGTGAGACAAACGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGttt > 1:1947613/1‑69 (MQ=255)
cATGCTGTATTTGATCAGTGAGACAAACGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGttt > 1:1799862/1‑69 (MQ=255)
tGCTGTATTTGATCAGTGAGACAAACGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGttttt < 1:3221005/69‑1 (MQ=255)
tGCTGTATTTGATCAGTGAGACAAACGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGttttt < 1:493132/69‑1 (MQ=255)
tGCAGTATTTGATCAGTGAGACAAACGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGttttt < 1:78875/69‑1 (MQ=255)
gCTGTATTTGATCAGTGAGACAAACGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGtttttt > 1:423190/1‑69 (MQ=255)
gCTGTATTTGATCAGTGAGACAAACGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGtttttt > 1:2316022/1‑69 (MQ=255)
gCTGTATTTGATCAGTGAGACAAACGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGtttttt > 1:540036/1‑69 (MQ=255)
gTATTTGATCAGTGAGACAAACGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGTTTTTTAt < 1:3332810/68‑1 (MQ=255)
gTATTTGATCAGTGAGACAAACGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGTTTTTTAt < 1:1899795/68‑1 (MQ=255)
gTATTTGATCAGTGAGACAAACGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGTTTTTTAt < 1:1886277/68‑1 (MQ=255)
gTATTTGATCAGTGAGACAAACGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGTTTTTTAt < 1:1258075/68‑1 (MQ=255)
tttGATCAGTGAGACAAACGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGTTTTTTAtt < 1:1160448/66‑1 (MQ=255)
tttGATCAGTGAGACAAACGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTAGTTTTTTATTCAg > 1:3065516/1‑69 (MQ=255)
tttGATCAGTGAGACAAACGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTAGTTTTTTATTCAg > 1:525758/1‑69 (MQ=255)
tttGATCAGTGAGACAAACGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTAGTTTTTTATTCAg > 1:2842123/1‑69 (MQ=255)
tGATCAGTGAGACAAACGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGTTTTTTATTCAGc < 1:1887050/68‑1 (MQ=255)
tGATCAGTGAGACAAACGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTAGTTTTTTATTCAGCg > 1:114784/1‑69 (MQ=255)
aCAAACGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTAGTTTTTTATTCAGCGTCGCAGCGGTc > 1:934376/1‑69 (MQ=255)
aaaCGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGTTTTTTATTCAg < 1:1484315/54‑1 (MQ=255)
aaaCGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGTTTTTTATTCAg > 1:1430549/1‑54 (MQ=255)
aaaCGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGTTTTTTATTCAg < 1:3452041/54‑1 (MQ=255)
aaaCGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGTTTTTTATTCAg < 1:139259/54‑1 (MQ=255)
aaaCGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGTTTTTTATTCAg < 1:3020836/54‑1 (MQ=255)
aaaCGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGTTTTTTATTCAg > 1:2361382/1‑54 (MQ=255)
aaaCGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGTTTTTTATTCAg < 1:3539744/54‑1 (MQ=255)
cGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGTTTTTTATTCAGCGTCg > 1:2465680/1‑56 (MQ=255)
cGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGTTTTTTATTCAGCGTCGCAGCgg > 1:1882288/1‑62 (MQ=255)
cGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGTTTTTTATTCAGCGTCGCAGCgg > 1:2352158/1‑62 (MQ=255)
cGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGTTTTTTATTCAGCGTCGCAGCgg > 1:149961/1‑62 (MQ=255)
ggTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGTTTTTTATTCAGCGTCGCAGCGGTc > 1:1101444/1‑63 (MQ=255)
ttCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGTTTTTTATTCAGCGTCg > 1:2371519/1‑50 (MQ=255)
ttCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGTTTTTTATTCAGCGTCGCAgag > 1:2003383/1‑53 (MQ=255)
ttCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGTTTTTTATTCAGCGTCGCAGCg > 1:2880392/1‑55 (MQ=255)
tCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGtttttt < 1:956852/38‑1 (MQ=255)
tCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGTTTTTTATTCAGCGTCGCAGCGGTCGCCa > 1:1960864/1‑61 (MQ=255)
tCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGTTTTTTATTCAGCGTCGCAGCGGTCGCCAg > 1:1311028/1‑62 (MQ=255)
tCGAGGGCGTAAATAGCGGGCAGTTGTAGTGGTTTTTTATTCAGCGTCGCAGCGGTCGCCAg > 1:1965265/1‑62 (MQ=255)
tCGAGGGCGTAAATAGCGGGCAGTTGTAGTAGTTTTTTATTCAGCGTCGCAGCGGTCGCCAGATCGcc > 1:874764/1‑68 (MQ=255)
cGAGGGCGTAAATAGCGGGCAGTTGTAGTGGTTTTTTATTCAGCGTCGCAGCGGTCGCCAGATCGCCtt > 1:929552/1‑69 (MQ=255)
ggCGTAAATAGCGGGCAGTTGTAGTGGTTTTTTATTCAGCGTCGCAGCGGTCGCCAGATCGCCTTCAc > 1:2977682/1‑68 (MQ=255)
gCGTAAATAGCGGGCAGTTGTAGTGGTTTTTTATTCAGCGTCGCAGCGGTCGCCAGATCGCCTTCAc > 1:1051914/1‑67 (MQ=255)
gCGTAAATAGAGGGCAGTTGTAGTGGTTTTTTATTCAGCGTCGCAGCGGTCGCCAGATCGCCTTCAc > 1:1559732/1‑67 (MQ=255)
aaTAGCGGGCAGTTGTAGTGGTTTTTTATTCAGCGTCGCAGCGGTCGCCAGATCGCCTTCACGCCAgg > 1:3582480/1‑68 (MQ=255)
aaTAGCGGGCAGTTGTAGTGGTTTTTTATTCAGCGTCGCAGCGGTCGCCAGATCGCCTTCACGCCAGgc > 1:2799412/1‑69 (MQ=255)
cGGGCAGTTGTAGTGGTTTTTTATTCAGCGTCGCAGCGGTCGCCAGATCGCCtt > 1:381771/1‑54 (MQ=255)
gggCAGTTGTAGTAGTTTTTTATTCAGCGTCGCAGCGGTCGCCAGATCGCCTTCACGCCAGGCGCGGTa < 1:3267656/69‑1 (MQ=255)
gggCAGTTGTAGTAGTTTTTTATTCAGCGTCGCAGCGGTCGCCAGATCGCCTTCACGCCAGGCGCGGTa < 1:3013345/69‑1 (MQ=255)
cAGTTGTAGTGGTTTTTTATTCAGCGTCGCAGCGGTCGCCAGATCGCCTTCACGCCAGGCGCGGTAGAt > 1:1543420/1‑69 (MQ=255)
tGTAGTGGTTTTTTATTCAGCGTCGCAGCGGTCGCCAGATCGCCTTCACGCCAGGCGCGGTAGATGcc > 1:3026880/1‑68 (MQ=255)
tGTAGTGGTTTTTTATTCAGCGTCGCAGCGGTCGCCAGATCGCCTTCACGCCAGGCGCGGTAGATGCCg > 1:956152/1‑69 (MQ=255)
gtagtgGTTTTTTATTCAGCGTCGCAGCGGTCGCCAGATCGCCtt > 1:3563317/1‑45 (MQ=255)
gtagtgGTTTTTTATTCAGCGTCGCAGCGGTCGCCAGATCGCCTTCACGCCAGGCGCGGTa < 1:485860/61‑1 (MQ=255)
gtagtgGTTTTTTATTCAGCGTCGCAGCGGTCGCCAGATCGCCTTCACGCCAGGCGCGGTa < 1:2534485/61‑1 (MQ=255)
|
CTGCATGCTGTATTTGATCAGTGAGACAAACGGTGTTTCGAGGGCGTAAATAGCGGGCAGTTGTAGTAGTTTTTTATTCAGCGTCGCAGCGGTCGCCAGATCGCCTTCACGCCAGGCGCGGTAGATGCCG > W3110S.gb/4528901‑4529030
|
| 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
