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 |
3,740,943 |
C→T |
31.2% |
R290R (CGC→CGT) |
yieG → |
predicted inner membrane protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,740,943 | 0 | C | T | 31.2%
| 63.4
/ 37.8
| 48 | R290R (CGC→CGT) | yieG | predicted inner membrane protein |
| Reads supporting (aligned to +/- strand): ref base C (13/20); new base T (9/6); total (22/26) |
| Fisher's exact test for biased strand distribution p-value = 2.23e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.43e-01 |
CTCCGGTACGCTGATTGGCGTGACCGATAAAGCAGGTCTGGCGGATGAGAAGGGGAAATTCCCGCGCATGAAGCAGGCGCTGTATGTCGACAGTATCTCTTCCGTGACCGGTTCGTTTATCGGTACTTCTTCCGT > W3110S.gb/3740877‑3741011
|
ctccGGTACGCTGATTGGCGTGACCGATAAAGCAGGTCTGGCGGATGAGAAGGGGAAATTCCCGCGCATg > 1:560640/1‑70 (MQ=255)
cGGTACGCTGATTGGCGTGACCGATAAAGCAGGTCTGGCGGATGAGAAGGGGAAATTCCCGCGCATGAAg > 1:2630411/1‑70 (MQ=255)
ggTACGCTGATTGGCGTGACCGATAAAGCAGGTCTGGCGGATGAGAAGGGGAAATTCCCGCGTATGAAGc < 1:2919432/70‑1 (MQ=255)
tACGCTGATTGGCGTGACCGATAAAGCAGGTCTGGCGGATGAGAAGGGGAAATTCCCGCGTATGAAGCAgg > 1:3082165/1‑71 (MQ=255)
aCGCTGATTGGCGTGACCGATAAAGCAGGTATGGCGGATGAGAAGGGGAAATTCCCGCGCATGAAGCAgg > 1:1585839/1‑70 (MQ=255)
cGCTGATTGGCGTGACCGATAAAGCAGGTCTGGCGGATGAGAAGGGGAAATTCCCGCGTATGAAGCAGgc > 1:1926002/1‑70 (MQ=255)
cGCTGATTGGCGTGACCGATAAAGCAGGTCTGGCGGATGAGAAGGGGAAATTCCCGCGCATGAAGCAGgc > 1:4015072/1‑70 (MQ=255)
cTGATTGGCGTGACCGATAAAGCAGGTCTGGCGGATGAGAAGGGGAAATTCCCGCGTATGAAGCAGGCGCt > 1:1959862/1‑71 (MQ=255)
gATTGGCGTGACCGATAAAGCAGGTCTGGCGGATGAGAAGGGGAAATTCCCGCGCATGAAGCAGGCCCt < 1:1985442/69‑1 (MQ=255)
aTTGGCGTGACCGATAAAGCAGGTCTGGCGGATGAGAAGGGGAAATTCCCGCGCATGAAGCAGGCGCTg < 1:3503910/69‑1 (MQ=255)
aTTGGCGTGACCGATAAAGCAGGTCTGGCGGATGAGAAGGGGAAATTCCCGCGCATGAAGCAGGCGCTg < 1:195541/69‑1 (MQ=255)
ttGGCGTGACCGATAAAGCAGCTCTGGCGGATGAGAAGGGGAAATTCCCGCGTATGAAGCAGGCGCTGTAt < 1:4102256/71‑1 (MQ=255)
ggCGTGACCGATAAAGCAGGTCTGGCGGATGAGAAGGGGAAATTCCCGCGTATGAAGCAGGCGCTGTa > 1:3574955/1‑68 (MQ=255)
tGACCGATAAAGCAGGTCTGGCGGATGAGAAGGGGAAATTCCCGCGCATGAAGCAGGCGCTGTATGTCGa < 1:173954/70‑1 (MQ=255)
tGACCGATAAAGCAGGTCTGGCGGATGAGAAGGGGAAATTCCCGCGCATGAAGCAGGCGCTGTATGTCGAc < 1:3025362/71‑1 (MQ=255)
tGACCGATAAAGCAGGTCTGGCGGATGAGAAGGGGAAATTCCCGCGCATGAAGCAGGCGCTGTATGTCGAc < 1:3139486/71‑1 (MQ=255)
aCCGATAAAGCAGGTCTGGCGGATGAGAAGGGGAAATTCCCGCGTAt > 1:2997193/1‑47 (MQ=255)
aCCGATAAAGCAGGTCTGGCGGATGAGAAGGGGAAATTCCCGCGTATGAAGCAGGCGCTGTATGTCGACa < 1:2331126/70‑1 (MQ=255)
aCCGATAAAGCAGGTCTGGCGGATGAGAAGGGGAAATTCCCGCGCATGaa < 1:1128346/50‑1 (MQ=255)
aCCGATAAAGCAGGTCTGGCGGATGAGAAGGGGAAATTCCCGCGCATGAAGCa > 1:4398625/1‑53 (MQ=255)
cGATAAAGCAGGTCTGGCGGATGAGAAGGGGAAATTCCCGCGCATGAAGCAGGCGCTGTATGTCGACAGt > 1:3216819/1‑70 (MQ=255)
gATAAAGCAGGTCTGGCGGATGAGAAGGGGAAATTCCCGCGCATGAAGCAGGCGCTGTATGTCGACAGTAt > 1:2495491/1‑71 (MQ=255)
cAGGTCTGGCGGATGAGAAGGGGAAATTCCCGCGCATGAAGCAGGCGCTGTATGTCGACAGTATCTCTTcc < 1:1747864/71‑1 (MQ=255)
cAGGTCTGGCGGATGAGAAGGGGAAATTCCCGAGCATGAAGCAGGCGCTGTATGTCGACAGTATCTCtt > 1:3300094/1‑69 (MQ=255)
cTGGCGGATGAGAAGGGGAAATTCCCGCGCATGAAGCAGGCGCTGTATGTCGACAGTATCTCtt > 1:1416196/1‑64 (MQ=255)
gCGGATGAGAAGGGGAAATTCCCGCGTATGAAGCAGGCGCTGTATGTCGACAGTATCTCTTCCGTGACCg < 1:78061/70‑1 (MQ=255)
ggATGAGAAGGGGAAATTCCCGCGCATGAAGCAGGCGCTGt < 1:3854239/41‑1 (MQ=255)
ggATGAGAAGGGGAAATTCCCGCGCATGAAGCAGGCGCTGt < 1:2328224/41‑1 (MQ=255)
gATGAGAAGGGGAAATTCCCGCGCATGAAGCAGGCGCTGTATGTCGACAGt < 1:2613933/51‑1 (MQ=255)
gATGAGAAGGGGAAATTCCCGCGCATGAAGCAGGCGCTGTATGTCGACAGTATCTCTTCCGTGACCGGTTc > 1:637501/1‑71 (MQ=255)
tGAGAAGGGGAAATTCCCGCGCATGAAGCAGGCGCTGTATGTCGACAGt > 1:4335847/1‑49 (MQ=255)
agaAGGGGAAATTCCCGCGCATGAAGCAGGCGCTGTATGTCGACAGTATCTCTTCCGTGACCGGTTCGttt < 1:1256660/71‑1 (MQ=255)
gaAGGGGAAATTCCCGCGCATGAAGCAGGCGCTGTATGTCGACAGTATCTCTTCCGTGACCGGTTCGTTTa > 1:239662/1‑71 (MQ=255)
aaGGGGAAATTCCCGCGTATGAAGCAGGCGCTGTATGTCGACAGTATCTCTTCCGTGACCGGTTCg > 1:3425778/1‑66 (MQ=255)
aaGGGGAAATTCCCGCGTATGAAGCAGGCGCTGTATGTCGACAGTATCTCTTCCGTGACCGGTTCGTTTAt > 1:4447137/1‑71 (MQ=255)
gggAAATTCCCGCGCATGAAGCAGGCGCTGTATGTCGAc < 1:340382/39‑1 (MQ=255)
gggAAATTCCCGCGCATGAAGCAGGCGCTGTATGTCGACAGTATCTCTTCCGTGACCGGTTCGTTTATCgg < 1:479027/71‑1 (MQ=255)
gggAAATTCCCGCGCATGAAGCAGGCGCTGTATGTCGACAGTATCTCTTCCGTGACCGGTTCGTTTATCgg < 1:840623/71‑1 (MQ=255)
gggAAATTCCCGCGCATGAAGCAGGCGCTGTATGTCGACAGTATCTCTTCCGTGACCGGTTCGTTTATCgg < 1:3447312/71‑1 (MQ=255)
ggAAATTCCCGCGTATGAAGCAGGCGCTGTATGTCGACAGTATCTCTTCCGTGACCGGTTCGTTTATCgg < 1:579314/70‑1 (MQ=255)
aaaTTCCCGCGTATGAAGCAGGCGCTGTATGTCGACAGTATCTCTTCCGTGAc < 1:1448883/53‑1 (MQ=255)
aaTTCCCGCGCATGAAGCAGGCGCTGTATGTCGACAGTATCTCTTCCGTGACCg < 1:583814/54‑1 (MQ=255)
ttCCCGCGCATGAAGCAGGCGCTGTATGTCGACAGt < 1:4605518/36‑1 (MQ=255)
tCCCGCGCATGAAGCAGGCGCTGTATGTCGACAGTATCTCTTCCGTGACCGGTTCGTTTATCGGTActtct > 1:3391301/1‑71 (MQ=255)
cccGCGTATGAAGCAGGCGCTGTATGTCGACAGTATCTCTTCCGTGACCGGTTCGTTTATCGGTActtctt > 1:1476402/1‑71 (MQ=255)
cccGCGCATGAAGCAGGCGCTGTATGTCGACAGTATCTCTTCCGTGACCGGTTCGTTTATCGGTActtct < 1:2401514/70‑1 (MQ=255)
cgcgTATGAAGCAGGCGCTGTATGTCGACAGTATCTCTTCCGTGACCGGTTCGTTTAt > 1:1152984/1‑58 (MQ=255)
cgcgCATGAAGCAGGCGCTGTATGTCGACAGTATCTCTTCCGTGACCGGTTCGTTTATCGGTACTTCTTcc < 1:1286149/71‑1 (MQ=255)
gcgcATGAAGCAGGCGCTGTATGTCGACAGTATCTCTTCCGTGACCGGTTCGTTTATCGGTACTTCTTCCg < 1:2826261/71‑1 (MQ=255)
cgcATGAAGCAGGCGCTGTATGTCGACAGTATCTCTTCCGTGACCGGTTCGTTTATCGGTActtctt < 1:3695290/67‑1 (MQ=255)
cgcATGAAGCAGGCGCTGTATGTCGACAGTATCTCTTCCGTGACCGGTTCGTTTATCGGTAc > 1:159187/1‑62 (MQ=255)
cgcATGAAGCAGGCGCTGTATGTCGACAGTATCTCTTCCGTGACCGGTTCGTTTATCGGTACTTCTTCCGt < 1:2681422/71‑1 (MQ=255)
cgcATGAAGCAGGCGCTGTATGTCGACAGTATCTCTTCCGTGACCGGTTCGTTTATCGGTACTTCTTCCGt < 1:227814/71‑1 (MQ=255)
cgcATGAAGCAGGCGCTGTATGTCGACAGTATCTCTTCCGTGACCGGTTCGTTTATCGGTACTTCTTCCGt < 1:172845/71‑1 (MQ=255)
|
CTCCGGTACGCTGATTGGCGTGACCGATAAAGCAGGTCTGGCGGATGAGAAGGGGAAATTCCCGCGCATGAAGCAGGCGCTGTATGTCGACAGTATCTCTTCCGTGACCGGTTCGTTTATCGGTACTTCTTCCGT > W3110S.gb/3740877‑3741011
|
| 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
