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 |
1,495,966:1 |
+T |
73.2% |
coding (820/924 nt) |
ydcI ← |
predicted DNA‑binding transcriptional regulator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,495,966 | 1 | . | T | 73.2%
| 78.1
/ 37.3
| 41 | coding (820/924 nt) | ydcI | predicted DNA‑binding transcriptional regulator |
| Reads supporting (aligned to +/- strand): ref base . (8/3); new base T (20/10); total (28/13) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.39e-01 |
AACTGGCAACCAGAAGAGAACGTCGCATCTACGCGGGTCAGTATTCCAATCGGTTCGCCTGCACCATG‑TCCCGGAACAGGCAGGGCCACCAGCGTGGCATGACGCAGGTCGTCTTTTACAGCGCCAG > W3110S.gb/1495899‑1496025
|
aaCTGGCAACCAGAAGAGAACGTCGCATCTACGCGGGTCAGTATTCCAATCGGTTCGCCTGCACCATG‑t > 1:1025069/1‑69 (MQ=255)
aaCTGGCAACCAGAAGAGAACGTCGCATCTACGCGGGTCAGTATTCCAATCGGTTCGCCTGCACCATG‑t > 1:48457/1‑69 (MQ=255)
cTGGCAACCAGAAGAGAACGTCGCATCTACGCGGGTCAGTATTCCAATCGGTTCGCCTGCACCATG‑tt < 1:2286399/68‑2 (MQ=255)
ggCAACCAGAAGAGAACGTCGCATCTACGCGGGTCAGTATTCCAATCGGTTCGCCTGCACCATG‑Ttcc > 1:810936/1‑68 (MQ=255)
ggCAACCAGAAGAGAACGTCGCATCTACGCGGGTCAGTATTCCAATCGGTTCGCCTGCACCATG‑Ttcc > 1:2009459/1‑68 (MQ=255)
ggCAACCAGAAGAGAACGTCGCATCTACGCGGGTCAGTATTCCAATCGGTTCGCCTGCACCATG‑Ttcc > 1:1934173/1‑68 (MQ=255)
cAGAAGAGAACGTCGCATCTACGCGGGTCAGTATTCCAATCGGTTCGCCTGCACCATGTTCCCGGAAca < 1:1469807/69‑1 (MQ=255)
cAGAAGAGAACGTCGCATCTACGCGGGTCAGTATTCCAATCGGTTCGCCTGCACCATGTTCCCGGAAca > 1:1969900/1‑69 (MQ=255)
aagaGAACGTCGCATCTACGCGGGTCAGTATTCCAATCGGTTCGCCTGCACCATG‑Tcc < 1:2459518/58‑1 (MQ=255)
gagaACGTCGCATCTACGCGGGTCAGTATTCCAATCGGTTCGCCTGCACCATGTTCCCGGAAcaggcag > 1:2576584/1‑69 (MQ=255)
gagaACGTCGCATCTACGCGGGTCAGTATTCCAATCGGTTCGCCTGCACCATGTTCCCGGAAcaggcag > 1:2110125/1‑69 (MQ=255)
gagaACGTCGCATCTACGCGGGTCAGTATTCCAATCGGTTCGCCTGCACCATGTTCCCGGAAcaggcag > 1:278700/1‑69 (MQ=255)
aCGTCGCATCTACGCGGGTCAGTATTCCAATCGGTTCGCCTGCACCATGTTCCCGGAACAGGCAGGGcc < 1:549496/69‑1 (MQ=255)
gCATCTACGCGGGTCAGTATTCCAATCGGTTCGCCTGCACCATG‑ttc > 1:539062/1‑45 (MQ=255)
gCATCTACGCGGGTCAGTATTCCAATCGGTTCGCCTGCACCATG‑ttc > 1:211089/1‑45 (MQ=255)
tACGCGGGTCAGTATTCCAATCGGTTCGCCTGCACCATG‑TCCCGGAACAGGCAGGGCCACCAGCGTGGc > 1:3700025/1‑69 (MQ=255)
gggTCAGTATTCCAATCGGTTCGCCTGCACCATGTTCCCGGAACAGGCAGGGCCACCAGCGTgg < 1:1464954/64‑1 (MQ=255)
tATTCCAATCGGTTCGCCTGCACCATGTTCCCGGAACAGGCAGGGCCACCAGCGTGGCATGACGCAgg > 1:3458923/1‑68 (MQ=255)
tATTCCAATCGGTTCGCCTGCACCATGTTCCCGGAACAGGCAGGGCCACCAGCGTGGCATGACGCAGgt > 1:351065/1‑69 (MQ=255)
tATTCCAATCGGTTCGCCTGCACCATGTTCCCGGAACAGGCAGGGCCACCAGCGTGGCATGACGCAGgt > 1:3030542/1‑69 (MQ=255)
tATTCCAATCGGTTCGCCTGCACCATGTTCCCGGAACAGGCAGGGCCACCAGCGTGGCATGACGCAGgt > 1:3606897/1‑69 (MQ=255)
tATTCCAATCGGTTCGCCTGCACCATGTTCCCGGAACAGGCAGGGCCACCAGCGTGGCATGACGCAGgt > 1:1648064/1‑69 (MQ=255)
tATTCCAATCGGTTCGCCTGCACCATG‑TCCCGGAACAGGCAGGGCCACCAGCGTGGCATGACGCAGgtc < 1:2439149/69‑1 (MQ=255)
tATTCCAATCGGTTCGCCTGCACCATG‑TCCCGGAACAGGCAGGGCCACCAGCGTGGCATGACGCAGgtc < 1:1270157/69‑1 (MQ=255)
ttCCAATCGGTTCGCCTGCACCATGTTCCCGGAACAGGCAGGGCCACCAGCGTGGCATGACGc > 1:1372728/1‑63 (MQ=255)
ccAATCGGTTCGCCTGCACCATGTTCCCGGAACAGGCAGGGCCACCAGCGTGGCATGACGCAGgtcgt < 1:3386295/68‑1 (MQ=255)
ccAATCGGTTCGCCTGCACCATGTTCCCGGAACAGGCAGGGCCACCAGCGTGGCATGACGCAGgtcgt < 1:1341854/68‑1 (MQ=255)
ccAATCGGTTCGCCTGCACCATG‑TCCCGGAACAGGCAGGGCCACCAGCGTGGCATGACGCAGGTCGTCt > 1:40751/1‑69 (MQ=255)
ccAATCGGTTCGCCTGCACCATG‑TCCCGGAACAGGCAGGGCCACCAGCGTGGCATGACGCAGGTCGTCt > 1:3277131/1‑69 (MQ=255)
tCGGTTCGCCTGCACCATGTTCCCGGAACAGGCAGGGCCACCAGCGTGGCATGACGCAGgtcg > 1:969030/1‑63 (MQ=255)
cGGTTCGCCTGCACCATGTTCCCGGAACAGGCAGGGCCACCAGCGTGGCATGACGCAGGTCGTCttt > 1:1024555/1‑67 (MQ=255)
ggTTCGCCTGCACCATGTTCCCGGAACAGGCAGGGCCACCAGCGTGGCATGACGCAGGTCGTCTTTTAc > 1:732572/1‑69 (MQ=255)
ggTTCGCCGGCACCATG‑TCCCGGAACAGGCAGGGCCACCAGCGTGGCAAGACGCAGgtcg > 1:2046036/1‑60 (MQ=255)
tCGCCTGCACCATGTTCCCGGAACAGGCAGGGCCACCAGCGTGGCATGACGCAGGTCGTCTTTTACAgc > 1:2345050/1‑69 (MQ=255)
tCGCCTGCACCATGTTCCCGGAACAGGCAGGGCCACCAGCGTGGCATGACGCAGGTCGTCTTTTACAgc > 1:2299136/1‑69 (MQ=255)
tCGCCTGCACCATGTTCCCGGAACAGGCAGGGCCACCAGCGTGGCATGACGCAGGTCGTCTTTTACAgc > 1:2193757/1‑69 (MQ=255)
tCGCCTGCACCATGTTCCCGGAACAGGCAGGGCCACCAGCGTGGCATGACGCAGGTCGTCTTTTACAgc > 1:1547428/1‑69 (MQ=255)
tGCACCATGTTCCCGGAACAGGCAGGGCCACCAGCGTGGCATGACGCAGGTCGTCTTTTACAGCGCCAg < 1:1165793/69‑1 (MQ=255)
tGCACCATGTTCCCGGAACAGGCAGGGCCACCAGCGTGGCATGACGCAGGTCGTCTTTTACAGCGCCAg < 1:957238/69‑1 (MQ=255)
cACCATGTTCCCGGAACAGGCAGGGCCACCAGCGTGGCATGACGCAGgtcgtc > 1:2510581/1‑53 (MQ=255)
cACCATGTTCCCGGAACAGGCAGGGCCACCAGCGTGGCATGACGCAGgtcgtc > 1:494087/1‑53 (MQ=255)
cACCATGTTCCCGGAACAGGCAGGGCCACCAGCGTGGCATGACGCAGGTCGTCtttt < 1:2400207/57‑1 (MQ=255)
cACCATGTTCCCGGAACAGGCAGGGCCACCAGCGTGGCATGACGCAGGTCGTCtttt < 1:2078216/57‑1 (MQ=255)
cACCATGTTCCCGGAACAGGCAGGGCCACCAGCGTGGCATGACGCAGGTCGTCtttt < 1:611518/57‑1 (MQ=255)
cACCATG‑TCCCGGAACAGGCAGGGCCACCAGCGTGGCATGACGCAGGTCGTCttt > 1:213015/1‑55 (MQ=255)
ccATGTTCCCGGAACAGGCAGGGCCACCAGCGTGGCATGACGCAGGTCGTCtttt > 1:1556941/1‑55 (MQ=255)
|
AACTGGCAACCAGAAGAGAACGTCGCATCTACGCGGGTCAGTATTCCAATCGGTTCGCCTGCACCATG‑TCCCGGAACAGGCAGGGCCACCAGCGTGGCATGACGCAGGTCGTCTTTTACAGCGCCAG > W3110S.gb/1495899‑1496025
|
| 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
