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 |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
443,261 |
G→A |
24.8% |
G167G (GGC→GGT) |
speF ← |
ornithine decarboxylase isozyme, inducible |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 443,261 | 0 | G | A | 24.8%
| 68.2
/ 16.7
| 56 | G167G (GGC→GGT) | speF | ornithine decarboxylase isozyme, inducible |
| Reads supporting (aligned to +/- strand): ref base G (14/28); new base A (6/8); total (20/36) |
| Fisher's exact test for biased strand distribution p-value = 5.36e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GGCATTAAACACTTTTGCCGCATGTTGCTGTGCAATGCATGGCGCGCCTTCGTGAATCAGCAGATCGCCCATCGCTACGTCGGCGTTGCACAAGTCGGCACGGAACAGCGCCTCACCAAAGTATTCCACAAA > minE/443195‑443326
|
ggCATTAAACACTTTTGCCGCATGTTGCTGTGCAATGCATGGCGCGCCTTCGTGAATCAGCAGATCGcc < 1:951395/69‑1 (MQ=255)
ggCATTAAACACTTTTGCCGCATGTTGCTGTGCAATGCATGGCGCGCCTTCGTGAATCAGCAGATCGcc < 1:3036427/69‑1 (MQ=255)
ggCATTAAACACTTTTGCCGCATGTTGCTGTGCAATGCATGGCGCGCCTTCGTGAATCAGCAGATCGcc < 1:1188877/69‑1 (MQ=255)
ggCATTAAACACTTTTGCCGCATGTTGCTGTGCAATGCATGGCGCGCCTTCGTGAATCAGCAGATCGcc < 1:732949/69‑1 (MQ=255)
ggCATTAAACACTTTTGCCGCATGTTGCTGTGCAATGCATGGCGCGCCTTCGTGAATCAGCAGATCGcc < 1:2589691/69‑1 (MQ=255)
ggCATTAAACACTTTTGCCGCATGTTGCTGTGCAATGCATGGCGCGCCTTCGTGAATCAGCAGATCGcc < 1:3334457/69‑1 (MQ=255)
ggCATTAAACACTTTTGCCGCATGTTGCTGTGCAATGCATGGCGCGCCTTCGTGAATCAGCAGATCGcc < 1:1468049/69‑1 (MQ=255)
ggCATTAAACACTTTTGCCGCATGTTGCTGTGCAATGCATGGCGCGCCTTCGTGAATCAGAAGATCGcc < 1:1335858/69‑1 (MQ=255)
ggCATTAAACACTTTTGCCGCATGTAGCTGTGCAATGCATGGCGCGCCTTCGTGAATCAGCAGATCGcc < 1:844562/69‑1 (MQ=255)
cATTAAACACTTTAGCCGCATGTTGCTGTGCAATGCATGGCGCACCTTCATGAATCAGAAGATCAccc < 1:2229102/68‑1 (MQ=255)
cATTAAACACTTTAGCCGCATGTTGCTGTGCAATGCATGGCGCACCTTCATGAATCAGAAGATCAccc < 1:2089219/68‑1 (MQ=255)
cATTAAACACTTTAGCCGCATGTTGCTGTGCAATGCATGGCGCACCTTCATGAATCAGAAGATCAccc < 1:2517627/68‑1 (MQ=255)
cATTAAACACTTTAGCCGCATGTTGCTGTGCAATGCATGGCGCACCTTCATGAATCAGAAGATCAccc < 1:1841596/68‑1 (MQ=255)
cATTAAACACTTTAGCCGCATGTTGCTGTGCAATGCATGGCGCACCTTCATGAATCAGAAGATCAccc < 1:1765438/68‑1 (MQ=255)
cATTAAACACTTTAGCCGCATGTTGCTGTGCAATGCATGGCGCACCTTCATGAATCAGAAGATCAccc < 1:1461687/68‑1 (MQ=255)
cATTAAACACTTTAGCCGCATGTTGCTGTGCAATGCATGGCGCACCTTCATGAATCAGAAGATCAccc < 1:1458228/68‑1 (MQ=255)
cATTAAACACTTTAGCCGCATGTTGCTGTGCAATGCATGGCGCACCTTCATGAATCAGAAGATCAccc < 1:2981123/68‑1 (MQ=255)
aaaCACTTTTGCCGCATGTTGCTGTGCAATGCATGGCGCGCCTTCGTGAATCAGCAGATCGCCCATCGc > 1:360799/1‑69 (MQ=255)
aaaCACTTTTGCCGCATGTTGCTGTGCAATGCATGGCGCGCCTTCGTGAATCAGCAGATCGCCCATCGc > 1:1457489/1‑69 (MQ=255)
aaaCACTTTTGCCGCATGTTGCTGTGCAATGCATGGCGCGCCTTCGTGAATCAGCAGATCGCCCATCGc > 1:787286/1‑69 (MQ=255)
aaaCACTTTTGCCGCATGTTGCTGTGCAATGCATGGCGCGCCTTCGTGAATCAGCAGATCGCCCATCGc > 1:2932650/1‑69 (MQ=255)
aaCACTTTAGCCGCATGTTGCTGTGCAATGCATGGCGCACCTTCATGAATCAGAAGATCACCCATTGca > 1:2602378/1‑68 (MQ=255)
aaCACTTTAGCCGCATGTTGCTGTGCAATGCATGGCGCACCTTCATGAATCAGAAGATCACCCATTGca > 1:2524431/1‑68 (MQ=255)
aaCACTTTAGCCGCATGTTGCTGTGCAATGCATGGCGCACCTTCATGAATCAGAAGATCACCCATTGca > 1:3301183/1‑68 (MQ=255)
aaCACTTTAGCCGCATGTTGCTGTGCAATGCATGGCGCACCTTCATGAATCAGAAGATCACCCATTGca > 1:352689/1‑68 (MQ=255)
aaCACTTTAGCCGCATGTTGCTGTGCAATGCATGGCGCACCTTCATGAATCAGAAGATCACCCATTGca > 1:1189236/1‑68 (MQ=255)
aaCACTTTAGCCGCATGTTGCTGTGCAATGCATGGCGCACCTTCATGAATCAGAAGATCACCCATTGca > 1:1318859/1‑68 (MQ=255)
cacTTTTGCCGCATGTTGCTGTGCAATGCATGGCGCGCCTTCGTGAATCAGCAGATCGCCCATCGCTAc < 1:2519555/69‑1 (MQ=255)
cTTTTGCCGCATGTTGCTGTGCAATGCATGGCGCGCCTTCGTGAATCAGCAGATCGCCCATCGCTACGt > 1:2940839/1‑69 (MQ=255)
cTTTTGCCGCATGTTGCTGTGCAATGCATGGCGCGCCTTCGTGAATCAGCAGATCGCCCATCGCTACGt > 1:2286845/1‑69 (MQ=255)
ggCGCGCCTTCGTGAATCAGCAGATCGCCCATCGCTACGTCGGCGTTGCACAAGTCGGCACGGAACAgc > 1:1107246/1‑69 (MQ=255)
ggCGCGCCTTCGTGAATCAGCAGATCGCCCATCGCTACGTCGGCGTTGCACAAGTCGGCACGGAACAgc > 1:3417022/1‑69 (MQ=255)
ggCGCGCCTTCGTGAATCAGCAGATCGCCCATCGCTACGTCGGCGTTGCACAAGTCGGCACGGAACAgc > 1:2963793/1‑69 (MQ=255)
ggCGCGCCTTCGTGAATCAGCAGATCGCCCATCGCTACGTCGGCGTTGCACAAGTCGGCACGGAACAgc > 1:3161415/1‑69 (MQ=255)
ggCGCGCCTTCGTGAATCAGCAGATCGCCCATCGCTACGTCGGCGTTGCACAAGTCGGCACGGAACAgc > 1:317494/1‑69 (MQ=255)
gcgcCTTCGTGAATCAGCAGATCGCCCATCGCTACGTCGGCGTTGCACAAGTCGGCACGGAACAGCGcc < 1:1852498/69‑1 (MQ=255)
gcgcCTTCGTGAATCAGCAGATCGCCCATCGCTACGTCGGCGTTGCACAAGTCGGCACGGAACAGCGcc < 1:1830118/69‑1 (MQ=255)
gcgcCTTCGTGAATCAGCAGATCGCCCATCGCTACGTCGGCGTTGCACAAGTCGGCACGGAACAGCGcc < 1:361372/69‑1 (MQ=255)
gcgcCTTCGTGAATCAGCAGATCGCCCATCGCTACGTCGGCGTTGCACAAGTCGGCACGGAACAGCGcc < 1:581962/69‑1 (MQ=255)
gcgcCTTCGTGAATCAGCAGATCGCCCATCGCTACGTCGGCGTTGCACAAGTCGGCACGGAACAGCGcc < 1:916189/69‑1 (MQ=255)
gcgcCTTCGTGAATCAGCAGATCGCCCATCGCTACGTCGGCGTTGCACAAGTCGGCACGGAACAGCGcc < 1:3301474/69‑1 (MQ=255)
ccTTCGTGAATCAGCAGATCGCCCATCGCTACGTCGGCGTTGCACAAGTCGGCACGGAACAGCGCCTCa < 1:2558143/69‑1 (MQ=255)
ccTTCGTGAATCAGCAGATCGCCCATCGCTACGTCGGCGTTGCACAAGTCGGCACGGAACAGCGCCTCa < 1:3056255/69‑1 (MQ=255)
ccTTCGTGAATCAGCAGATCGCCCATCGCTACGTCGGCGTTGCACAAGTCGGCACGGAACAGCGCCTCa < 1:2874992/69‑1 (MQ=255)
ccTTCGTGAATCAGCAGATCGCCCATCGCTACGTCGGCGTTGCACAAGTCGGCACGGAACAGCGCCTCa < 1:2669583/69‑1 (MQ=255)
ccTTCGTGAATCAGCAGATCGCCCATCGCTACGTCGGCGTTGCACAAGTCGGCACGGAACAGCGCCTCa < 1:1768381/69‑1 (MQ=255)
ccTTCGTGAATCAGCAGATCGCCCATCGCTACGTCGGCGTTGCACAAGTCGGCACGGAACAGCGCCTCa < 1:1764390/69‑1 (MQ=255)
ccTTCGTGAATCAGCAGATCGCCCATCGCTACGTCGGCGTTGCACAAGTCGGCACGGAACAGCGCCTCa < 1:1122716/69‑1 (MQ=255)
cTTCGTGAATCAGCAGATCGCCCATCGCTACGTCGGCGTTGCACAAGTCGGCACGGAACAGCGCCTCa < 1:1183350/68‑1 (MQ=255)
cagcagATCGCCCATCGCTACGTCGGCGTTGCACAAGTCGGCACGGAACAGCGCCTCa < 1:3371298/58‑1 (MQ=255)
tCGCCCATCGCTACGTCGGCGTTGCACAAGTCGGCACGGAACAGCGCCTCACCAAAGTATTCCACaaa > 1:3334999/1‑68 (MQ=255)
tCGCCCATCGCTACGTCGGCGTTGCACAAGTCGGCACGGAACAGCGCCTCACCAAAGTATTCCACaaa > 1:1794275/1‑68 (MQ=255)
tCGCCCATCGCTACGTCGGCGTTGCACAAGTCGGCACGGAACAGCGCCTCACCAAAGTATTCCACaaa > 1:145008/1‑68 (MQ=255)
cGCCCATCGCTACGTCGGCGTTGCACAAGTCGGCACGGAACAGCGCCTCACCAAAg < 1:1911529/56‑1 (MQ=255)
cGCCCATCGCTACGTCGGCGTTGCACAAGTCGGCACGGAACAGCGCCTCACCAAAg < 1:1400702/56‑1 (MQ=255)
cGCCCATCGCTACGTCGGCGTTGCACAAGTCGGCACGGAACAGCGCCTCACCAAAg < 1:1161933/56‑1 (MQ=255)
|
GGCATTAAACACTTTTGCCGCATGTTGCTGTGCAATGCATGGCGCGCCTTCGTGAATCAGCAGATCGCCCATCGCTACGTCGGCGTTGCACAAGTCGGCACGGAACAGCGCCTCACCAAAGTATTCCACAAA > minE/443195‑443326
|
| 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
