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 |
2,931,037 |
C→A |
42.7% |
A212A (GCG→GCT) |
fucO ← |
L‑1,2‑propanediol oxidoreductase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,931,037 | 0 | C | A | 42.7%
| 53.1
/ 34.5
| 42 | A212A (GCG→GCT) | fucO | L‑1,2‑propanediol oxidoreductase |
| Reads supporting (aligned to +/- strand): ref base C (8/16); new base A (10/8); total (18/24) |
| Fisher's exact test for biased strand distribution p-value = 2.11e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AGCAACCGATCCTCGCAGCGCCCCAGCAATGATTTCAATCGCTTTAATGTGCAGTGCATCGGTTAGCGCCCACGCGCCACGGGTAATATACCCCTCAATAGCATGAGTGAGCGCATCGACACCCGTCGC > W3110S.gb/2930971‑2931099
|
aGCAACCGATCCTCGCAGCGCCCCAGCAATGATTTCAATCGCTTTAATGTGCAGTGCATCGGTTAgcg > 1:591560/1‑68 (MQ=255)
aCCGATCCTCGCAGCGCCCCAGCAATGATTTCAATCGCTTTAATGTGCAGTGCATCGGTTAGAGCCCAc > 1:1594699/1‑69 (MQ=255)
aCCGATCCTCGCAGCGCCCCAGCAATGATTTCAATCGCTTTAATGTGCAGTGCATCGGTTAGAGCCCAc > 1:2930313/1‑69 (MQ=255)
gATCCTCGCAGCGCCCCAGCAATGATTTCAATCGCTTTAATGTGCAGTGCATCGGTTAGCGCCCAcgc > 1:85722/1‑68 (MQ=255)
tCCTCGCAGCGCCCCAGCAATGATTTCAATCGCTTTAATGTGCAGTGCATCGGTTAGAGCCCACGCGcc < 1:2882866/69‑1 (MQ=255)
ccTCGCAGCGCCCCAGCAATGATTTCAATCGCTTTAATGTGCAGTGCATCGGTTAGAGCCCACGCGCCa > 1:459576/1‑69 (MQ=255)
gCAGCGCCCCAGCAATGATTTCAATCGCTTTAATGTGCAGTGCATCGGTTAGCGCCCAcg > 1:2084911/1‑60 (MQ=255)
gcgcCCCAGCAATGATTTCAATCGCTTTAATGTGCAGTGCATCGGTTAGAGCCCACGCGCCACGGGTaa < 1:3516863/69‑1 (MQ=255)
gcgcCCCAGCAATGATTTCAATCGCTTTAATGTGCAGTGCATCGGTTAGAGCCCACGCGCCACGGGTaa < 1:2724370/69‑1 (MQ=255)
cgcCCCAGCAATGATTTCTATCGCTTTAATGTGCAGTGCATCGGTTAGAGCCCACGCGCCACGGGTaa < 1:1952901/68‑1 (MQ=255)
cgcCCCAGCAATGATTTCAATCGCTTTAATGTGCAGTGCATCGGTTAGAGCCCACGCGCCACGGGTaa < 1:1188905/68‑1 (MQ=255)
gcCCCAGCAATGATTTCAATCGCTTTAATGTGCAGTGCATCGGTTAGCGCCCACGCGCCACGGGTAata < 1:2733541/69‑1 (MQ=255)
gcCCCAGCAATGATTTCAATCGCTTTAATGTGCAGTGCATCGGTTAGCGCCCACGCGCCACGGGTAata < 1:2784013/69‑1 (MQ=255)
cccAGCAATGATTTCAATCGCTTTAATGTGCAGTGCATCGGTTAGAGCCCACGCGCCACGGGTAAtata < 1:1898950/69‑1 (MQ=255)
tGATTTCAATCGCTTTAATGTGCAGTGCATCGGTTAGCGCCCACGCGCCACGGGTAata < 1:1411923/59‑1 (MQ=255)
tGATTTCAATCGCTTTAATGTGCAGTGCATCGGTTAGAGCCCACGCGCCACgg > 1:1699058/1‑53 (MQ=255)
aTTTCAATCGCTTTAATGTGCAGTGCATCGGTTAGCGCCCACGCGCCACGGGTaa < 1:3057277/55‑1 (MQ=255)
aTTTCAATCGCTTTAATGTGCAGTGCATCGGTTAGCGCCCACGCGCCACGGGTaa < 1:3040376/55‑1 (MQ=255)
aTTTCAATCGCTTTAATGTGCAGTGCATCGGTTAGCGCCCACGCGCCACGGGTaa < 1:2959468/55‑1 (MQ=255)
aTTTCAATCGCTTTAATGTGCAGTGCATCGGTTAGCGCCCACGCGCCACGGGTaa < 1:3601739/55‑1 (MQ=255)
aTTTCAATCGCTTTAATGTGCAGTGCATCGGTTAGCGCCCACGCGCCACGGGTAATATACCCCTCAAt > 1:3146100/1‑68 (MQ=255)
aTTTCAATCGCTTTAATGTGCAGTGCATCGGTTAGCGCCCACGCGCCACGGGTAATATACCCCTCAAt > 1:1452102/1‑68 (MQ=255)
aTTTCAATCGCTTTAATGTGCAGTGCATCGGTTAGAGCCCACGCGCCACGGGTAATATACCCCTCAAt > 1:525965/1‑68 (MQ=255)
cAATCGCTTTAATGTGCAGTGCATCGGTTAGAGccc > 1:2090179/1‑36 (MQ=255)
cAATCGCTTTAATGTGCAGTGCATCGGTTAGAGccc > 1:1093452/1‑36 (MQ=255)
cAATCGCTTTAATGTGCAGTGCATCGGTTAGAGccc > 1:2486390/1‑36 (MQ=255)
tCGCTTTAATGTGCAGTGCATCGGTTAGCGCCCACgcgc < 1:1821991/39‑1 (MQ=255)
tCGCTTTAATGTGCAGTGCATCGGTTAGCGCCCACgcgc < 1:2980484/39‑1 (MQ=255)
gCTTTAATGTGCAGTGCATCGGTTAGCGCCCACGCGCCACGGGTAATATACCCCTCAATAGCAtgagtg > 1:1840548/1‑69 (MQ=255)
tttAATGTGCAGTGCATCGGTTAGAGCCCACGCGCCACGGGTAata < 1:3238426/46‑1 (MQ=255)
aaTGTGCAGTGCATCGGTTAGCGCCCACGCGCCACGGGTaa < 1:674685/41‑1 (MQ=255)
aaTGTGCAGTGCATCGGTTAGCGCCCACGCGCCACGGGTaa < 1:1133895/41‑1 (MQ=255)
aaTGTGCAGTGCATCGGTTAGCGCCCACGCGCCACGGGTaa < 1:2625540/41‑1 (MQ=255)
aaTGTGCAGTGCATCGGTTAGCGCCCACGCGCCACGGGTaa < 1:2248439/41‑1 (MQ=255)
aTGTGCAGTGCATCGGTTAGCGCCCACGCGCCACGGGTAATATACCCCTCAATAGCATGAGTGAGCGCa > 1:2395928/1‑69 (MQ=255)
tgcagtgcaTCGGTTAGAGCCCACGCGCCACGGGTAATATACCCCTCAATAGCATGAGTGAGCGCATc < 1:2403558/68‑1 (MQ=255)
cagtgcaTCGGTTAGCGCCCACGCGCCACGGGTAATATACCCCTCAATAGCATGAGTGAGCGCATCGa < 1:1536258/68‑1 (MQ=255)
gcaTCGGTTAGCGCCCACGCGCCACGGGTAATATACCCCTCAATAGCATGAGTGAGCGCATCGACAccc > 1:2912833/1‑69 (MQ=255)
gcaTCGGTTAGCGCCCACGCGCCACGGGTAATATACCCCTCAATAGCATGAGTGAGCGCATCGACAccc < 1:53344/69‑1 (MQ=255)
gcaTCGGTTAGCGCCCACGCGCCACGGGTAATATACCCCTCAATAGCATGAGTGAGCGCATCGACAccc < 1:604085/69‑1 (MQ=255)
gcaTCGGTTAGCGCCCACGCGCCACGGGTAATATACCCCTCAATAGCATGAGTGAGCGCATAGACAccc > 1:213360/1‑69 (MQ=255)
ggTTAGAGCCCACGCGCCACGGGTAATATACCCCTCAATAGCATGAGTGAGCGCATCGACACCCGTCGc > 1:2909490/1‑69 (MQ=255)
ggTTAGAGCCCACGCGCCACGGGTAATATACCCCTCAATAGCATGAGTGAGCGCATCGACACCCGTCGc > 1:369495/1‑69 (MQ=255)
|
AGCAACCGATCCTCGCAGCGCCCCAGCAATGATTTCAATCGCTTTAATGTGCAGTGCATCGGTTAGCGCCCACGCGCCACGGGTAATATACCCCTCAATAGCATGAGTGAGCGCATCGACACCCGTCGC > W3110S.gb/2930971‑2931099
|
| 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
