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 |
|
A6 F28 I3 R2
|
24 |
47.7 |
2431847 |
96.1% |
2337004 |
60.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
minE |
2,281,038 |
G→A |
Q95* (CAG→TAG) |
fabR ← |
DNA‑binding transcriptional repressor |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,281,038 | 0 | G | A | 97.7%
| 133.6
/ ‑3.8
| 43 | Q95* (CAG→TAG) | fabR | DNA‑binding transcriptional repressor |
| Reads supporting (aligned to +/- strand): ref base G (1/0); new base A (23/19); total (24/19) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.90e-01 |
CTCCATAAATGTGGAGACCGAGGTGCGGATCACACTCCCGCCTTTGGCGATACGCTGACGCGCCTGGCGCATGAGTTGGCGTAGCATTAAACCGCTCTCATCAACCATGGTCAGACCCAGTTCGTCTACG > minE/2280973‑2281102
|
cTCCATAAATGTGGAGACCGAGGTGCGGATCACACTCCCGCCTTTGGCGATACGCTGACGCGCCTAGCGCa > 1:98329/1‑71 (MQ=255)
tAAATGTGGAGACCGAGGTGCGGATCACACTCCCGCCTTTGGCGATACGCTGACGCGCCTAGCGCATGAGt < 1:951996/71‑1 (MQ=255)
aaaTGTGGAGACCGAGGTGCGGATCACACTCCCGCCTTTGGCGATACGCTGACGCGCCTAGCGCATGAGtt > 1:2151179/1‑71 (MQ=255)
gagaCCGAGGTGCGGATCACACTCCCGCCTTTGGCGATACGCTGACGCGCCTAgcg < 1:76665/56‑1 (MQ=255)
gagaCCGAGGTGCGGATCACACTCCCGCCTTTGGCGATACGCTGACGCGCCTAGCGCATGAg < 1:1812043/62‑1 (MQ=255)
aCCGAGGTGCGGATCACACTCCCGCCTTTGGCGATACGCTGACGCGCCTAGCGCATGAGTTGGCGTAGCAt > 1:1982879/1‑71 (MQ=255)
cGAGGTGCGGATCACACTCCCGCCTTTGGCGATACGCTGACGCGCCTAGCGCATGAGTTGGCGTAGCAtt > 1:124953/1‑70 (MQ=255)
cGAGGTGCGGATCACACTCCCGCCTTTGGCGATACGCTGACGCGCCTAGCGCATGAGTTGGCGTAGCATTa < 1:1241694/71‑1 (MQ=255)
gAGGTGCGGATCACACTCCCGCCTTTGGCGATACGCTGACGCGCCTAGCGCAt > 1:1042288/1‑53 (MQ=255)
gCGGATCACACTCCCGCCTTTGGCGATACGCTGACGCGCCTAGCGCATGAGTTGGCGTAGCATTAAACCg > 1:2178749/1‑70 (MQ=255)
cGGATCACACTCCCGCCTTTGGCGATACGCTGACGCGCCTAGCGCATGAGTTg > 1:1464362/1‑53 (MQ=255)
cGGATCACACTCCCGCCTTTGGCGATACGCTGACGCGCCTAGCGCATGAGTTg > 1:1816666/1‑53 (MQ=255)
cGGATCACACTCCCGCCTTTGGCGATACGCTGACGCGCCTAGCGCATGAGTTGGCGTAGCATTAAACCGc > 1:626037/1‑70 (MQ=255)
gATCACACTCCCGCCTTTGGCGATACGCTGACGCGCCTAGCGCATGAGTTGGCGTAGCATTa < 1:71444/62‑1 (MQ=255)
gATCACACTCCCGCCTTTGGCGATACGCTGACGCGCCTAGCGCATGAGTTGGCGTAGCATTa > 1:1439564/1‑62 (MQ=255)
gATCACACTCCCGCCTTTGGCGATACGCTGACGCGCCTAGCGCATGAGTTGGCGTAGCATTAAACCGctct < 1:889707/71‑1 (MQ=255)
aTCACACTCCCGCCTTTAGCGATACGCTGACGCGCCTAGCGCATGAGTTGGCGTAGCATTAAACCGctct > 1:1853386/1‑70 (MQ=255)
cacaCTCCCGCCTTTGGCGATACGCTGACGCGCCTAGCGCATGAGTTg > 1:2323714/1‑48 (MQ=255)
acacTCCCGCCTTTGGCGATACGCTGACGCGCCTAGCGCATGAg < 1:1979901/44‑1 (MQ=255)
cTCCCGCCTTTGGCGATACGCTGACGCGCCTAGCGCATGAGt < 1:51390/42‑1 (MQ=255)
cTCCCGCCTTTGGCGATACGCTGACGCGCCTAGCGCATGAGTTGGCGTAGCATTAAAc < 1:323953/58‑1 (MQ=255)
ccGCCTTTGGCGATACGCTGACGCGCCTAGCGCATGAGTTGGCGTAGCATTAAACCGCTCtcatc < 1:703382/65‑1 (MQ=255)
ccGCCTTTGGCGATACGCTGACGCGCCTAGCGCATGAGTTGGCGTAGCATTAAACCGCTCTCATCAAcc < 1:1230826/69‑1 (MQ=255)
ccGCCTTTGGCGATACGCTGACGCGCCTAGCGCATGAGTTGGCGTAGCATTAAACCGCTCTCATCAACCAt > 1:90231/1‑71 (MQ=255)
cGCCTTTGGCGATACGCTGACGCGCCTGGCGCATGAGTTGGCGTAGCATTAAACCGCTCTCATCAACCATg > 1:468005/1‑71 (MQ=255)
cGCCTTTGGCGATACGCTGACGCGCCTAGCGCATGAGTTGGCGTAGCATTAAACCGCTCTCATCAACCATg < 1:1985264/71‑1 (MQ=255)
gCCTTTGGCGATACGCTGACGCGCCTAGCGCATGAGTTGGCGTAGCATTAAACCGCTCTCATCAACCATgg < 1:1638883/71‑1 (MQ=255)
tGGCGATACGCTGACGCGCCTAGCGCATGAGTTGGCGTAGCAt > 1:1476063/1‑43 (MQ=255)
ggCGATACGCTGACGCGCCTAGCGCATGAGTTGGCGTAGCATTaa > 1:2170655/1‑45 (MQ=255)
ggCGATACGCTGACGCGCCTAGCGCATGAGTTGGCGTAGCATTaa > 1:2086893/1‑45 (MQ=255)
cGATACGCTGACGCGCCTAGCGCATGAGTTGGCGTAGCATTAAACCGCTCTCATCAACCATGGTCAGa < 1:159923/68‑1 (MQ=255)
gATACGCTGACGCGCCTAGCGCATGAGTTGGCGTAGCATTAAACCGCTCTCATCAACCATGGTCa < 1:287479/65‑1 (MQ=255)
tACGCTGACGCGCCTAGCGCATGAGTTGGCGTAGCATTAAACCGCTCTCATCAACCATGGTCAGACCCAGt > 1:2204731/1‑71 (MQ=255)
tACGCTGACGCGCCTAGCGCATGAGTTGGCGTAGCATTAAACCGCTCTCATCAACCATGGTCAGACCCAGt < 1:1097674/71‑1 (MQ=255)
aCGCTGACGCGCCTAGCGCATGAGTTGGCGTAGCATTAAACCGCTCTCATCAACCATGGTCAGACCCAGt > 1:2147401/1‑70 (MQ=255)
gCTGACGCGCCTAGCGCATGAGTTGGCGTAGCATTAAACCGCTCTCATCAACCATGGTCAGACCCAGTTCg < 1:932504/71‑1 (MQ=255)
tGACGCGCCTAGCGCATGAGTTGGCGTAGCATTAAACCGCTCTCATCAACCATGGTCa > 1:1536221/1‑58 (MQ=255)
aCGCGCCTAGCGCATGAGTTGGCGTAGCATTAAACCGCTCTCATCAACCATGGTCAGACCCAGTTCGTc < 1:568547/69‑1 (MQ=255)
aCGCGCCTAGCGCATGAGTTGGCGTAGCATTAAACCGCTCTCATCAACCATGGTCAGACCCAGTTCGTCTa > 1:102560/1‑71 (MQ=255)
gcgcCTAGCGCATGAGTTGGCGTAGCATTAAACCGCTCTCATCAACCATGGTCAGACCCAGTTCGTc < 1:649243/67‑1 (MQ=255)
gcgcCTAGCGCATGAGTTGGCGTAGCATTAAACCGCTCTCATCAACCATGGTCAGACCCAGTTCGTCTACg > 1:1131583/1‑71 (MQ=255)
gcCTAGCGCATGAGTTGGCGTAGCATTAAACCGCTCtcat > 1:1615222/1‑40 (MQ=255)
gcCTAGCGCATGAGTTGGCGTAGCATTAAACCGCTCTCATCAACCATGGTCAGACCCAGTTCGTCt > 1:2100232/1‑66 (MQ=255)
|
CTCCATAAATGTGGAGACCGAGGTGCGGATCACACTCCCGCCTTTGGCGATACGCTGACGCGCCTGGCGCATGAGTTGGCGTAGCATTAAACCGCTCTCATCAACCATGGTCAGACCCAGTTCGTCTACG > minE/2280973‑2281102
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
