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 F8 I0 R2
|
296 |
77.6 |
4260404 |
88.1% |
3753415 |
61.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,528,498 |
C→T |
24.6% |
D83N (GAT→AAT) |
dfp ← |
fused 4'‑phosphopantothenoylcysteine decarboxylase and phosphopantothenoylcysteine synthetase, FMN‑binding |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,528,498 | 0 | C | T | 24.6%
| 116.3
/ 37.6
| 61 | D83N (GAT→AAT) | dfp | fused 4'‑phosphopantothenoylcysteine decarboxylase and phosphopantothenoylcysteine synthetase, FMN‑binding |
| Reads supporting (aligned to +/- strand): ref base C (26/20); new base T (5/10); total (31/30) |
| Fisher's exact test for biased strand distribution p-value = 1.46e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.58e-01 |
TTCGCCATTCCGGCAGCAACACGGGCAATCAAATCTGCCGTGGCAGGGGCGAGAATCACTAAATCAGCCCATTTACCCAGCTCAATATGGCCCATAGCGGCTTCGGCTGCCGGGTCCAGCAGACTGTCGG > minE/2528434‑2528563
|
ttCGCCATTCCGGCAGCAACACGGGCAATCAAATCTGCCGTGGCAGGGGCGAGAATCACTAAATCAGCCCa > 1:1958821/1‑71 (MQ=255)
ttCGCCATTCCGGCAGCAACACGGGCAATCAAATCTGCCGTGGCAGGGGCGAGAATCACTAAATCAGCCCa > 1:1438951/1‑71 (MQ=255)
cGCCATTCCGGCAGCAACACGGGCAATCAAATCTGCCGTGGCAGGGGCGAGAATCACTAAATCAGCCCAtt > 1:4240056/1‑71 (MQ=255)
gCCATTCCGGCAGCAACACGGGCAATCAAATCTGCCGTGGCAGGGGCGAGAATCACTAAATCAg > 1:166959/1‑64 (MQ=255)
gCCATTCCGGCAGCAACACGGGCAATCAAATCTGCCGTGGCAGGGGCGAGAATCACTAAATCAGCCCAtt < 1:3806394/70‑1 (MQ=255)
cGGCAGCAACACGGGCAATCAAATCTGCCGTGGCAGGGGCGAGAATCACTAAATTAGCCCATTTACCCAGc > 1:1671108/1‑71 (MQ=255)
gcagcaACACGGGCAATCAAATCTGCCGTGGCAGGGGCGAGAATCACTAAATCAGCCCATTTACCCAGCTc < 1:3252569/71‑1 (MQ=255)
gcagcaACACGGGCAATCAAATCTGCCGTGGCAGGGGCGAGAATCACTAAATCAGCCCATTTACCCAGCTc < 1:3762045/71‑1 (MQ=255)
agcaACACGGGCAATCAAATCTGCCGTGGCAGGGGCGAGAATCACTAAATTAGCCCATTTACCCAGCTCaa < 1:405589/71‑1 (MQ=255)
agcaACACGGGCAATCAAATCTGCCGTGGCAGGGGCGAGAATCACTAAATTAGCCCATTTACCCAGCTCaa < 1:3350347/71‑1 (MQ=255)
agcaACACGGGCAATCAAATCTGCCGTGGCAGGGGCGAGAATCACTAAATCAGCCCATTTACCCAGCTCaa < 1:1121420/71‑1 (MQ=255)
agcaACACGGGCAATCAAATCTGCCGTGGCAGGGGCGAGAATCACTAAATCAGCCCATTTACCCAGCTCaa < 1:4249336/71‑1 (MQ=255)
agcaACACGGGCAATCAAATCTGCCGTGGCAGGGGCGAGAATCACTAAATCAGCCCATTTACCCAGCTCaa < 1:1869007/71‑1 (MQ=255)
agcaACACGGGCAATCAAATCTGCCGTGGCAGGGGCGAGAATCACTAAATCAGCCCATTTACCCAGCTCaa < 1:1716111/71‑1 (MQ=255)
agcaACACGGGCAATCAAATCTGCCGTGGCAGGGGCGAGAATCACTAAATCAGCCCATTTACCCAGCTCaa < 1:1755502/71‑1 (MQ=255)
tCAAATCTGCCGTGGCAGGGGCGAGAATCACTAAATTAGCCCATTTa < 1:1111345/47‑1 (MQ=255)
tCAAATCTGCCGTGGCAGGGGCGAGAATCACTAAATTAGCCCATTTa < 1:1490542/47‑1 (MQ=255)
tCAAATCTGCCGTGGCAGGGGCGAGAATCACTAAATCAGCCCATTTACCCAGCTCAATATGGCCCATAGCg < 1:1780547/71‑1 (MQ=255)
tCAAATCTGCCGTGGCAGGGGCGAGAATCACTAAATCAGCCCATTTACCCAGCTCAATATGGCCCATAGCg > 1:3436097/1‑71 (MQ=255)
tCAAATCTGCCGTGGCAGGGGCGAGAATCACTAAATCAGCCCATTTACCCAGCTCAATATGGCCCATAGCg < 1:2817920/71‑1 (MQ=255)
aaaTCTGCCGTGGCAGGGGCGAGAATCACTAAATTAGCCCATTTACCCAGCTCAATATGGCCCATAGc < 1:3919517/68‑1 (MQ=255)
aaaTCTGCCGTGGCAGGGGCGAGAATCACTAAATTAGCCCATTTACCCAGCTCAATATGGCCCATAGc < 1:2463705/68‑1 (MQ=255)
aaaTCTGCCGTGGCAGGGGCGAGAATCACTAAATTAGCCCATTTACCCAGCTCAATATGGCCCATAGCGGc > 1:667881/1‑71 (MQ=255)
aaaTCTGCCGTGGCAGGGGCGAGAATCACTAAATCAGCCCATTTACCCAGCTCAATATGGCCCATAGCGGc > 1:2555667/1‑71 (MQ=255)
ccGTGGCAGGGGCGAGAATCACTAAATTAGCCCATTTACCCAGc < 1:2735566/44‑1 (MQ=255)
ccGTGGCAGGGGCGAGAATCACTAAATTAGCCCATTTACCCAGc < 1:1019683/44‑1 (MQ=255)
ccGTGGCAGGGGCGAGAATCACTAAATTAGCCCATTTACCCAGc < 1:2082936/44‑1 (MQ=255)
ccGTGGCAGGGGCGAGAATCACTAAATTAGCCCATTTACCCAGc < 1:1821563/44‑1 (MQ=255)
ccGTGGCAGGGGCGAGAATCACTAAATCAGCCCATTTACCCAGCTCAATATGGCCCATAGCGGCTTCgg < 1:4234392/69‑1 (MQ=255)
ccGTGGCAGGGGCGAGAATCACTAAATCAGCCCATTTACCCAGCTCAATATGGCCCATAGCGGCTTCGGCt > 1:3857636/1‑71 (MQ=255)
gTGGCAGGGGCGAGAATCACTAAATCAGCCCATTTACCCAGCTCAATATGGCCCATAGCGGCTTCGGCTGc > 1:2375494/1‑71 (MQ=255)
ggCAGGGGCGAGAATCACTAAATCAGCCCATTTACCCAGCTCAATATGGCCCATAGCGGCTTCGGCTGCCg > 1:446440/1‑71 (MQ=255)
ggCAGGGGCGAGAATCACTAAATCAGCCCATTTACCCAGCTCAATATGGCCCATAGCGGCTTCGGCTGCCg > 1:272661/1‑71 (MQ=255)
ggCAGGGGAGAGAATCACTAAATCAGCCCATTTACCCAGCTCAATATgg > 1:2876178/1‑49 (MQ=255)
ggggCGAGAATCACTAAATCAGCCCATTTACCCAGCTCAATATGGCCCATAGCGGCTTCGGCTGcc < 1:1184835/66‑1 (MQ=255)
ggggCGAGAATCACTAAATCAGCCCATTTACCCAGCTCAATATGGCCCATAGCGGCTTCGGCTGcc < 1:2834456/66‑1 (MQ=255)
gggCGAGAATCACTAAATCAGCCCATTTACCCAGCTCAATATGGCCCATAGCGGCTTCGGCTGCCGGGTcc < 1:2776113/71‑1 (MQ=255)
gCGAGAATCACTAAATCAGCCCATTTACCCAGCTCAATATGGCCCATAGCGGCTTCGGCTGCCGGGTCcag > 1:1606252/1‑71 (MQ=255)
gagaATCACTAAATTAGCCCATTTACCCAGCTCAATATGGCCCATAGCGGCTTCGGCTGCCGGGTCcag > 1:3095709/1‑69 (MQ=255)
gagaATCACTAAATCAGCCCATTTACCCAGCTCAATATGGCCCATAGCGGCTTCGGCTGCCGGGTCcagca < 1:3207455/71‑1 (MQ=255)
gagaATCACTAAATCAGCCCATTTACCCAGCTCAATATGGCCCATAGCGGCTTCGGCTGCCGGGTCcagca < 1:1854257/71‑1 (MQ=255)
agaATCACTAAATCAGCCCATTTACCCAGCTCAATATGGCCCATAGCGGCTTCGGCTGCCGGGTCcagcag < 1:907257/71‑1 (MQ=255)
agaATCACTAAATCAGCCCATTTACCCAGCTCAATATGGCCCATAGCGGCTTCGGCTGCCGGGTCcagcag < 1:1870713/71‑1 (MQ=255)
gaATCACTAAATCAGCCCATTTACCCAGCTCAATATGGCCCATAGCGGCTTCGGCTGCCGGGTCCAGCAGa > 1:3630238/1‑71 (MQ=255)
aaTCACTAAATTAGCCCATTTACCCAGCTCAATATGGCCCATAGCGGCTTCGGCTGCCGGGTCCAGCAGAc > 1:2473724/1‑71 (MQ=255)
tCACTAAATCAGCCCATTTACCCAGCTCAATATgg > 1:3552627/1‑35 (MQ=255)
tCACTAAATCAGCCCATTTACCCAGCTCAATATGGCCCATAGCGGCTTCGGCTGCCGGGTCCAGCAGACTg > 1:2466393/1‑71 (MQ=255)
tCACTAAATCAGCCCATTTACCCAGCTCAATATGGCCCATAGCGGCTTCGGCTGCCGGGTCCAGCAGACTg > 1:1381647/1‑71 (MQ=255)
cACTAAATCAGCCCATTTACCCAGCTCAATATGGCCCAt > 1:2570526/1‑39 (MQ=255)
aaaTTAGCCCATTTACCCAGCTCAATATGGCCCATAGCGGCTTCGGCTGCCGGGTCCAGCAGACTGTCgg > 1:806655/1‑70 (MQ=255)
aaaTCAGCCCATTTACCCAGCTCAATATGGCCCATAGCGGCTTCgg > 1:1681866/1‑46 (MQ=255)
aaaTCAGCCCATTTACCCAGCTCAATATGGCCCATAGCGGCTTCGGc > 1:3269266/1‑47 (MQ=255)
aaaTCAGCCCATTTACCCAGCTCAATATGGCCCATAGCGGCTTCGGc > 1:1330258/1‑47 (MQ=255)
aaaTCAGCCCATTTACCCAGCTCAATATGGCCCATAGCGGCTTCGGc > 1:2844517/1‑47 (MQ=255)
aaaTCAGCCCATTTACCCAGCTCAATATGGCCCATAGCGGCTTCGGc > 1:378548/1‑47 (MQ=255)
aaaTCAGCCCATTTACCCAGCTCAATATGGCCCATAGCGGCTTCGGc > 1:1860883/1‑47 (MQ=255)
aaaTCAGCCCATTTACCCAGCTCAATATGGCCCATAGCGGCTTCGGCTGCCGGGTCCAGCAGACTGTCgg > 1:3019657/1‑70 (MQ=255)
aaTCAGCCCATTTACCCAGCTCAATATGGCCCATAg > 1:2930132/1‑36 (MQ=255)
aaTCAGCCCATTTACCCAGCTCAATATGGCCCATAGCGGCTTCGGCTGcc < 1:1743278/50‑1 (MQ=255)
aaTCAGCCCATTTACCCAGCTCAATATGGCCCATAGCGGCTTCGGCTGcc < 1:675650/50‑1 (MQ=255)
aaTCAGCCCATTTACCCAGCTCAATATGGCCCATAGCGGCTTCGGCTGCCgg > 1:4058196/1‑52 (MQ=255)
|
TTCGCCATTCCGGCAGCAACACGGGCAATCAAATCTGCCGTGGCAGGGGCGAGAATCACTAAATCAGCCCATTTACCCAGCTCAATATGGCCCATAGCGGCTTCGGCTGCCGGGTCCAGCAGACTGTCGG > minE/2528434‑2528563
|
| 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
