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 |
2,842,244 |
G→A |
73.1% |
R579R (CGC→CGT) |
frdA ← |
fumarate reductase (anaerobic) catalytic and NAD/flavoprotein subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,842,244 | 0 | G | A | 73.1%
| 35.8
/ 11.6
| 37 | R579R (CGC→CGT) | frdA | fumarate reductase (anaerobic) catalytic and NAD/flavoprotein subunit |
| Reads supporting (aligned to +/- strand): ref base G (3/7); new base A (16/11); total (19/18) |
| Fisher's exact test for biased strand distribution p-value = 1.51e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CGCCTTCTCCTTCTTATTGGCTGCTTCCGCCTTATCGGCTGCATCCGCTTCGCCACCGTAAACGCGTTTAGCTGGCGGCAGCGTAGTAATCTTCACGTCGCTGTA > minE/2842181‑2842285
|
cGCCTTCTCCTTCTTATTGGCTGCTTCCGCCTTATCGGCTGCATCCGCTTCGCCACCGTAAAcgc > 1:3312610/1‑65 (MQ=255)
cGCCTTCTCCTTCTTATTGGCTGCTTCCGCCTTATCGGCTGCATCCGCTTCGCCACCGTAAAcgc > 1:1548656/1‑65 (MQ=255)
cGCCTTCTCCTTCTTATTGGCTGCTTCCGCCTTATCGGCTGCATCCGCTTCGCCACCGTAAAcgc > 1:735334/1‑65 (MQ=255)
cGCCTTCTCCTTCTTATTGGCTGCTTCCGCCTTATCGGCTGCATCCGCTTCGCCACCGTAAACGCGttt > 1:2372073/1‑69 (MQ=255)
tctccttctTATTGGCTGCTTCCGCCTTATCGGCTGCATCCGCTTCGCCACCGTAAAcacg < 1:1004136/61‑1 (MQ=255)
tctccttctTATTGGCTGCTTCCGCCTTATCGGCTGCATCCGCTTCGCCACCGTAAAcacg < 1:398381/61‑1 (MQ=255)
tctccttctTATTGGCTGCTTCCGCCTTATCGGCTGCATCCGCTTCGCCACCGTAAAcacg < 1:631909/61‑1 (MQ=255)
tctccttctTATTGGCTGCTTCCGCCTTATCGGCTGCATCCGCTTCGCCACCGTAAAcacg < 1:2703279/61‑1 (MQ=255)
tctccttctTATTGGCTGCTTCCGCCTTATCGGCTGCATCCGCTTCGCCACCGTAAAcacg < 1:2699688/61‑1 (MQ=255)
tctccttctTATTGGCTGCTTCCGCCTTATCGGCTGCATCCGCTTCGCCACCGTAAAcacg < 1:266620/61‑1 (MQ=255)
tctccttctTATTGGCTGCTTCCGCCTTATCGGCTGCATCCGCTTCGCCACCGTAAAcacg < 1:2663740/61‑1 (MQ=255)
tctccttctTATTGGCTGCTTCCGCCTTATCGGCTGCATCCGCTTCGCCACCGTAAAcacg < 1:2396295/61‑1 (MQ=255)
tctccttctTATTGGCTGCTTCCGCCTTATCGGCTGCATCCGCTTCGCCACCGTAAAcacg < 1:22932/61‑1 (MQ=255)
tctccttctTATTGGCTGCTTCCGCCTTATCGGCTGCATCCGCTTCGCCACCGTAAAcacg < 1:1162018/61‑1 (MQ=255)
tctccttctTATTGGCTGCTTCCGCCTTATCGGCTGCATCCGCTTCGCCACCGTAAAcacg < 1:1483376/61‑1 (MQ=255)
ttcttATTGTCTGCTTCCGCCTTATCGGCTGCATCCGCTTCGCCACCGTAAAcacg < 1:531507/56‑1 (MQ=255)
ggCTGCTTCCGCCTTATCGGCTGCATCCGCTTCGCCACCGTAAACGCGTTTAGCTGGCGGCAGCgtagt > 1:3191207/1‑69 (MQ=255)
ctgctTCCGCCTTATCGGCTGCATCCGCTTCGCCACCGTAAACGCGTTTAGCTGGCGGCAGCgtagta < 1:1964307/68‑1 (MQ=255)
tCCGCCTTATCGGCTGCATCCGCTTCGCCACCGTAAACGCGTTTAGCTGGCGGCAGCGTAGTAATCtt < 1:2504462/68‑1 (MQ=255)
tCCGCCTTATCGGCTGCATCCGCTTCGCCACCGTAAACGCGTTTAGCTGGCGGCAGCGTAGTAATCtt < 1:701078/68‑1 (MQ=255)
tCCGCCTTATCGGCTGCATCCGCTTCGCCACCGTAAACGCGTTTAGCTGGCGGCAGCGTAGTAATCtt < 1:793831/68‑1 (MQ=255)
tCCGCCTTATCGGCTGCATCCGCTTCGCCACCGTAAACGCGTTTAGCTGGCGGCAGCGTAGTAATCtt < 1:1608659/68‑1 (MQ=255)
tCCGCCTTATCGGCTGCATCCGCTTCGCCACCGTAAACGCGTTTAGCTGGCGGCAGCGTAGTAATCtt < 1:2029431/68‑1 (MQ=255)
tCCGCCTTATCGGCTGCATCCGCTTCGCCACCGTAAACGCGTTTAGCTGGCGGCAGCGTAGTAATCtt < 1:1741277/68‑1 (MQ=255)
ttATCGGCTGCATCCGCTTCGCCACCGTAAACACGTTTAGCTGGCGGCAGCGTAGTAATCTTCACGTCg < 1:1665736/69‑1 (MQ=255)
ttATCGGCTGCATCCGCTTCGCCACCGTAAACACGTTTAGCTGGCGGCAGCGTAGTAATCTTCACGTCg < 1:1586192/69‑1 (MQ=255)
ttATCGGCTGCATCCGCTTCGCCACCGTAAACACGTTTAGCTGGCGGCAGCGTAGTAATCTTCACGTCg < 1:3434974/69‑1 (MQ=255)
ttATCGGCTGCATCCGCTTCGCCACCGTAAACACGTTTAGCTGGCGGCAGCGTAGTAATCTTCACGTCg < 1:1532542/69‑1 (MQ=255)
ttATCGGCTGCATCCGCTTCGCCACCGTAAACACGTTTAGCTGGCGGCAGCGTAGTAATCTTCACGTCg < 1:1288914/69‑1 (MQ=255)
ttATCGGCTGCATCCGCTTCGCCACCGTAAACACGTTTAGCTGGCGGCAGCGTAGTAATCTTCACGTCg < 1:1191011/69‑1 (MQ=255)
ttATCGGCTGCATCCGCTTCGCCACCGTAAACACGTTTAGCTGGCGGCAGCGTAGTAATCTTCACGTCg < 1:285514/69‑1 (MQ=255)
ttATCGGCTGCATCCGCTTCGCCACCGTAAACACGTTTAGCTGGCGGCAGCGTAGTAATCTTCACGTCg < 1:444172/69‑1 (MQ=255)
ttATCGGCTGCATCCGCTTCGCCACCGTAAACACGTTTAGCTGGCGGCAGCGTAGTAATCTTCACGTCg < 1:3148767/69‑1 (MQ=255)
ttATCGGCTGCATACGCTTCGCCACCGTAAACACGTTTAGCTGGCGGCAGCGTAGTAATCTTCACGTCg < 1:2019459/69‑1 (MQ=255)
tATCGGCTGCAGCCGCTTCGCCACCGTAAACACGTTTAGCTGGCGGCAGCGTAGTAATCTTCACGTCg < 1:195775/68‑1 (MQ=255)
ggCTGCATCCGCTTCGCCACCGTAAACGCGTTTAGCTGGCGGCAGCGTAGTAATCTTCACGTCGCTGTa > 1:1811547/1‑69 (MQ=255)
ccACCGTAAACACGTTTAGCTGGCGGCAGCGTAGTaa > 1:805424/1‑37 (MQ=255)
ccACCGTAAACACGTTTAGCTGGCGGCAGCGTAGTaa > 1:785876/1‑37 (MQ=255)
ccACCGTAAACACGTTTAGCTGGCGGCAGCGTAGTaa > 1:982665/1‑37 (MQ=255)
ccACCGTAAACACGTTTAGCTGGCGGCAGCGTAGTaa > 1:3228804/1‑37 (MQ=255)
ccACCGTAAACACGTTTAGCTGGCGGCAGCGTAGTaa > 1:3228551/1‑37 (MQ=255)
ccACCGTAAACACGTTTAGCTGGCGGCAGCGTAGTaa > 1:3224571/1‑37 (MQ=255)
ccACCGTAAACACGTTTAGCTGGCGGCAGCGTAGTaa > 1:3216640/1‑37 (MQ=255)
ccACCGTAAACACGTTTAGCTGGCGGCAGCGTAGTaa > 1:3001549/1‑37 (MQ=255)
ccACCGTAAACACGTTTAGCTGGCGGCAGCGTAGTaa > 1:2976073/1‑37 (MQ=255)
ccACCGTAAACACGTTTAGCTGGCGGCAGCGTAGTaa > 1:2830892/1‑37 (MQ=255)
ccACCGTAAACACGTTTAGCTGGCGGCAGCGTAGTaa > 1:2523402/1‑37 (MQ=255)
ccACCGTAAACACGTTTAGCTGGCGGCAGCGTAGTaa > 1:2397553/1‑37 (MQ=255)
ccACCGTAAACACGTTTAGCTGGCGGCAGCGTAGTaa > 1:2292323/1‑37 (MQ=255)
ccACCGTAAACACGTTTAGCTGGCGGCAGCGTAGTaa > 1:1589662/1‑37 (MQ=255)
ccACCGTAAACACGTTTAGCTGGCGGCAGCGTAGTaa > 1:1203825/1‑37 (MQ=255)
ccACCGTAAACACGTTTAGCTGGCGGCAGCGTAGTaa > 1:1036276/1‑37 (MQ=255)
|
CGCCTTCTCCTTCTTATTGGCTGCTTCCGCCTTATCGGCTGCATCCGCTTCGCCACCGTAAACGCGTTTAGCTGGCGGCAGCGTAGTAATCTTCACGTCGCTGTA > minE/2842181‑2842285
|
| 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
