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 F21 I0 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,220,238 |
C→T |
9.4% |
intergenic (+498/‑480) |
yhdH → / → accB |
predicted oxidoreductase, Zn‑dependent and NAD(P)‑binding/acetyl CoA carboxylase, BCCP subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,220,238 | 0 | C | T | 9.4%
| 147.6
/ 4.8
| 53 | intergenic (+498/‑480) | yhdH/accB | predicted oxidoreductase, Zn‑dependent and NAD(P)‑binding/acetyl CoA carboxylase, BCCP subunit |
| Reads supporting (aligned to +/- strand): ref base C (18/30); new base T (3/2); total (21/32) |
| Fisher's exact test for biased strand distribution p-value = 3.74e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.39e-01 |
CGCTGCGTAATGTCGTCTATCTTGTCGCGATCCTGGCATCCCTACATTATTTGTGGTCTGTGAAGATTATCTCATTGCAGCCCCTCATCTTCGCAGGGCTGGCTTTTCAGCTTTTCACCTTACGTTATAAGAAGTTCC > minE/2220168‑2220305
|
cGCTGCGTAATGTCGTCTATCTTGTCGCGATCCTGGCATCCCTACATTATTTGTGGTCTGTGAAGATTAtc < 1:560546/71‑1 (MQ=255)
gcatAATTTCGTCTATCTTGTCGCGATTCTGGCCCCAATACATTATCTGTGGGCCGTGAAGATTATTTCa < 1:2331853/67‑1 (MQ=255)
gCGTAATGTCGTCTATCTTGTCGCGATCCTGGCATCCCTACATTATTTGTGGTCTGTGAAGATTATCTCAt > 1:3208725/1‑71 (MQ=255)
cGTAATGTCGTCTATCTTGTCGCGATCCTGGCATCCCTACATTATTTGTGGTCTGTGAAGATTATCTCa < 1:1021865/69‑1 (MQ=255)
cGTAATGTCGTCTATCTTGTCGCGATCCTGGCATCCCTACATTATTTGTGGTCTGTGAAGATTATCTCa < 1:3613836/69‑1 (MQ=255)
cGTAATGTCGTCTATCTTGTCGCGATCCTGGCATCCCTACATTATTTGTGGTCTGTGAAGATTATCTCAtt < 1:1665413/71‑1 (MQ=255)
aTGTCGTCTATCTTGTCGCGATCCTGGCATCCCTACATTATTTGTGGTCTGTGAAGATTATCTCATTGCAg < 1:3357673/71‑1 (MQ=255)
aTGTCGTCTATCTTGTCGCGATCCTGGCATCCCTACATTATTTGTGGTCTGTGAAGATTATCTCATTGCAg < 1:3578032/71‑1 (MQ=255)
cgtcTATCTTGTCGCGATCCTGGCATCCCTACATTATTTGTGGTCTGTGAAGATTATCTCATTGCAGcccc > 1:43452/1‑71 (MQ=255)
gtcTATCTTGTCGCGATCCTGGCATCCCTACATTATTTGTGGTCTGTGAAGATTATCTCATTGCAGcccat > 1:2706800/1‑69 (MQ=255)
gtcTATCTTGTCGCGATCCTGGCATCCCTACATTATTTGTGGTCTGTGAAGATTATCTCATTGCAGCCCCt > 1:1692820/1‑71 (MQ=255)
cTATCTTGTCGCGATCCTGGCATCCCTACATTATTTGTGGTCTGTGAAGATTATCTCATTGCAGCCCCTCa > 1:263531/1‑71 (MQ=255)
tATCTTGTCGCGATTCTGGCCCCAATACATTATCTGTGGTCCGTGAAGATTATTTCACCGCAGCCGCTCAt > 1:1218499/1‑71 (MQ=255)
tATCTTGTCGCGATTCTGGCCCCAATACATTATCTGTGGTCCGTGAAGATTATTTCACCGAAGCCGCTCa > 1:1786018/1‑70 (MQ=255)
tATCTTGTCGCGATCCTGGCATCCCTACATTATTTGTGGTCTGTGAAGATTATCTCATTGCAGCCCCTCAt > 1:2893/1‑71 (MQ=255)
aTCTTGTCGCGATCCTGGCATCCCTACATTATTTGTGGTCTGTGAAGATTATCTCATTGCAGCCCCTCATc > 1:3737366/1‑71 (MQ=255)
tCTTGTCGCGATCCTGGCATCCCTACATTATTTGTGGTCTGTGAAGATTATCTCATTGCAGCCCCTCATCt > 1:1963595/1‑71 (MQ=255)
gTCGCGATCCTGGCATCCCTACATTATTTGTGGTCTGTGAAGATTATCTCATTGCAGCCCCTCATCTTc < 1:2189772/69‑1 (MQ=255)
tCGCGATCCTGGCATCCCTACATTATTTGTGGTCTGTGAAGATTATCTCATTg < 1:3474209/53‑1 (MQ=255)
tCGCGATCCTGGCATCCCTACATTATTTGTGGTCTGTGAAGATTATCTCATTGCAGCCCCTCATCTTCGCa < 1:2276963/71‑1 (MQ=255)
cgATCCTGGCATCCCTACATTATTTGTGGTCTGTGAAGATTATCTCATTGCAGCCCCTCATCTTCGCAgg < 1:2946723/70‑1 (MQ=255)
aTCCTGGCATCCCTACATTATTTGTGGTTTGTGAAGATTATCTCATTGCAGCCCCTCATCTTCGCAGggct > 1:2966677/1‑71 (MQ=255)
aTCCTGGCATCCCTACATTATTTGTGGTCTGTGAAGATTATCTCATTGCAGCCCCTCATCTTCGCAGggct > 1:3882101/1‑71 (MQ=255)
tCCTGGCATCCCTACATTATTTGTGGTCTGTGAAGATTATCTCATTGCAGCCCCTCATCTTCGCAGggctg < 1:2441963/71‑1 (MQ=255)
gCATCCCTACATTATTTGTGGTCTGTGAAGATTATCTCATTGCAGCCCCTCATCTTCGCAGGGCTGgcttt < 1:2145023/71‑1 (MQ=255)
gCATCCCTACATTATTTGTGGTCTGTGAAGATTATCTCATTGCAGCCCCTCATCTTCGCAGGGCTGgcttt < 1:2678425/71‑1 (MQ=255)
cATCCCTACATTATTTGTGGTCTGTGAAGATTATCTCATTGCAGCCCCTCATCTTCGCAg < 1:1018372/60‑1 (MQ=255)
aTCCCTACATTATTTGTGGTCTGTGAAGATTATCTCATTGCAGCCCCTCATCTTCGCAGGGCTGcctttt > 1:3007249/1‑70 (MQ=255)
ccTACATTATTTGTGGTCTGTGAAGATTATCTCATTGc > 1:2367900/1‑38 (MQ=255)
ccTACATTATTTGTGGTCTGTGAAGATTATCTCATTGCAGCCCCTCATCTTCGCAGGGCTGgcttttcagc < 1:874545/71‑1 (MQ=255)
ccTACATTATTTGTGGTCTGTGAAGATTATCTCATTGCAGCCCATCATCTTCGCAGGGCTGgcttttcagc < 1:3012277/71‑1 (MQ=255)
cTACATTATTTGTGGTCTGTGAAGATTATCTCATTGCAGCCCCTCATCTTCGCAGGGCTGgcttttcagct > 1:85787/1‑71 (MQ=255)
cTACATTATTTGTGGTCTGTGAAGATTATCTCATTGCAGCCCCTCATCTTCGCAGGGCTGgcttttcagct > 1:3951021/1‑71 (MQ=255)
aCATTATTTGTGGTCTGTGAAGATTATCTCATTGCAGCCCCTCATCTTCGCAGGGCTGgcttttcagcttt > 1:230707/1‑71 (MQ=255)
cATTATTTGTGGTCTGTGAAGATTATCTCATTGCAGCCCCTCATCTTCGc > 1:2659388/1‑50 (MQ=255)
cATTATTTGTGGTCTGTGAAGATTATCTCATTGCAGCCCCTCATCTTCGCAGGGCTGgcttttcagcttt < 1:1748476/70‑1 (MQ=255)
ttattTGTGGTCTGTGAAGATTATCTCATTGCAGCCCCTCATCTTCGCAGGGCTGgcttttcagctttt < 1:1858827/69‑1 (MQ=255)
tattTGTGGTCCGTGAAGATTATCTCATTGCAGCCCCTCATCTTCGCAGGGCTGgcttttcagctttt < 1:3894412/68‑1 (MQ=255)
tttGTGGTCTGTGAAGATTATCTCATTGCAGCCCCTCATCtt < 1:2077782/42‑1 (MQ=255)
gattgGTCTGTGAAGATTATCTCATTGCAGCCCCTCATCTTCGCAGGGCTGGCTTTTCAGCTTTTCACCtt < 1:1793023/68‑1 (MQ=255)
tgtgGTCTGTGAAGATTATCTCATTGCAGCCCCTCATCTTCGCAGGGCTGGCTTTTCAGCTTTTCACCtt < 1:365151/70‑1 (MQ=255)
tgtgGGCTGTGAAGATTATCTCATTGCAGCCCCTCATCtt < 1:3173215/40‑1 (MQ=255)
tgGTCCGTGAAGATTATTTCACCGCAGCCGCTCATCTACGCTGGGCTGGCTGTACTGCTTTTAGCCTTACg > 1:1629281/1‑71 (MQ=255)
tgtgAAGATTATCTCATTGCAGCCCCTCATCTTCGCAGGGCTGgcttttcagcttttc < 1:2495725/58‑1 (MQ=255)
tgtgAAGATTATCTCATTGCAGCCCCTCATCTTCGCAGGGCTGGCTTTTCAGCTTTTCACCTTACGTtat < 1:341319/70‑1 (MQ=255)
tgAAGATTATCTCATTGCAGCCCCTCATCTTCGCAGGGCTGGCTTTTCAGCTTTTCACCTTACGTTATaag < 1:2770125/71‑1 (MQ=255)
aaGATTATCTCATTGCAGCCCCTCATCTTCGCAGGGCTGgcttt < 1:2309994/44‑1 (MQ=255)
aaGATTATCTCATTGCAGCCCCTCATCTTCGCAGGGCTGGCTTTTCAGCTTTTCACCTTACGTTATaagaa < 1:3737436/71‑1 (MQ=255)
aaGATTATCTCATTGCAGCCCCTCATCTTCGCAGGGCTGGCTTTTCAGCTTTTCACCTTACCTTATaaga < 1:3274971/70‑1 (MQ=255)
aGATTATCTCATTGCAGCCCCTCATCTTCGCAGGGCTGgcttttcagcttttca < 1:3621684/54‑1 (MQ=255)
aTTATCTCATTGCAGCCCCTCATCTTCGCAGggct > 1:1956931/1‑35 (MQ=255)
ttATTTCACCGCAGCCGCTCATCTACGCTGGGCTGGCTGTACTGCTTTTAGCCTTACGGTATAAGAAGtt < 1:306202/70‑1 (MQ=255)
tATCTCATTGCAGCCCCTCATCTTCGCAGGGCTGGCTTTTCAGCTTTTCACCTTACGTTATAAGAAGTTcc > 1:1724198/1‑71 (MQ=255)
aTCTCATTGCAGCCCCTCATCTTCGCAGGGCTGGCTTTTCAGCTTTTCACCTTACGTTATAAGAAGTTcc < 1:555951/70‑1 (MQ=255)
|
CGCTGCGTAATGTCGTCTATCTTGTCGCGATCCTGGCATCCCTACATTATTTGTGGTCTGTGAAGATTATCTCATTGCAGCCCCTCATCTTCGCAGGGCTGGCTTTTCAGCTTTTCACCTTACGTTATAAGAAGTTCC > minE/2220168‑2220305
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
