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 |
303,157 |
C→A |
58.6% |
L158L (CTG→CTT) |
tesB ← |
acyl‑CoA thioesterase II |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 303,157 | 0 | C | A | 58.6%
| 16.9
/ 55.7
| 58 | L158L (CTG→CTT) | tesB | acyl‑CoA thioesterase II |
| Reads supporting (aligned to +/- strand): ref base C (9/15); new base A (8/26); total (17/41) |
| Fisher's exact test for biased strand distribution p-value = 3.80e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GATGTGGTTCTGCGACGTGACCTTTCAGTGGGTTATGAAACTCCACCGGACGGACTTCCAGCGGACGATCGCAGATGAATTTATCTTTCAGCACTGGCGGCAGCAGGTGCGCCAGCGATTGGGCG > minE/303099‑303223
|
gATGTGGTTCTGCGACGTGACCTTTCAGTGGGTTATGAAACTCCACCGGACGGACTTCCAGCGGACg < 1:621875/67‑1 (MQ=255)
gTTCTGCGACGTGACCTTTCAGTGGGTTATGAAACTCCACCGGACGGACTTCCAGCGGACGATCGCa > 1:18862/1‑67 (MQ=255)
gTTCTGCGACGTGACCTTTCAGTGGGTTATGAAACTCCACCGGACGGACTTCCAGCGGACGATCGCAg > 1:440437/1‑68 (MQ=255)
gTTCTGCGACGTGACCTTTCAGTGGGTTATGAAACTCCACCGGACGGACTTCCAGCGGACGATCGCAg > 1:1992219/1‑68 (MQ=255)
gTTCTGCGACGTGACCTTTCAGTGGGTTATGAAACTCCACCGGACGGACTTCCAGCGGACGATCGCAg > 1:2162492/1‑68 (MQ=255)
gTTCTGCGACGTGACCTTTCAGTGGGTTATGAAACTCCACCGGACGGACTTCCAGCGGACGATCGCAg > 1:2197203/1‑68 (MQ=255)
gTTCTGCGACGTGACCTTTCAGTGGGTTATGAAACTCCACCGGACGGACTTCCAGCGGACGATCGCAg > 1:2713285/1‑68 (MQ=255)
gTTCTGCGACGTGACCTTTCAGTGGGTTATGAAACTCCACCGGACGGACTTCCAGCGGACGATCGCAg > 1:2939933/1‑68 (MQ=255)
cTGCGACGTGCCCTTTCAGTGGGTTATTAAACTCCACCGGACGGACTTCAAGCGGACGATCGCtgatga < 1:2464234/69‑1 (MQ=255)
cTGCGACGTGCCCTTTCAGTGGGTTATGAAACTCCACCGGACGGACTTCAAGCGGACGATCGCtgatga < 1:2899351/69‑1 (MQ=255)
cTGCGACGTGCCCTTTCAGTGGGTTATGAAACTCCACCGGACGGACTTCAAGCGGACGATCGCtgatga < 1:2698076/69‑1 (MQ=255)
cTGCGACGTGCCCTTTCAGTGGGTTATGAAACTCCACCGGACGGACTTCAAGCGGACGATCGCtgatga < 1:1024596/69‑1 (MQ=255)
cTGCGACGTGCCCTTTCAGTGGGTTATGAAACTCCACCGGACGGACTTCAAGCGGACGATCGCtgatga < 1:580510/69‑1 (MQ=255)
cTGCGACGTGCCCTTTCAGTGGGTTATGAAACTCCACCGGACGGACTTCAAGCGGACGATCGCtgatga < 1:2227090/69‑1 (MQ=255)
cTGCGACGTGCCCTTTCAGTGGGTTATGAAACTCCACCGGACGGACTTCAAGCGGACGATCGCtgatga < 1:600358/69‑1 (MQ=255)
cTGCGACGTGCCCTTTCAGTGGGTTATGAAACTCCACCGGACGGACTTCAAGCGGACGATCGCtgatga < 1:3022640/69‑1 (MQ=255)
cTGCGACGTGCCCTTTCAGTGGGTTATGAAACTCCACCGGACGGACTTCAAGCGGACGATCGCtgatga < 1:3058459/69‑1 (MQ=255)
cTGCGACGTGCCCTTTCAGTGGGTTATGAAACTCCACCGGACGGACTTCAAGCGGACGATCGCtgatga < 1:3135025/69‑1 (MQ=255)
cTGCGACGTGCCCTTTCAGTGGGTTATGAAACTCCACCGGACGGACTTCAAGCGGACGATCGCtgatga < 1:2010637/69‑1 (MQ=255)
cTGCGACGTGCCCTTTCAGTGGGTTATGAAACTCCACCGGACGGACTTCAAGCGGACGATCGCtgatga < 1:2009699/69‑1 (MQ=255)
cTGCGACGTGCCCTTTCAGTGGGTTATGAAACTCCACCGGACGGACTTCAAGCGGACGATCGCtgatga < 1:3395823/69‑1 (MQ=255)
cTGCGACGTGCCCTTTCAGTGGGTTATGAAACTCCACCGGACGGACTTCAAGCGGACGATCGCtgatga < 1:1945307/69‑1 (MQ=255)
cTGCGACGTGCCCTTTCAGTGGGTTATGAAACTCCACCGGACGGACTTCAAGCGGACGATCGCtgatga < 1:190695/69‑1 (MQ=255)
cTGCGACGTGCCCTTTCAGTGGGTTATGAAACTCCACCGGACGGACTTCAAGCGGACGATCGCtgatga < 1:1786706/69‑1 (MQ=255)
cTGCGACGTGCCCTTTCAGTGGGTTATGAAACTCCACCGGACGGACTTCAAGCGGACGATCGCtgatga < 1:1326619/69‑1 (MQ=255)
cTGCGACGTGCCCTTTCAGTGGGTTATGAAACTCCACCGGACGGACTTCAAGCGGACGATCGCtgatga < 1:1962215/69‑1 (MQ=255)
cTGCGACGTGCCCTTTCAGTGGGTTATGAAACTCCACCGGACGGACTTCAAGCGGACGATCGCtgatga < 1:69640/69‑1 (MQ=255)
cTGCGACGTGCCCTTTCAGTGGGTTATGAAACTCCACCGGACGGACTTCAAGCGGACGATCGCtgatga < 1:966729/69‑1 (MQ=255)
cTGCGACGTGCCCTTTCAGTGGGTTATGAAACTCCACCGGACGGACTTCAAGCGGACGATCGCtgatga < 1:1597548/69‑1 (MQ=255)
cTGCGACGTGCCCTTTCAGTGGGTTATGAAACTCCACCGGACGGACTTCAAGCGGACGATCGCtgatga < 1:1295102/69‑1 (MQ=255)
cTGCGACGTGCCCTTTCAGTGGGTTATGAAACTCCACCGGACGGACTTCAAGCGGACGATCGCtgatga < 1:1418079/69‑1 (MQ=255)
cTGCGACGTGCCCTTTCAGTGGGTTATGAAACTCCACCGGACGGACTTCAAGCGGACGATCGCtgatga < 1:99604/69‑1 (MQ=255)
cTGCGACGTGCCCTTTCAGTGGGTTATGAAACTCCACCGGACGGACTTCAAGCGGACGATCGCtgatga < 1:1482255/69‑1 (MQ=255)
ttCAGTGGGTTATGAAACTCCACCGGACGGACTTCCAGCGGACGATCGCAGATGAATTTATCTTTCAGc < 1:1516111/69‑1 (MQ=255)
aTGAAACTCCACCGGACGGACTTCCAGCGGACGATCGCAGATGAATTTATCTTTCAGCACTggcggc > 1:2347122/1‑67 (MQ=255)
aTGAAACTCCACCGGACGGACTTCCAGCGGACGATCGCAGATGAATTTATCTTTCAGCACTggcggc > 1:2771926/1‑67 (MQ=255)
tGAAACTCCACCGGACGGACTTCAAGCGGACGATCGCtgatga < 1:2140388/43‑1 (MQ=38)
aCTCCACCGGACGGACTTCCAGCGGACGATCGCAGATGAATTTATCTTTCAGc < 1:1298239/53‑1 (MQ=255)
ccGGACGGACTTCAAGCGGACGATCGCTGATGAATTTATCTTTCAGCACTGGCGgcag > 1:2220326/1‑58 (MQ=39)
ccGGACGGACTTCAAGCGGACGATCGCTGATGAATTTATCTTTCAGCACTGGCGGCAGCAGGTGCGcc > 1:3047373/1‑68 (MQ=255)
ccGGACGGACTTCAAGCGGACGATCGCTGATGAATTTATCTTTCAGCACTGGCGGCAGCAGGTGCGCCa > 1:1117397/1‑69 (MQ=255)
ccGGACGGACTTCAAGCGGACGATCGCTGATGAATTTATCTTTCAGCACTGGCGGCAGCAGGTGCGCCa > 1:1089763/1‑69 (MQ=255)
ccGGACGGACTTCAAGCGGACGATCGCTGATGAATTTATCTTTCAGCACTGGCGGCAGCAGGTGCGCCa > 1:325049/1‑69 (MQ=255)
ccGGACGGACTTCAAGCGGACGATCGCTGATGAATTTATCTTTCAGCACTGGCGGCAGCAGGTGCGCCa > 1:3391330/1‑69 (MQ=255)
ccGGACGGACTTCAAGCGGACGATCGCTGATGAATTTATCTTTCAGCACTGGCGGCAGCAGGTGCGCCa > 1:2788906/1‑69 (MQ=255)
ccGGACGGACTTCAAGCGGACGATCGCTGATGAATTTATCTTTCAGCACTGGCGGCAGCAGGTGCGCCa > 1:2573516/1‑69 (MQ=255)
gactgactTCCAGCGGACGATCGCAGATGAATTTATCTTTCAGCACTGGCGGCAGCAGGTGCGCCAGCg < 1:1693241/69‑1 (MQ=255)
gacggacTTCCAGCGGACGATCGCAGATGAATTTATCTTTCAGCACTGGCGGCAGCAGGTGCGCCAGCg < 1:1041422/69‑1 (MQ=255)
gacggacTTCCAGCGGACGATCGCAGATGAATTTATCTTTCAGCACTGGCGGCAGCAGGTGCGCCAGCg < 1:719462/69‑1 (MQ=255)
gacggacTTCCAGCGGACGATCGCAGATGAATTTATCTTTCAGCACTGGCGGCAGCAGGTGCGCCAGCg < 1:3235781/69‑1 (MQ=255)
gacggacTTCCAGCGGACGATCGCAGATGAATTTATCTTTCAGCACTGGCGGCAGCAGGTGCGCCAGCg < 1:2139773/69‑1 (MQ=255)
gacggacTTCCAGCGGACGATCGCAGATGAATTTATCTTTCAGCACTGGCGGCAGCAGGTGCGCCAGCg < 1:1680467/69‑1 (MQ=255)
gacggacTTCCAGCGGACGATCGCAGATGAATTTATCTTTCAGCACTGGCGGCAGCAGGTGCGCCAGCg < 1:1509822/69‑1 (MQ=255)
gacggacTTCCAGCGGACGATCGCAGATGAATTTATCTTTCAGCACTGGCGGCAGCAGGTGCGCCAGCg < 1:1333404/69‑1 (MQ=255)
gacggacTTCCAGCGGACGATCGCAGATGAATTTATCTTTCAGCACTGGCGGCAGCAGGTGCGCCAGCg < 1:1270593/69‑1 (MQ=255)
tCCAGCGGACGATCGCAGATGAATTTATCTTTCAGCACTGGCGGCAGCAGGTGCGCCAGCGATTGGGCg < 1:380533/69‑1 (MQ=255)
tCCAGCGGACGATCGCAGATGAATTTATCTTTCAGCACTGGCGGCAGCAGGTGCGCCAGCGATTGGGCg < 1:2390739/69‑1 (MQ=255)
tCCAGCGGACGATCGCAGATGAATTTATCTTTCAGCACTGGCGGCAGCAGGTGCGCCAGCGATTGGGCg < 1:2223750/69‑1 (MQ=255)
ccAGCGGACGATCGCAGATGAATTTATCTTTCAGCACTGGCGGCAGCAGGTGCGCCAGCGATTGGGCg < 1:2416919/68‑1 (MQ=255)
|
GATGTGGTTCTGCGACGTGACCTTTCAGTGGGTTATGAAACTCCACCGGACGGACTTCCAGCGGACGATCGCAGATGAATTTATCTTTCAGCACTGGCGGCAGCAGGTGCGCCAGCGATTGGGCG > minE/303099‑303223
|
| 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
