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 |
1,257,376 |
T→C |
54.1% |
F7L (TTT→CTT) |
yecP → |
predicted methyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,257,376 | 0 | T | C | 54.1%
| 19.9
/ 101.9
| 74 | F7L (TTT→CTT) | yecP | predicted methyltransferase |
| Reads supporting (aligned to +/- strand): ref base T (14/20); new base C (25/15); total (39/35) |
| Fisher's exact test for biased strand distribution p-value = 1.02e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.32e-01 |
TCCAGTGCTTTAACTTTGGTTCACTGGTGGCATTAAAAGCAGAGGACGCTGCATGATCGACTTTGGTAACTTTTATTCTCTGATTGCCAAAAATCATCTTTCACACTGGCTCGAAACGCTGCCCGCGCAGATTGCTAACT > minE/1257306‑1257445
|
tCCAGTGCTTTAACTTTGGTTCACTGGTGGCATTAAAAGCAGAGGACGCTGCATGATCGACTTTGGTAACt > 1:1202377/1‑71 (MQ=255)
tCCAGTGCTTTAACTTTGGTTCACTGGTGGCATTAAAAGCAGAGGACGCTGCATGATCGACTTTGGTAACt > 1:2536861/1‑71 (MQ=255)
aGTGCTTTAACTTTGGTTCACTGGTGGCATTAAAAGCAGAGGACGCTGCATGATCGACTTTGGTAACcttt < 1:3600196/71‑1 (MQ=255)
aGTGCTTTAACTTTGGTTCACTGGTGGCATTAAAAGCAGAGGACGCTGCATGATCGACTTTGGTAACcttt < 1:2238648/71‑1 (MQ=255)
cTTTAACTTTGGTTCACTGGTGGCATTAAAAGCAGAGGACGCTGCATGATCGACTTTGGTAACTTTTATtc > 1:3671387/1‑71 (MQ=255)
cTTTAACTTTGGTTCACTGGTGGCATTAAAAGCAGAGGACGCTGCATGATCGACTTTGGTAACTTTTATtc > 1:1168638/1‑71 (MQ=255)
ttAACTTTGGTTCACTGGTGGCATTAAAAGCAGAGGACGCTGCATGATCGACTTTGGTAACCTTTATtctc > 1:744925/1‑71 (MQ=255)
tAACTTTGGTTCACTGGTGGCATTAAAAGCAGAGGACGCTGCATGATCGACTTTGGTAACCTTTATtct < 1:2603548/69‑1 (MQ=255)
tAACTTTGGTTCACTGGTGGCATTAAAAGCAGAGGACGCTGCATGATCGACTTTGGTAACCTTTATtct < 1:2598433/69‑1 (MQ=255)
tAACTTTGGTTCACTGGTGGCATTAAAAGCAGAGGACGCTGCATGATCGACTTTGGTAACCTTTATtct < 1:1633317/69‑1 (MQ=255)
aaCTTTGGTTCACTGGTGGCATTAAAAGCAGAGGACGCTGCATGATCGACTTTGGTAACTTTTATTctct < 1:2583366/70‑1 (MQ=255)
aCTTTGGTTCACTGGTGGCATTAAAAGCAGAGGACGCTGCATGATCGACTTTGGTAACCTTTATTCTCTGa < 1:1039540/71‑1 (MQ=255)
aCTTTGGTTCACTGGTGGCATTAAAAGCAGAGGACGCTGCATGATCGACTTTGGTAACCTTTATTCTCTGa > 1:4060543/1‑71 (MQ=255)
aCTTTGGTTCACTGGTGGCATTAAAAGCAGAGGACGCTGCATGATCGACTTTGGTAACCTTTATTCTCTGa > 1:716716/1‑71 (MQ=255)
ttGGTTCACTGGTGGCATTAAAAGCAGAGGACGCTGCATGATCGACTTTGGTAACTTTTATTCTCTGATTg > 1:2607080/1‑71 (MQ=255)
ttGGTTCACTGGTGGCATTAAAAGCAGAGGACGCTGCATGATCGACTTTGGTAACTTTTATTCTCTGATTg > 1:3585499/1‑71 (MQ=255)
ggTTCACTGGTGGCATTAAAAGCAGAGGACGCTGCATGATCGACTTTGGTAACCTTTATTCTCTGATTGc > 1:3740382/1‑70 (MQ=255)
ggTTCACTGGTGGCATTAAAAGCAGAGGACGCTGCATGATCGACTTTGGTAACCTTTATTCTCTGATTGc > 1:3353000/1‑70 (MQ=255)
tggtggCATTAAAAGCAGAGGACGCTGCATGATCGACTTTGGTAACCTTTATTCTCTGATTGCCAAAAat > 1:1630079/1‑70 (MQ=255)
tgtggCATTAAAAGCAGAGGACGCTGCATGATCGACTTTGGTAACTTTTATTCTCTGATTGCCAAAAatca > 1:1434989/2‑71 (MQ=255)
ggtggCATTAAAAGCAGAGGACGCTGCATGATCGACTTTTGTAACCTTTAtt < 1:654178/52‑1 (MQ=255)
ggtggCATTAAAAGCAGAGGACGCTGCATGATCGACTTTGGTAACTTTTAt > 1:3720466/1‑51 (MQ=255)
ggtggCATTAAAAGCAGAGGACGCTGCATGATCGACTTTGGTAACTTTTAt > 1:3351825/1‑51 (MQ=255)
ggtggCATTAAAAGCAGAGGACGCTGCATGATCGACTTTGGTAACTTTTATTCTCTGATTGCCAAAAatta > 1:880334/1‑69 (MQ=255)
ggtggCATTAAAAGCAGAGGACGCTGCATGATCGACTTTGGTAACCTTTAtt < 1:3908972/52‑1 (MQ=255)
ggtggCATTAAAAGCAGAGGACGCTGCATGATCGACTTTGGTAACCTTTAtt < 1:254244/52‑1 (MQ=255)
ggtggCATTAAAAGCAGAGGACGCTGCATGATCGACTTTGGTAACCTTTAtt < 1:1261536/52‑1 (MQ=255)
ggtggCATTAAAAGCAGAGGACGCTGCATGATCGACTTTGGTAACCTTTAtt < 1:3342053/52‑1 (MQ=255)
gCATTAAAAGCAGAGGACGCTGCATGATCGACTTTGGTAACTTTTATTCTCTGATTGCCAAAAATCATCtt > 1:3429216/1‑71 (MQ=255)
gCATTAAAAGCAGAGGACGCTGCATGATCGACTTTGGTAACTTTTATTCTCTGATTGCCAAAAATCATCtt > 1:578620/1‑71 (MQ=255)
cATTAAAAGCAGAGGACGCTGCATGATCGACTTTGGTAACCTTTATTCTCTGATTGCCAAAAATCATCttt < 1:1870959/71‑1 (MQ=255)
ttAAAAGCAGAGGACGCTGCATGATCGACTTTGGTAACCTTTATTctct < 1:1197695/49‑1 (MQ=255)
ttAAAAGCAGAGGACGCTGCATGATCGACTTTGGTAACCTTTATTctct < 1:1095295/49‑1 (MQ=255)
aaaaGCAGAGGATGCTGCATGATCGACTTTGGTAACCTTTATTCTCTGATTGCCAAAAATCATCTTTcaca > 1:3534894/1‑71 (MQ=255)
aaaaGCAGAGGACGCTGCATGATCGACTTTGGTAACTTTTATTCTCTGa > 1:1105967/1‑49 (MQ=255)
aaaaGCAGAGGACGCTGCATGATCGACTTTGGTAACTTTTATTCTCTGATTGCCAAAAatcatc > 1:2728450/1‑64 (MQ=255)
aaaaGCAGAGGACGCTGCATGATCGACTTTGGTAACTTTTATTCTCTGATTGCCAAAAATCATCTTTcact > 1:2717238/1‑70 (MQ=255)
aaaaGCAGAGGACGCTGCATGATCGACTTTGGTAACCTTTATTCTCTGATTGCCAAAAATCATCTTTcaca > 1:1561596/1‑71 (MQ=255)
aaaaGCAGAGGACGCTGCATGATCGACTTTGGTAACCTTTATTCTCTGATTGCCAAAAATCATCTTTcaca > 1:750950/1‑71 (MQ=255)
aaGCAGAGGACGCTGCATGATCGACTTTGGTAACCTTTATTCTCTGATTGCCAAAAatc > 1:1547454/1‑59 (MQ=255)
gCAGAGGACGCTGCATGATCGACTTTGGTAACCTTTa > 1:668629/1‑37 (MQ=255)
gCAGAGGACGCTGCATGATCGACTTTGGTAACCTTTa > 1:3262207/1‑37 (MQ=255)
agGACGCTGCATGATCGACTTTGGTAACTTTTATTCTCTGATTGCCAAAAATAATCTTTCAC‑CTGGCTCGa < 1:2287760/71‑1 (MQ=255)
ggACGCTGCATGATCGACTTTGGTAACTTTTATTCTCTGATTGCCAAAAATCATCTTTCACACTGGCTCGa < 1:26888/71‑1 (MQ=255)
gACGCTGCATGATCGACTTTGGTAACCTTTATTCTCTGATTGCCAAAAATCATCTTTCACACTGGCTCGa > 1:577953/1‑70 (MQ=255)
gACGCTGCATGATCGACTTTGGTAACCTTTATTCTCTGATTGCCAAAAATCATCTTTCACACTGGCTCGa > 1:3547378/1‑70 (MQ=255)
gACGCTGCATGATCGACTTTGGTAACCTTTATTCTCTGATTGCCAAAAATCATCTTTCACACTGGCTCGa > 1:2004623/1‑70 (MQ=255)
aCGCTGCATGATCGACTTTGGTAACCTTTATTCTCTGATTGCCAAAAATCATCTTTCACACTGGCTCGaaa > 1:3436205/1‑71 (MQ=255)
aCGCTGCATGATCGACTTTGGTAACCTTTATTCTCTGATTGCCAAAAATCATCTTTCACACTGGCTCGaaa > 1:913113/1‑71 (MQ=255)
aCGCTGCATGATCGACTTTGGTAACCTTTATTCTCTGATTGCCAAAAATCATCTTTCACACTGGCTCGaa > 1:2917145/1‑70 (MQ=255)
cGCTGCATGATCGACTTTGGTAACCTTTATTCTCTGATTGCCAAAAATCATCTTTCACACTGGCTCGAAAc < 1:518500/71‑1 (MQ=255)
tGCATGATCGACTTTGGTAACCTTTATTCTCTGATTGCCAAAAATCATCTTTCACACTGGCTCGaaa > 1:3326435/1‑67 (MQ=255)
tGCATGATCGACTTTGGTAACCTTTATTCTCTGATTGCCAAAAATCATCTTTCACACTGGCTCGAAACGCt > 1:1341767/1‑71 (MQ=255)
tGCATGATCGACTTTGGTAACCTTTATTCTCTGATTGCCAAAAATCATCTTTCACACTGGCTCGAAACGCt > 1:2510383/1‑71 (MQ=255)
cATGATCGACTTTGGTAACCTTTATTCTCTGATTGCCAAAAATCATCTTTCACACTGGCTCGAAACGCt < 1:1040815/69‑1 (MQ=255)
cATGATCGACTTTGGTAACCTTTATTCTCTGATTGCCAAAAATCATCTTTCACACTGGCTCGAAACGCTGc > 1:2631216/1‑71 (MQ=255)
aTGATCGACTTTGGTAACCTTTATTCTCTGATTGCCAAAAATCATCtt < 1:397891/48‑1 (MQ=255)
tGATCGACTTTGGTAACCTTTATTCTCTGATTGCCAAAAATCATCTTTCACACTGGCTCGaaa > 1:323844/1‑63 (MQ=255)
tGATCGACTTTGGTAACCTTTATTCTCTGATTGCCAAAAATCATCTTTCACACTGGCTCGaaa > 1:2708821/1‑63 (MQ=255)
gACTTTGGTAACTTTTATTCTCTGATTGCCAAAAATCATCTTTCACACTGGCTCGAAACGCTGCCCGCGCa < 1:863111/71‑1 (MQ=255)
gACTTTGGTAACTTTTATTCTCTGATTGCCAAAAATCATCTTTCACACTGGCTCGAAACGCTGCCCGCGCa < 1:2149486/71‑1 (MQ=255)
tttGGTAACTTTTATTCTCTGATTGCCAAAAATCATCttt < 1:3739777/40‑1 (MQ=255)
tttGGTAACTTTTATTCTCTGATTGCCAAAAATCATCttt < 1:1971200/40‑1 (MQ=255)
tttGGTAACTTTTATTCTCTGATTGCCAAAAATCATCTTTCACACTGGCTCGAAACGCTGCCCGCGCa < 1:1111704/68‑1 (MQ=255)
tttGGTAACTTTTATTCTCTGATTGCCAAAAATCATCTTTCACACTGGCTCGAAACGCTGCCCGCGCa < 1:350423/68‑1 (MQ=255)
tttGGTAACTTTTATTCTCTGATTGCCAAAAATCATCTTTCACACTGGCTCGAAACGCTGCCCGCGCa < 1:2540413/68‑1 (MQ=255)
gTAACTTTTATTCTCTGATTGCCAAAAATCATCTTTCACACTGGCTCGa < 1:2006508/49‑1 (MQ=255)
gTAACTTTTATTCTCTGATTGCCAAAAATCATCTTTCACACTGGCTCGAAACGCTGCCCGCGCAGATTGCt < 1:4103386/71‑1 (MQ=255)
gTAACTTTTATTCTCTGATTGCCAAAAATCATCTTTCACACTGGCTCGAAACGCTGCCCGCGCAGATTGCt < 1:3016333/71‑1 (MQ=255)
gTAACTTTTATTCTCTGATTGCCAAAAATCATCTTTCACACTGGCTCGAAACGCTGCCCGCGCAGATTGCt < 1:222187/71‑1 (MQ=255)
gTAACTTTTATTCTCTGATTGCCAAAAATCATCTTTCACACTGGCTCGAAACGCTGCCCGCGCAGATTGCt < 1:3089098/71‑1 (MQ=255)
gTAACTTTTATTCTCTGATTGCCAAAAATCATCTTTCACACTGGCTCGAAACGCTGCCCGCGCAGATTGCt < 1:80495/71‑1 (MQ=255)
tAACTTTTATTCTCTGATTGCCAAAAATCATCTTTCACACTGGCTCGAAACGCTGCCcg < 1:395609/59‑1 (MQ=255)
tAACTTTTATTCTCTGATTGCCAAAAATCATCTTTCACACTGGCTCGAAACGCTGCCcg < 1:3456812/59‑1 (MQ=255)
tAACTTTTATTCTCTGATTGCCAAAAATCATCTTTCACACTGGCTCGAAACGCTGCCCGCGCAGATTGCTa < 1:3880701/71‑1 (MQ=255)
tAACCTTTATTCTCTGATTGCCAAAAATCATCTTTCACACTGGCTCGAAACGCTGCCCGCGCAGATTGc > 1:405844/1‑69 (MQ=255)
aCTTTTATTCTCTGATTGCCAAAAATCATCTTTCACACTGGCTCGAAACGCTGCCCGCGCAGATTGCTAAc > 1:190212/1‑71 (MQ=255)
cTTTTATTCTCTGATTGCCAAAAATCATCTTTCACACTGGCTCGAAACGCTGCCCGCGCAGATTGCTAACt < 1:2615238/71‑1 (MQ=255)
|
TCCAGTGCTTTAACTTTGGTTCACTGGTGGCATTAAAAGCAGAGGACGCTGCATGATCGACTTTGGTAACTTTTATTCTCTGATTGCCAAAAATCATCTTTCACACTGGCTCGAAACGCTGCCCGCGCAGATTGCTAACT > minE/1257306‑1257445
|
| 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
