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 |
880,753 |
G→A |
66.0% |
intergenic (+72/‑122) |
yciM → / → pyrF |
conserved hypothetical protein/orotidine‑5'‑phosphate decarboxylase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 880,753 | 0 | G | A | 66.0%
| 51.7
/ 47.5
| 50 | intergenic (+72/‑122) | yciM/pyrF | conserved hypothetical protein/orotidine‑5'‑phosphate decarboxylase |
| Reads supporting (aligned to +/- strand): ref base G (4/13); new base A (10/23); total (14/36) |
| Fisher's exact test for biased strand distribution p-value = 7.46e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.16e-01 |
AATCCGACTTTAGTTACAACATACTAATTATTAATGTTCCATTGTGCTCCGGCAACGACGGCGCAGAAAAAGCCTGCCAGGGGAGAAATCGCAACTGTTAATTTTTTATTTCCACGGGTAGAATGCT > minE/880693‑880819
|
aaTCCGACTTTAGTTACAACATACTAATTATTAATGTTCCATTGTGCTCCGGCAACGACGACGCAGaaaaa < 1:2018017/71‑1 (MQ=255)
tCCGACTTTAGTTACAACATACTAATTATTAATGTTCCATTGTGCTCCGGCAACGACGGCGCAGAAAAAGc < 1:1658539/71‑1 (MQ=255)
tttAGTTACAACATACTAATTATTAATGTTCCATTGTGCTCCGGCAACGACGACGCAGaaaaa < 1:2526127/63‑1 (MQ=255)
tttAGTTACAACATACTAATTATTAATGTTCCATTGTGCTCCGGCAACGACGACGCAGAAAAAGCCTGc > 1:4061281/1‑69 (MQ=255)
gTTACAACATACTAATTATTAATGTTCCATTGTGCTCCGGCAACGACGGCGCAGAAAAAGCCTGCCAggg < 1:3638266/70‑1 (MQ=255)
caacaTACTAATTATTAATGTTCCATTGTGCTCCGGCAACGACGGCGCAGAAAAAGCCTg < 1:1353119/60‑1 (MQ=255)
caacaTACTAATTATTAATGTTCCATTGTGCTCCGGCAACGACGGCGCAGAAAAAGCCTGCCAGGGGAGaa < 1:3662649/71‑1 (MQ=255)
caTACTAATTATTAATGTTCCATTGTGCTCCGGCAACGACGGCGCAGAAAAAGCCTGCCAGGGGAGAAAt > 1:1435265/1‑70 (MQ=255)
aTACTAATTATTAATGTTCCATTGTGCTCCGGCAACGACGGCGCAGAAAAAGCCTGCCAGGGGAGAAATCg < 1:2001735/71‑1 (MQ=255)
tACTAATTATTAATGTTCCATTGTGCTTCGGCAACGACGACGCAGAAAAAGCCTGCCAGGGGAGAAATCGc < 1:628437/71‑1 (MQ=255)
tACTAATTATTAATGTTCCATTGTGCTCCGGCAACGACGACGCAGAAAAAGCCTGCCAGGGGAGAAATCGc < 1:1286730/71‑1 (MQ=255)
cTAATTATTAATGTTCCATTGTGCTCCGGCAACGACGACGCAGAAAAAGCCTGCCAGGGGAGAAATCGCa < 1:1693031/70‑1 (MQ=255)
aaTTATTAATGTTCCATTGTGCTCCGGCAACGACGACGCAGAAAAAGCCTGc < 1:737123/52‑1 (MQ=255)
aaTTATTAATGTTCCATTGTGCTCCGGCAACGACGACGCAGAAAAAGCCTGc < 1:2940022/52‑1 (MQ=255)
aaTTATTAATGTTCCATTGTGCTCCGGCAACGACGACGCAGAAAAAGCCTGc < 1:3780275/52‑1 (MQ=255)
aaTTATTAATGTTCCATTGTGCTCCGGCAACGACGACGCAGAAAAAGCCTGc < 1:2019831/52‑1 (MQ=255)
aaTTATTAATGTTCCATTGTGCTCCGGCAACGACGACGCAGAAAAAGCCTGc < 1:601841/52‑1 (MQ=255)
aaTTATTAATGTTCCATTGTGCTCCGGCAACGACGACGCAGAAAAAGCCTGc < 1:2727078/52‑1 (MQ=255)
attattAATGTTCCATTGTGCTCCGGCAACGACGGCGCAGAAAAAGCCTGCCAggg < 1:1151154/56‑1 (MQ=255)
attaATGTTCCATTGTGCTCCGGCAACGACGACGCAGAAAAAGCCTGCCAGGGgaga < 1:1145647/57‑1 (MQ=255)
attaATGTTCCATTGTGCTCCGGCAACGACGACGCAGAAAAAGCCTGCCAGGGGAGAAATCGc < 1:4103888/63‑1 (MQ=255)
attaATGTTCCATTGTGCTCCGGCAACGACGACGCAGAAAAAGCCTGCCAGGGGAGAAATCGCAACTGtt > 1:3765661/1‑70 (MQ=255)
ttaATGTTCCATTGTGCTCCGGCAACGACGACGCAGAAAAAGCCTGCCAGGGGAGAAATCGc < 1:814687/62‑1 (MQ=255)
aTGTTCCATTGTGCTCCGGCAACGACGACGCAGAAAAAGCCTGCCAGGGGAGAAATCGCAACTGTTAAttt < 1:383897/71‑1 (MQ=255)
ttCCATTGTGCTCCGGCAACGACGGCGCAGAAAAAGCCTGCCAGGGGAGAAATCGCAACTGTTAAttttt < 1:2371494/70‑1 (MQ=255)
ttCCATTGTGCTCCGGCAACGACGGCGCAGAAAAAGCCTGCCAGGGGAGAAATCGCAACTGTTAAttttt < 1:505225/70‑1 (MQ=255)
ttCCATTGTGCTCCGGCAACGACGGCGCAGAAAAAGCCTGCCAGGGGAGAAATCGCAACTGTTAAttttt > 1:17839/1‑70 (MQ=255)
ttCCATTGTGCTCCGGCAACGACGGCGCAGAAAAAGCCTGCCAGGGGAGAAATCGCAACTGTTAAttttt < 1:2928400/70‑1 (MQ=255)
ccATTGTGCTCCGGCAACGACGACGCAGAAAAAGCCTGCCAGGGGAGAAATCGCAACTGTTAATTTTTTa < 1:2505342/70‑1 (MQ=255)
cATTGTGCTCCGGCAACGACGACGCAGAAAAAGCCTGCCAGGGGAGAAATCGCAACTGTTAATTTTTTAtt > 1:3221164/1‑71 (MQ=255)
ttGTGCTCCGGCAACGACGACGCAGAAAAAGCCTGCCAGGGgag < 1:1447155/44‑1 (MQ=255)
ttGTGCTCCGGCAACGACGACGCAGAAAAAGCCTGCCAGGGgag < 1:3073212/44‑1 (MQ=255)
tgtgCTCCGGCAACGACGGCGCAGAAAAAGCCTGCCAGGGGAGAAATCGCAACTGTTAATTTTTTAttt > 1:291834/1‑69 (MQ=255)
tgtgCTCCGGCAACGACGACGCAGAAAAAGCCTGCCAGGGGAGAAATCGCAACTGTTAATTTTTTATTTc > 1:873255/1‑70 (MQ=255)
tgtgCTCCGGCAACGACGACGCAGAAAAAGCCTGCCAGGGGAGAAATCGCAACTGTTAATTTTTTATTTc > 1:3199666/1‑70 (MQ=255)
gtgCTCCGGCAACGACGACGCAGAAAAAGCCTGCCAGGGGAGAAATCGCAACTGTTAATTTTTTATTTc > 1:1302132/1‑69 (MQ=255)
tgCTCCGGCAACGACGACGCAGAAAAAGCCTGCCAGGGGAGAAATCGCAACTGTTAATTTTTTATTTCCAc < 1:1040397/71‑1 (MQ=255)
ccGGCAACGACGACGCAGAAAAAGCCTGCCAGGGGAGAAATCGCAACTGTTAATTTTTTATTTCCACggg > 1:2849932/1‑70 (MQ=255)
cGGCAACGACGGCGCAGAAAAAGCCTGCCAGGGGAGAAATCGCAACTGTTAATTTTTTATTTCCACggg > 1:465657/1‑69 (MQ=255)
cGGCAACGACGACGCAGAAAAAGCCTGCCAGGGGAGAAATCGCAACTGTTAATTTTTTATTTCCACg < 1:2663887/67‑1 (MQ=255)
cGGCAACGACGACGCAGAAAAAGCCTGCCAGGGGAGAAATCGCAACTGTTAATTTTTTATTTCCACg < 1:2221353/67‑1 (MQ=255)
cGGCAACGACGACGCAGAAAAAGCCTGCCAGGGGAGAAATCGCAACTGTTAATTTTTTATTTCCACGGGTa < 1:3949606/71‑1 (MQ=255)
cGGCAACGACGACGCAGAAAAAGCCTGCCAGGGGAGAAATCGCAACTGTTAATTTTTTATTTCCACGGGTa < 1:2284736/71‑1 (MQ=255)
gCAACGACGACGCAGAAAAAGCCTGCCAGGGGAGAAATCGCAACTGTTAATTTTTTATTTCCACggg > 1:3632574/1‑67 (MQ=255)
gCAACGACGACGCAGAAAAAGCCTGCCAGGGGAGAAATCGCAACTGTTAATTTTTTATTTCCACGGGTAg > 1:2712670/1‑70 (MQ=255)
aaCGCCGACGCAGAAAAAGCCTGCCAGGGGAGAAATCGCAACTGTTAATTTTTTATTTCCACGGGTAGAAt > 1:2196243/1‑71 (MQ=255)
aaCGACGGCGCAGAAAAAGCCTGCCAGGGGAGAAATCGCAACTGTTAATTTTTTATTTCCACGGGTAGAAt < 1:3049270/71‑1 (MQ=255)
aaCGACGGCGCAGAAAAAGCCTGCCAGGGGAGAAATCGCAACTGTTAATTTTTTATTTCCACGGGTAGAAt < 1:2100411/71‑1 (MQ=255)
gacgGCGCAGAAAAAGCCTGCCAGGGGAGAAATCGCAACTGTTAATTTTTTATTTCCACGGGTAGAATGCt < 1:3801442/71‑1 (MQ=255)
gacgGCGCAGAAAAAGCCTGCCAGGGGAGAAATCGCAACTGTTAATTTTTTATTTCCACGGGTAGAATGCt < 1:1237018/71‑1 (MQ=255)
|
AATCCGACTTTAGTTACAACATACTAATTATTAATGTTCCATTGTGCTCCGGCAACGACGGCGCAGAAAAAGCCTGCCAGGGGAGAAATCGCAACTGTTAATTTTTTATTTCCACGGGTAGAATGCT > minE/880693‑880819
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
