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 |
|
A5 F21 I0 R2
|
316 |
65.6 |
5147759 |
97.4% |
5013917 |
60.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,857,513 |
C→T |
21.0% |
G58E (GGA→GAA) |
ydjG ← |
predicted oxidoreductase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,857,513 | 0 | C | T | 21.0%
| 169.3
/ 35.8
| 76 | G58E (GGA→GAA) | ydjG | predicted oxidoreductase |
| Reads supporting (aligned to +/- strand): ref base C (24/36); new base T (6/10); total (30/46) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CAACCTGTTCACGGGGCAGTTTTTTTAACGCCTGACCGACGATAACTTCACTATTGCCAAAGTTATATCCTGGCGCAGTATCAATCAGATTAATGCCACAACGATGGGCTTCAAGAATCGTATCAATACATATTTGCC > W3110S.gb/1857445‑1857582
|
cAACCTGTTCACGGGGCAGTTTTTTTAACGCCTGACCGACGATAACTTCACTATTGCCAAAGTTATATcc < 1:4508513/70‑1 (MQ=255)
cAACCTGTTCACGGGGCAGTTTTTTTAACGCCTGACCGACGATAACTTCACTATTGCCAAAGTTATATcc < 1:3644098/70‑1 (MQ=255)
cTGTTCACGGGGCAGTTTTTTTAACGCCTGACCGACGATAACTTCACTATTGCCAAAGTTATATCCTGgcg > 1:5033742/1‑71 (MQ=255)
cTGTTCACGGGGCAGTTTTTTTAACGCCTGACCGACGATAACTTCACTATTGCCAAAGTTATATCCTGgcg < 1:262052/71‑1 (MQ=255)
ttCACGGGGCAGTTTTTTTAACGCCTGACCGACGATAACTTCACTATTGCCAAAGTTATATCCTGgcgc < 1:877925/69‑1 (MQ=255)
gggCAGTTTTTTTAACGCCTGACCGACGATAACTTCACTATTGCCAAAGTTATATCCTGGCGCAGTatcaa < 1:1945309/71‑1 (MQ=255)
ggCAGTGTTTTTAACGCCTGACCGACGATAACTTCACTATTGCCAAAGTTATATTCTGgcg < 1:2489485/61‑1 (MQ=255)
gTTTTTTTAACGCCTGACCGACGATAACTTCACTATTGCCAAAGTTATATTCTGgcgc < 1:692713/58‑1 (MQ=255)
gTTTTTTTAACGCCTGACCGACGATAACTTCACTATTGCCAAAGTTATATTCTGgcg < 1:4698246/57‑1 (MQ=255)
gTTTTTTTAACGCCTGACCGACGATAACTTCACTATTGCCAAAGTTATATCCTGGCGCAGTatcaat > 1:1303265/1‑67 (MQ=255)
ttttttAACGCCTGACCGACGATAACTTCACTATTGCCAAAGTTATATCCTGGCGCAGTatcaat > 1:3231146/1‑65 (MQ=255)
ttttttAACGCCTGACCGACGATAACTTCACTATTGCCAAAGTTATATCCTGGCGCAGTATCAATCAGAt > 1:1804675/1‑70 (MQ=255)
ttttttAACGCCTGACCGACGATAACTTCACTATTGCCAAAGTTATATCCTGGCGCAGTATCAATCAGAt > 1:1934632/1‑70 (MQ=255)
tttttGACGCCTGACCGACGATAACTTCACTATTGCCAAAGTTATATCCTGGCGCAGTATCAATCAGAtt > 1:570064/1‑70 (MQ=255)
tttttAACGCCTGACCGACGATAACTTCACTATTGCCAAAGTTATATTCTGGCGCAGTATCAATCAGAtt > 1:1449941/1‑70 (MQ=255)
tttttAACGCCTGACCGACGATAACTTCACTATTGCCAAAGTTATATTCTGGCGCAGTATCAATCAGAtt > 1:952062/1‑70 (MQ=255)
tttttAACGCCTGACCGACGATAACTTCACTATTGCCAAAGTTATATCCTGGCGCAGTATCAATCAGAtt < 1:4633101/70‑1 (MQ=255)
tttttAACGCCTGACCGACGATAACTTCACTATTGCCAAAGTTATATCCTGGCGCAGTATCAATCAGAtt > 1:3610150/1‑70 (MQ=255)
tttttAACGCCTGACCGACGATAACTTCACTATTGCCAAAGTTATATCCTGGCGCAGTATCAATCAGAtt > 1:2393859/1‑70 (MQ=255)
tttttAACGCCTGACCGACGATAACTTCACTATTGCCAAAGTTATATCCTGGCGCAGTATCAATCAGAtt > 1:2387902/1‑70 (MQ=255)
gCCTGACCGACGATAACTTCACTATTGCCAAAGTTATATCCTGGCGCATTATCAATCAGAtt < 1:4530661/62‑1 (MQ=255)
gCCTGACCGACGATAACTTCACTATTGCCAAAGTTATATCCTGGCGCAGTATCAATCAGAtt < 1:3641588/62‑1 (MQ=255)
gCCTGACCGACGATAACTTCACTATTGCCAAAGTTATATCCTGGCGCAGTATCAATCAGAtt < 1:3905124/62‑1 (MQ=255)
ccTGACCGACGATAACTTCACTATTGCCAAAGTTATATCCTGGCGCa > 1:96935/1‑47 (MQ=255)
ccTGACCGACGATAACTTCACTATTGCCAAAGTTATATCCTGGCGCAGTATCAATCAGAtt < 1:4189397/61‑1 (MQ=255)
cTGACCGACGATAACTTCACTATTGCCAAAGTTATATCCTGGCGCAGTATCAATCAGATTaa > 1:2040538/1‑62 (MQ=255)
cTGACCGACGATAACTTCACTATTGCCAAAGTTATATCCTGGCGCAGTATCAATCAGATTAATGCCACAAc < 1:4780629/71‑1 (MQ=255)
cTGACCGACGATAACTTCACTATTGCCAAAGTTATATCCTGGCGCAGTATCAATCAGATTAATGCCACAAc < 1:365526/71‑1 (MQ=255)
cTGACCGACGATAACTTCACTATTGCCAAAGTTATATCCTGGCGCAGTATCAATCAGATTAATGCCACAAc < 1:1107302/71‑1 (MQ=255)
cTGACCGACGATAACTTCACTATTGCCAAAGTTATATCCTGGCGCAGTATCAATCAGATTAATGCCACAAc < 1:3482321/71‑1 (MQ=255)
cTGACCGACGATAACTTCACTATTGCCAAAGTTATATCCTGGCGCAGTATCAATCAGATTAATGCCACAAc < 1:316565/71‑1 (MQ=255)
cTGACCGACGATAACTTCACTATTGCCAAAGTTATATCCTGGCGCAGTATCAATCAGATTAATGCCACAAc < 1:65156/71‑1 (MQ=255)
gACCGACGATAACTTCACTATTGCCAAAGTTATATCCTGGCGCAg > 1:1974663/1‑45 (MQ=255)
gACCGACGATAACTTCACTATTGCCAAAGTTATATCCTGGCGCAg > 1:828931/1‑45 (MQ=255)
aCCGACGATAACTTCACTATTGCCAAAGTTATATCCTGGCGCAGTATCAATCAGAtt < 1:3359349/57‑1 (MQ=255)
aCCGACGATAACTTCACTATTGCCAAAGTTATATCCTGGCGCAGTATCAATCAGATTAATGCCACAACg < 1:1424215/69‑1 (MQ=255)
cgacgaTAACTTCACTATTGCCAAAGTTATATCCTGGCGCAGTATCAATCAg < 1:3031798/52‑1 (MQ=255)
cgacgaTAACTTCACTATTGCCAAAGTTATATCCTGGCGCAGTATCAATCAGATTAATGCCACAACGATgg > 1:4052292/1‑71 (MQ=255)
cgacgaTAACTTCACTATTGCCAAAGTTATATCCTGGCGCAGTATCAATCAGATTAATGCCACAACGATgg > 1:2950785/1‑71 (MQ=255)
cgacgaTAACTTCACTATTGCCAAAGTTATATCCTGGCGCAGTATCAATCAGATTAATGCCACAACGATgg > 1:5120035/1‑71 (MQ=255)
acgaTAACTTCACTATTGCCAAAGTTATATTCTGGCGCAGTATCAATCAGATTAATGCCACAACGa > 1:5054551/1‑66 (MQ=255)
gaTAACTTCACTATTGCCAAAGTTATATCCTGGCGCAGTATCAATCAGATTAATGCCACAACGATGGGCtt < 1:3635509/71‑1 (MQ=255)
aaCTTCACTATTGCCAAAGTTATATCCTGGCGCAGTATCAATCAGATTAAt > 1:3741432/1‑51 (MQ=255)
aCTTCACTATTGCCAAAGTTATATCCTGGCGCAGTATCAATCAGATTAATGCCACAACGATGGGCTTCAAg < 1:3814319/71‑1 (MQ=255)
cACTATTGCCAAAGTTATATTCTGGCGCAGTATCAATCAGATTAATGCCACAACGATGGGCTTCAAGaa < 1:329145/69‑1 (MQ=255)
cACTATTGCCAAAGTTATATCCTGGCGCAGTATCAATCAGATTAATGCCACAACGATGGGCTTCAAGaa < 1:2594422/69‑1 (MQ=255)
aCTATTGCCAAAGTTATATTCTGGCGCAGTATCAATCAGATTAATGCCACAACGATGGGCTTCAAGAATc < 1:3642513/70‑1 (MQ=255)
aCTATTGCCAAAGTTATATTCTGGCGCAGTATCAATCAGATTAATGCCACAACGATGGGCTTCAAGAATc < 1:3253352/70‑1 (MQ=255)
cTATTGCCAAAGTTATATCCTGGCGCAGTATCAATCAGATTAATGCCACAACGATGGGCTTCAAGAATCg > 1:3379290/1‑70 (MQ=255)
aTTGCCAAAGTTATATCCTGGCGCAGTATCAATCAGa < 1:498939/37‑1 (MQ=255)
ttGCCAAAGTTATATTCTGGCGCAGTATCAATCAGAtt < 1:3049618/38‑1 (MQ=255)
ttGCCAAAGTTATATTCTGGCGCAGTATCAATCAGAtt < 1:2800738/38‑1 (MQ=255)
ttGCCAAAGTTATATCCTGGCGCAGTATCAATCAGAtt < 1:2115471/38‑1 (MQ=255)
ttGCCAAAGTTATATCCTGGCGCAGTATCAATCAGATTAATGCcaca < 1:638521/47‑1 (MQ=255)
ttGCCAAAGTTATATCCTGGCGCAGTATCAATCAGATTAATGCcaca < 1:230551/47‑1 (MQ=255)
ttGCCAAAGTTATATCCTGGCGCAGTATCAATCAGATTAATGCcaca < 1:4750183/47‑1 (MQ=255)
ttGCCAAAGTTATATCCTGGCGCAGTATCAATCAGATTAATGCCACAACGa < 1:3550987/51‑1 (MQ=255)
ttGCCAAAGTTATATCCTGGCGCAGTATCAATCAGATTAATGCCACAACGa < 1:4750273/51‑1 (MQ=255)
ttGCCAAAGTTATATCCTGGCGCAGTATCAATCAGATTAATGCCACAACGa < 1:876789/51‑1 (MQ=255)
ttGCCAAAGTTATATCCTGGCGCAGTATCAATCAGATTAATGCCACAACGa < 1:155547/51‑1 (MQ=255)
ttGCCAAAGTTATATCCTGGCGCAGTATCAATCAGATTAATGCCACAACGa < 1:2541716/51‑1 (MQ=255)
tGCCAAAGTTATATTCTGGCGCAGTATCAATCAGATTAATGCCACAACGATGGGCTTCAAGAATCGTAt < 1:5087835/69‑1 (MQ=255)
gCCAAAGTTATATCCTGGCGCAGTATCAATCAGATTAATGCCACAACGATGGGCTTCAAGAATCGTATCaa > 1:1928739/1‑71 (MQ=255)
gCCAAAGTTATATCCTGGCGAAGTATCAATCAGATTAATGCCACAACGATGGGCTTCAAGAATCGTATCaa > 1:3708042/1‑71 (MQ=255)
ccAAAGTTATATTCTGGCGCAGTATCAATCAGATTAATGCCACAACGATGGGCTTCAAGAATCGTATCaa > 1:4274158/1‑70 (MQ=255)
ccAAAGTTATATTCTGGCGCAGTATCAATCAGATTAATGCCACAACGATGGGCTTCAAGAATCGTATCaa > 1:4841260/1‑70 (MQ=255)
ccAAAGTTATATCCTGGCGCAGTATCAATCAGATTAATGCCACAACGATGGGCTTCAAGAAt < 1:112025/62‑1 (MQ=255)
ccAAAGTTATATCCTGGCGCAGTATCAATCAGATTAATGCCACAACGATGGGCTTCAAGAAt < 1:1800371/62‑1 (MQ=255)
ccAAAGTTATATCCTGGCGCAGTATCAATCAGATTAATGCCACAACGATGGGCTTCAAGAAt < 1:2779180/62‑1 (MQ=255)
cAAAGTTATATCCTGGCGCAGTATCAATCAGATTaa > 1:2579185/1‑36 (MQ=255)
cAAAGTTATATCCTGGCGCAGTATCAATCAGATTaa > 1:3435006/1‑36 (MQ=255)
aaaGTTATATCCTGGCGCAGTATCAATCAGATTAATGCCACAACGAt > 1:4031179/1‑47 (MQ=255)
gTTATATCCTGGCGCAGTATCAATCAGATTAATGCCACAACGATGGGCTTCAAGAATCg < 1:3483726/59‑1 (MQ=255)
ttATATTCTGGCGCAGTATCAATCAGATTAATGCCACAACGATGGGCTTCAAGAATCGTATCAATACatat < 1:160220/71‑1 (MQ=255)
tataTTCTGGCGCAGTATCAATCAGATTAATGCCACAACGATGGGCTTCAAGAATCGTATCAATACata > 1:2286605/1‑69 (MQ=255)
atatCCTGGCGCAGTATCAATCAGATTAATGCCACAACGATGGGCTTCAAGAATCGTATCAATACATAttt > 1:940743/1‑71 (MQ=255)
tatCCTGGCGCAGTATCAATCAGATTAATGCCACAACGATGGGCTTCAAGAATCGTATCAATACATAttt < 1:84951/70‑1 (MQ=255)
tCCTGGCGCAGTATCAATCAGATTAATGCCACAACGATGGGCTTCAAGAATCGTATCAATACATATTTGcc < 1:1125330/71‑1 (MQ=255)
|
CAACCTGTTCACGGGGCAGTTTTTTTAACGCCTGACCGACGATAACTTCACTATTGCCAAAGTTATATCCTGGCGCAGTATCAATCAGATTAATGCCACAACGATGGGCTTCAAGAATCGTATCAATACATATTTGCC > W3110S.gb/1857445‑1857582
|
| 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
