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 |
2,522,857 |
G→A |
22.6% |
intergenic (‑257/+33) |
yicG ← / ← dinD |
conserved inner membrane protein/DNA‑damage‑inducible protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,522,857 | 0 | G | A | 22.6%
| 88.8
/ 17.7
| 66 | intergenic (‑257/+33) | yicG/dinD | conserved inner membrane protein/DNA‑damage‑inducible protein |
| Reads supporting (aligned to +/- strand): ref base G (39/12); new base A (4/11); total (43/23) |
| Fisher's exact test for biased strand distribution p-value = 1.25e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.67e-01 |
GAAAAGAAAGGTGCAATATTTAGCCATTGTGTTCACTGCACCTGGACCTTGGCTTACGCATCGGGTGTCTCAATCAACAAAAAGAGTTTTTAGTTTCTGCTATTTCTTCTCTGTAATTTTTACACTG > minE/2522791‑2522917
|
gAAAAGAAAGGTGCAATATTTAGCCATTGTGTTCACTGCACCTGGACCTTGGCTTACGCATCGGgtgt > 1:2263482/1‑68 (MQ=255)
aaaaGAAAGGTGCAATGTTTAGCCATTGTGTTCACCGCACCTGGACTTTGGCTTACGCTTCGGGTAtc > 1:3116391/1‑68 (MQ=255)
aaaaGAAAGGTGCAATGTTTAGCCATTGTGTTCACCGCACCTGGACTTTGGCTTACGCATCGGGTAtc > 1:649754/1‑68 (MQ=255)
aaaaGAAAGGTGCAATGTTTAGCCATTGTGTTCACCGCACCTGGACTTTGGCTTACGCATCGGGTAtc > 1:3382842/1‑68 (MQ=255)
aaaaGAAAGGTGCAATGTTTAGCCATTGTGTTCACCGCACCTGGACTTTGGCTTACGCATCGGGTAtc > 1:3298027/1‑68 (MQ=255)
agaaagGTGCAATATTTAGCCATTGTGTTCACTGCACCTGGACCTTGGCTTACGCATCGGGTGTCtca > 1:1277971/1‑68 (MQ=255)
agaaagGTGCAATATTTAGCCATTGTGTTCACTGCACCTGGACCTTGGCTTACGCATCGGGTGTCtca > 1:1132680/1‑68 (MQ=255)
agaaagGTGCAATATTTAGCCATTGTGTTCACTGCACCTGGACCTTGGCTTACGCATCGGGTGTCtca > 1:2158911/1‑68 (MQ=255)
atTTAGCCATTGTGTTCACTGCACCTGGACCTTGGCTTACGCATCGGGTGTCTCAATCAACAAAAagag > 1:1245025/1‑69 (MQ=255)
atTTAGCCATTGTGTTCACTGCACCTGGACCTTGGCTTACGCATCGGGTGTCTCAATCAACAAAAagag > 1:858198/1‑69 (MQ=255)
atTTAGCCATTGTGTTCACTGCACCTGGACCTTGGCTTACGCATCGGGTGTCTCAATCAACAAAAagag > 1:3089638/1‑69 (MQ=255)
atTTAGCCATTGTGTTCACTGCACCTGGACCTTGGCTTACGCATCGGGTGTCTCAATCAACAAAAagag > 1:1511296/1‑69 (MQ=255)
atTTAGCCATTGTGTTCACTGCACCTGGACCTTGGCTTACGCATCGGGTGTCTCAATCAACAAAAagag > 1:974707/1‑69 (MQ=255)
atTTAGCCATTGTGTTCACTGCACCTGGACCTTGGCTTACGCATCGGGTGTCTCAATCAACAAAAagag > 1:1730886/1‑69 (MQ=255)
tttAGCCATTGTGTTCACTGCACCTGGACCTTGGCTTACGCATCGGGTGTCTCAATGAACAAAAAGAGt > 1:708693/1‑69 (MQ=255)
tttAGCCATTGTGTTCACTGCACCTGGACCTTGGCTTACGCATCGGGTGTCTCAATCAACAAAAAGAGt > 1:332061/1‑69 (MQ=255)
tttAGCCATTGTGTTCACTGCACCTGGACCTTGGCTTACGCATCGGGTGTCTCAATCAACAAAAAGAGt > 1:1176281/1‑69 (MQ=255)
tttAGCCATTGTGTTCACTGCACCTGGACCTTGGCTTACGCATCGGGTGTCTCAATCAACAAAAAGAGt > 1:390607/1‑69 (MQ=255)
tttAGCCATTGTGTTCACTGCACCTGGACCTTGGCTTACGCATCGGGTGTCTCAATCAACAAAAAGAGt > 1:1624591/1‑69 (MQ=255)
tttAGCCATTGTGTTCACTGCACCTGGACCTTGGCTTACGCATCGGGTGTCTCAATCAACAAAAAGAGt > 1:3357291/1‑69 (MQ=255)
gtgtTCACTGCATCTGGACCTTGGCTTACGCATCGGGTGTCTCAATCAACAAAAAGAGTTTTTAGTTTc > 1:3038572/1‑69 (MQ=255)
gtgtTCACTGCACCTGGACCTTGGCTTACGCATCGGGTGTCTCAATCAACAAAAAGAGTTTTTAGttt > 1:3032581/1‑68 (MQ=255)
gtgtTCACTGCACCTGGACCTTGGCTTACGCATCGGGTGTCTCAATCAACAAAAAGAGTTTTTAGttt > 1:2745786/1‑68 (MQ=255)
gtgtTCACTGCACCTGGACCTTGGCTTACGCATCGGGTGTCTCAATCAACAAAAAGAGTTTTTAGttt > 1:582190/1‑68 (MQ=255)
gtgtTCACTGCACCTGGACCTTGGCTTACGCATCGGGTGTCTCAATCAACAAAAAGAGTTTTTAGttt > 1:2932994/1‑68 (MQ=255)
gtgtTCACTGCACCTGGACCTTGGCTTACGCATCGGGTGTCTCAATCAACAAAAAGAGTTTTTAGTTTc > 1:3161488/1‑69 (MQ=255)
gCACCTGGACCTTGGTTTACGCATCGGGTGTCTCAATCAACAAAAAGAGTTTTTAGTTTCTGCTATttc > 1:539093/1‑69 (MQ=255)
gCACCTGGACCTTGGCTTACGCATCGGGTGTCTCAATCAACaaaa > 1:2298076/1‑45 (MQ=255)
gCACCTGGACCTTGGCTTACGCATCGGGTGTCTCAATCAACAAAAAGAGTTTTTAGTTTCTGCTAttt > 1:271873/1‑68 (MQ=255)
gCACCTGGACCTTGGCTTACGCATCGGGTGTCTCAATCAACAAAAAGAGTTTTTAGTTTCTGCTAttt > 1:1012821/1‑68 (MQ=255)
gCACCTGGACCTTGGCTTACGCATCGGGTGTCTCAATCAACAAAAAGAGTTTTTAGTTTCTGCTAttt > 1:370227/1‑68 (MQ=255)
gCACCTGGACCTTGGCTTACGCATCGGGTGTCTCAATCAACAAAAAGAGTTTTTAGTTTCTGCTATttc > 1:2259518/1‑69 (MQ=255)
gCACCTGGACCTTGGCTTACGCATCGGGTGTCTCAATCAACAAAAAGAGTTTTTAGTTTCTGCTATttc > 1:1143303/1‑69 (MQ=255)
ccTGGACCTTGGCTTACGCATCGGGTGTCTCAATCAACAAAAAGAGTTTTTAGTTTCTGCTATttctt < 1:1930281/68‑1 (MQ=255)
ccTGGACCTTGGCTTACGCATCGGGTGTCTCAATCAACAAAAAGAGTTTTTAGTTTCTGCTATttctt < 1:1310102/68‑1 (MQ=255)
ggCTTACGCATCGGGTGTCTCAATCAACAAAAAGAGTTTTTAGTTTCTGCTATTTCTTCTCTGTAAtt > 1:382640/1‑68 (MQ=255)
ggCTTACGCATCGGGTGTCTCAATCAACAAAAAGAGTTTTTAGTTTCTGCTATTTCTTCTCTGTAAtt > 1:423585/1‑68 (MQ=255)
ggCTTACGCATCGGGTGTCTCAATCAACAAAAAGAGTTTTTAGTTTCTGCTATTTCTTCTCTGTAAtt > 1:568030/1‑68 (MQ=255)
ggCTTACGCATCGGGTGTCTCAATCAACAAAAAGAGTTTTTAGTTTCTGCTATTTCTTCTCTGTAAtt > 1:3081365/1‑68 (MQ=255)
ggCTTACGCATCGGGTGTCTCAATCAACAAAAAGAGTTTTTAGTTTCTGCTATTTCTTCTCTGTAAtt > 1:1071366/1‑68 (MQ=255)
ggCTTACGCATCGGGTGTCTCAATCAACAAAAAGAGTTTTTAGTTTCTGCTATTTCTTCTCTGTAAtt > 1:1107570/1‑68 (MQ=255)
ggCTTACGCATCGGGTGTCTCAATCAACAAAAAGAGTTTTTAGTTTCTGCTATTTCTTCTCTGTAAtt > 1:1583656/1‑68 (MQ=255)
ggCTTACGCATCGGGTGTCTCAATCAACAAAAAGAGTTTTTAGTTTCTGCTATTTCTTCTCTGTAAtt > 1:1257998/1‑68 (MQ=255)
ggCTTACGCATCGGGTGTCTCAATCAACAAAAAGAGTTTTTAGTTTCTGCTATTTCTTCTCTGTAAtt > 1:1275857/1‑68 (MQ=255)
cTTACGCATGGGGTATCTCAATAAACAAAAAGAGTTTTTATTTTCTGCTAtt < 1:1884264/52‑1 (MQ=255)
cTTACGCATCGGGTGTCTCAATCAACAAAAAGAGTTTTTAGTTTCTGCTATTTCTTCTCTGTAAtttt > 1:636251/1‑68 (MQ=255)
cTTACGCATCGGGTGTCTCAATCAACAAAAAGAGTTTTTAGTTTCTGCTATTTCTTCTCTGTAAtttt > 1:3094068/1‑68 (MQ=255)
cTTACGCATCGGGTATCTCAATCAACAAAAAGAGTTTTTATTTTCTGCTAtt < 1:747482/52‑1 (MQ=255)
cTTACGCATCGGGTATCTCAATCAACAAAAAGAGTTTTTATTTTCTGCTAtt < 1:1593352/52‑1 (MQ=255)
cTTACGCATCGGGTATCTCAATCAACAAAAAGAGTTTTTATTTTCTGCTAtt < 1:1594550/52‑1 (MQ=255)
cTTACGCATCGGGTATCTCAATCAACAAAAAGAGTTTTTATTTTCTGCTAtt < 1:1614182/52‑1 (MQ=255)
cTTACGCATCGGGTATCTCAATCAACAAAAAGAGTTTTTATTTTCTGCTAtt < 1:2900375/52‑1 (MQ=255)
cTTACGCATCGGGTATCTCAATCAACAAAAAGAGTTTTTATTTTCTGCTAtt < 1:228189/52‑1 (MQ=255)
cTTACGCATCGGGTATCTCAATCAACAAAAAGAGTTTTTATTTTCTGCTAtt < 1:2303015/52‑1 (MQ=255)
cTTACGCATCGGGTATCTCAATCAACAAAAAGAGTTTTTATTTTCTGCTAtt < 1:2627336/52‑1 (MQ=255)
cTTACGCATCGGGTATCTCAATCAACAAAAAGAGTTTTTATTTTCTGCTAtt < 1:2710698/52‑1 (MQ=255)
cTTACGCATCGGGTATCTCAATCAACAAAAAGAGTTTTTATTTTCTGCTAtt < 1:2859030/52‑1 (MQ=255)
cATCGGGTGTCTCAATCAACAAAAAGAGTTTTTAGTTTCTGCTATTTCTTCTCTGTAATTTTTACACTg < 1:1799502/69‑1 (MQ=255)
cATCGGGTGTCTCAATCAACAAAAAGAGTTTTTAGTTTCTGCTATTTCTTCTCTGTAATTTTTACACTg < 1:828228/69‑1 (MQ=255)
cATCGGGTGTCTCAATCAACAAAAAGAGTTTTTAGTTTCTGCTATTTCTTCTCTGTAATTTTTACACTg < 1:678664/69‑1 (MQ=255)
cATCGGGTGTCTCAATCAACAAAAAGAGTTTTTAGTTTCTGCTATTTCTTCTCTGTAATTTTTACACTg < 1:1912044/69‑1 (MQ=255)
cATCGGGTGTCTCAATCAACAAAAAGAGTTTTTAGTTTCTGCTATTTCTTCTCTGTAATTTTTACACTg < 1:2388761/69‑1 (MQ=255)
cATCGGGTGTCTCAATCAACAAAAAGAGTTTTTAGTTTCTGCTATTTCTTCTCTGTAATTTTTACACTg < 1:2393439/69‑1 (MQ=255)
gggTGTCTCAATCAACAAAAAGAGTTTTTAGTTTCTGCTATTTCTTCTCTGTTATTTTTACACTg < 1:1903425/65‑1 (MQ=255)
gggTGTCTCAATCAACAAAAAGAGTTTTTAGTTTCTGCTATTTCTTCTCTGTAATTTTTACACTg < 1:1317888/65‑1 (MQ=255)
gggTGTCTCAATCAACAAAAAGAGTTTTTAGTTTCTGCTATTTCTTCTCTGTAATTTTTACACTg < 1:73684/65‑1 (MQ=255)
gggTGTCTCAATCAACAAAAAGAGTTTTTAGTTTCTGCTATTTCTTCTCTGTAATTTTTACACTg < 1:3054090/65‑1 (MQ=255)
|
GAAAAGAAAGGTGCAATATTTAGCCATTGTGTTCACTGCACCTGGACCTTGGCTTACGCATCGGGTGTCTCAATCAACAAAAAGAGTTTTTAGTTTCTGCTATTTCTTCTCTGTAATTTTTACACTG > minE/2522791‑2522917
|
| 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
