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 |
|
A6 F21 I0 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,572,941 |
G→A |
49.0% |
intergenic (+1709/‑70) |
yibH → / → ysaB |
hypothetical protein/hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,572,941 | 0 | G | A | 49.0%
| ‑0.4
/ 69.0
| 51 | intergenic (+1709/‑70) | yibH/ysaB | hypothetical protein/hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base G (10/16); new base A (8/17); total (18/33) |
| Fisher's exact test for biased strand distribution p-value = 7.71e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ATAAATCATTTGGTTGGCGCACTGGAATAATCTGAGTTTTATCACTACAGCTTATAGAGGCTTAAGGAGATTCGTAAGATATCAGCCACTATACCGATATAAATAATAAGACTCACTTGCAAACCAGACGGTAATTTAA > minE/2572873‑2573011
|
aTAAATCATTTGGTTGGCGCACTGGAATAATCTGAGTTTTATCACTACAGCTTATAGAGGCTTAAGGAGAt < 1:3295118/71‑1 (MQ=255)
aTAAATCATTTGGTTGGCGCACTGGAATAATCTGAGTTTTATCACTACAGCTTATAGAGGCTTAAGGAGAt < 1:3188118/71‑1 (MQ=255)
aTAAATCATTTGGTTGGCGCACTGGAATAATCTGAGTTTTATCACTACAGCTTATAGAGGCTTAAGGAGAt > 1:187977/1‑71 (MQ=255)
aTAAATCATTTGGTTGGCGCACTGGAATAATCTGAGTTTTATCACTACAGCTTATAGAGGCTTAAGGAAAt < 1:619320/71‑1 (MQ=255)
aTAAATCATTTGGTTGGCGCACTGGAATAATCTGAGTTTTATCACTACAGCTTATAGAGGCTTAAGGAAAt > 1:844976/1‑71 (MQ=255)
aTCATTTGGTTGGCGCACTGGAATAATCTGAGTTTTATCACTACAGCTTATAGAGGCTTAAGGAGATTCGt < 1:1356765/71‑1 (MQ=255)
tCATTTGGTTGGCGCACTGGAATAATCTGAGTTTTATCACTACAGCTTATAGAGGCTTAAGGAGATTCGt > 1:1835705/1‑70 (MQ=255)
tCATTTGGTTGGCGCACTGGAATAATCTGAGTTTTATCACTACAGCTTATAGAGGCTTAAGGAGATTCGTa < 1:3258565/71‑1 (MQ=255)
aTTTGGTTGGCGCACTGGAATAATCTGAGTTTTATCACTACAGCTTATAGAGGCTTAAGGAGATTCGTAAg < 1:3378349/71‑1 (MQ=255)
ggttggCGCACTGGAATAATCTGAGTTTTATCACTACAGCTTATAGAGGCTTAAGGAGATTCGTAAGat < 1:2177753/69‑1 (MQ=255)
ggttggCGCACTGGAATAATCTGAGTTTTATCACTACAGCTTATAGAGGCTTAAGGAGATTCGTAAGat < 1:1533305/69‑1 (MQ=255)
ggttggCGCACTGGAATAATCTGAGTTTTATCACTACAGCTTATAGAGGCTTAAGGAGATTAGTAAGata < 1:3149796/70‑1 (MQ=255)
gttggCGCACTGGAATAATCTGAGTTTTATCACTACAGCTTATAGAGGCTTAAGGAAATTCATAAGATATc < 1:2446983/71‑1 (MQ=255)
ttggCGCACTGGAATAATCTGAGTTTTATCACTACAGCTTATAGAGGCTTAAGGAAATTc > 1:259625/1‑60 (MQ=255)
tggCGCACTGGAATAATCTGAGTTTTATCACTACAGCTTATAGAGGCTTAAGGAGATTCGTAAGATATCAg > 1:967142/1‑71 (MQ=255)
gcgcACTGGAATAATCTGAGTTTTATCACTACAGCTTATAGAGGCTTAAGGAAATTCGTAAg > 1:3002976/1‑62 (MQ=255)
tGGAATAATCTGAGTTTTATCACTACAGCTTATAGAGGCTTAAGGAAATTCGTAAGATATCAGCCACtat > 1:1929913/1‑70 (MQ=255)
gAATAATCTGAGTTTTATCACTACAGCTTATAGAGGCTTAAGGAGATTCGTAAGATATCAGCCACTATAcc > 1:1452939/1‑71 (MQ=255)
gAATAATCTGAGTTTTATCACTACAGCTTATAGAGGCTTAAGGAAATTCGTAAGatat < 1:1585914/58‑1 (MQ=255)
gAATAATCTGAGTTTTATCACTACAGCTTATAGAGGCTTAAGGAAATTCGTAAGatat < 1:1979414/58‑1 (MQ=255)
taatCTGAGTTTTATCACTACAGCTTATAGAGGCTTAAGgaga < 1:1288950/43‑1 (MQ=255)
taatCTGAGTTTTATCACTACAGCTTATAGAGGCTTAAGGAGATTCGTaa > 1:77168/1‑50 (MQ=255)
taatCTGAGTTTTATCACTACAGCTTATAGAGGCTTAAGGAGATTCGTAAGATATCAGCCACTATACCGa > 1:1230610/1‑70 (MQ=255)
taatCTGAGTTTTATCACTACAGCTTATAGAGGCTTAAGGAAATTCGt < 1:703616/48‑1 (MQ=255)
aatCTGAGTTTTATCACTACAGCTTATAGAGGCTTAAGGAGATTCGTAAGATATCAGCCACta > 1:1390285/1‑63 (MQ=255)
atCTGAGTTTTATCACTACAGCTTATAGAGGCTTAAGGAGATTCGTAAGATATCAGCCACTATACCGatat < 1:977178/71‑1 (MQ=255)
aGTTTTATCACTACAGCTTATAGAGGCTTAAGGAAATTCGTAAGATATCAGCCACTATACCGAtata < 1:1743912/67‑1 (MQ=255)
ttttATCACTACAGCTTATAGAGGCTTAAGGAGATTCGTAAGATATCAGCCACTATACCGATATAaataat < 1:357918/71‑1 (MQ=255)
ttATCACTACAGCTTATAGAGGCTTAAGGAGATTCGTAAGATATCAGCCACTATACCGATATAaataat > 1:2394901/1‑69 (MQ=255)
ttATCACTACAGCTTATAGAGGCTTAAGGAAATTCGTAAGATATCAGCCACta > 1:3761166/1‑53 (MQ=255)
ttATCACTACAGCTTATAGAGGCTTAAGGAAATTCGTAAGATATCAGCCACTATACCGATATAAataata < 1:3121627/70‑1 (MQ=255)
tATCACTACAGCTTATAGAGGCTTAAGGAAATTCGTAAGATATCAGCCACTATACCGATATAAAtaataa < 1:1447203/70‑1 (MQ=255)
aTCACTACAGCTTATAGAGGCTTAAGGAAATTCGTAAGat < 1:3673999/40‑1 (MQ=255)
aTCACTACAGCTTATAGAGGCTTAAGGAAATTCGTAAGat < 1:2996673/40‑1 (MQ=255)
aTCACTACAGCTTATAGAGGCTTAAGGAAATTCGTAAGat < 1:1323217/40‑1 (MQ=255)
cACTACAGCTTATAGAGGCTTAAGGAGATTCGTAAGATATCAGCCACTATACCGATATAAATAATAAGACt > 1:1377222/1‑71 (MQ=255)
cACTACAGCTTATAGAGGCTTAAGGAAATTCGTAAGatat > 1:1882068/1‑40 (MQ=255)
aCTACAGCTTATAGAGGCTTAAGGAAATTCGTAAGATATCAGCCACTATACCGATATAAATAATAAGACTc < 1:491364/71‑1 (MQ=255)
aCTACAGCTTATAGAGGCTTAAGGAAATTCGTAAGATATCAGCCACTATACCGATATAAATAATAAGACTc < 1:2833291/71‑1 (MQ=255)
tACAGCTTATAGAGGCTTAAGGAAATTCGTAAGATATCAGCCACTATACCGATATAAATAATAAGACTCAc > 1:3801722/1‑71 (MQ=255)
cAGCTTATAGAGGCTTAAGGAGATTCGTAAGATATCAGCCACTATACCGATATAAATAATAAGACTCACt < 1:3208275/70‑1 (MQ=255)
gCTTATAGAGGCTTAAGGAGATTCGTAAGATATCAGCCACTATACCGATATAAATAATAAGACTCACt < 1:2518800/68‑1 (MQ=255)
ataGGGGCTTAAGGAGATTCGTAAGATATCAGCCACTATACCGATATAAATAATAAGACTCACTTGCAAAc > 1:2736402/1‑71 (MQ=255)
taGAGGCTTAAGGAAATTCGTAAGATATCAGCCACTATACCGATATAAATAATAAGACTCACCTGCAAAcc < 1:925975/71‑1 (MQ=255)
gagGCTTAAGGAGATTCGTAAGATATCAGCCACTATACCGATataaataa < 1:3305894/50‑1 (MQ=255)
gagGCTTAAGGAGATTCGTAAGATATCAGCCACTATACCGATataaataa < 1:1871633/50‑1 (MQ=255)
gagGCTTAAGGAGATTCGTAAGATATCAGCCACTATACCGATataaataa < 1:1579516/50‑1 (MQ=255)
gagGCTTAAGGAAATTCGTAAGATATCAGCCACTATACCGATATAAATAATAAGACTCACCTGCAAACCAg < 1:2379440/71‑1 (MQ=255)
ggCTTAAGGAAATTCGTAAGATATCAGCCACTATACCGat < 1:599604/40‑1 (MQ=255)
cTTAAGGAGATTCGTAAGATATCAGCCACTATACCGATATAAATAATAAGACTCACTTGCAAACCAGACgg < 1:1317361/71‑1 (MQ=255)
ttAAGGAAATTCGTAAGATATCAGCCACTATAGCGATATAAATATTAAGACt < 1:599544/52‑1 (MQ=255)
ggAAATTCGTAAGATATCAGCCACTATACCGATATAAATAATAAGACTCACCTGCAAACCAGACGGTAAtt > 1:1195105/1‑71 (MQ=255)
agaTTCGTAAGATATCAGCCACTATACCGATATAAATAATAAGACTCACTTGCAAACCAGACGGTAATTTa < 1:1640416/71‑1 (MQ=255)
gaTTCGTAAGATATCAGCCACTATACCGATATAAATAATAAGACTCACTTGCAAACCAGACGGTAATTTaa < 1:985088/71‑1 (MQ=255)
|
ATAAATCATTTGGTTGGCGCACTGGAATAATCTGAGTTTTATCACTACAGCTTATAGAGGCTTAAGGAGATTCGTAAGATATCAGCCACTATACCGATATAAATAATAAGACTCACTTGCAAACCAGACGGTAATTTAA > minE/2572873‑2573011
|
| 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
