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 |
|
A1 F8 I0 R1
|
311 |
50.1 |
4085234 |
95.9% |
3917739 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
4,085,470 |
G→A |
20.0% |
R622C (CGT→TGT) |
malT ← |
DNA‑binding transcriptional activator, maltotriose‑ATP‑binding |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,085,470 | 0 | G | A | 20.0%
| 119.8
/ 24.3
| 55 | R622C (CGT→TGT) | malT | DNA‑binding transcriptional activator, maltotriose‑ATP‑binding |
| Reads supporting (aligned to +/- strand): ref base G (25/19); new base A (2/9); total (27/28) |
| Fisher's exact test for biased strand distribution p-value = 4.03e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.21e-01 |
TATTTGCCATTCCCCAGCAGGTTTTCCAGACGGTTCAGCTGGCTACGGGCGTTATCTAAATCACCACGGGCCAGCGAGCATTGAATCAACATTGCCAGGCACTGAAGCTGTTGCTGTGGCTGATAAGACGACAA > W3110S.gb/4085403‑4085536
|
tatTTGCCATTCCCCAGCAGGTTTTCCAGACGGTTCAGCTGGCTACGGGCGTTATCTAAATCACCACAGGc > 1:2367046/1‑71 (MQ=255)
tttGCCATTCCCCAGCAGGTTTTCCAGACGGTTCAGCTGGCTACGGGCGTTATCTAAATCACCACGGGc > 1:1955306/1‑69 (MQ=255)
ccATTCCCCAGCAGGTTTTCCAGACGGTTCAGCTGGCTACGGGCGTTATCTAAATCACCACGGGCCAGCg < 1:902480/70‑1 (MQ=255)
ccATTCCCCAGCAGGTTTTCCAGACGGTTCAGCTGGCTACGGGCGTTATCTAAATCACCACGGGCCAGCg < 1:2722377/70‑1 (MQ=255)
ccATTCCCCAGCAGGTTTTCCAGACGGTTCAGCTGGCTACGGGCGTTATCTAAATCACCACGGGCCAGCg < 1:2048608/70‑1 (MQ=255)
ccATTCCCCAGCAGGTTTTCCAGACGGTTCAGCTGGCTACGGGCGTTATCTAAATCACCACGGGCCAGCg < 1:2043592/70‑1 (MQ=255)
ccccAGCAGGTTTTCCAGACGGTTCAGCTGGCTACGGGCGTTATCTAAATCACCACAGGCCAGCGAGCAtt > 1:1921744/1‑71 (MQ=255)
cccAGCAGGTTTTCCAGACGGTTCAGCTGGCTACGGGCGTTATCTAAATCACCACAGGCCAGCGAGCATTg < 1:2362915/71‑1 (MQ=255)
agGTTTTCCAGACGGTTCAGCTGGCTACGGGCGTTATCTAAATCACCACGGGCCAGCGAGCATTGAATCaa < 1:728733/71‑1 (MQ=255)
agGTTTTCCAGACGGTTCAGCTGGCTACGGGCGTTATCTAAATCACCACAGGCCAGCGAGCATTGAATCaa < 1:951396/71‑1 (MQ=255)
agGTTTTCCAGACGGTTCAGCTGGCTACGGGCGTTATCTAAATCACCACAGGCCAGCGAGCATTGAATCaa < 1:3819678/71‑1 (MQ=255)
ggTTTTCCAGACGGTTCAGCTGGCTACGGGCGTTATCTAAATCACCACGGGCCAGCGAGCATTGa > 1:1625026/1‑65 (MQ=255)
gTTTTCCAGACGGTTCAGCTGGCTACGGGCGTTATCTAAATCACCACAGGCCAGCGAGCATTGAATCAACa < 1:1062427/71‑1 (MQ=255)
ttttCCAGACGGTTCAGCTGGCTACGGGCGTTATCTAAATCACCACGGGCCAGCGAGCAt > 1:773578/1‑60 (MQ=255)
ttttCCAGACGGTTCAGCTGGCTACGGGCGTTATCTAAATCACCACGGGCCAGCGAGCAt > 1:3575908/1‑60 (MQ=255)
ttttCCAGACGGTTCAGCTGGCTACGGGCGTTATCTAAATCACCACGGGCCAGCGAGCAt > 1:325911/1‑60 (MQ=255)
ttCCAGACGGTTCAGCTGGCTACGGGCGTTATATAAATCACCACGGGCCAGCGAGCATTGAATCAACATTg > 1:850526/1‑71 (MQ=255)
tCCAGACGGTTCAGCTGGCTACGGGCGTTATCTAAATCACCACGGGCCAGCGAGCATTg < 1:2138892/59‑1 (MQ=255)
gACGGTTCAGCTGGCTACGGGCGTTATCTAAATCACCACGGGCCAGCGAGCATTGAATCAACATTGCCAgg > 1:3736619/1‑71 (MQ=255)
gACGGTTCAGCTGGCTACGGGCGTTATCTAAATCACCACAGGCCAGCGAGCATTGAATCAACATTGCCAgg < 1:2644434/71‑1 (MQ=255)
tGGCTACGGGCGTTATCTAAATCACCACGGGCCAGCGAGCATTg < 1:3589773/44‑1 (MQ=255)
ggCTACGGGCGTTATCTAAATCACCACGGGCCAGCGAGCATTGAATCAACATTGCCAGGCACTGAAGCTGt > 1:134234/1‑71 (MQ=255)
ggCTACGGGCGTTATCTAAATCACCACGGGCCAGCGAGCATTGAATCAACATTGCCAGGCACTGAAGCTGt > 1:722517/1‑71 (MQ=255)
gCTACGGGCGTTATCTAAATCACCACGGGCCAGCGAGCATTGaa > 1:1668959/1‑44 (MQ=255)
gCTACGGGCGTTATCTAAATCACCACGGGCCAGCGAGCATTGaa > 1:3876553/1‑44 (MQ=255)
gCTACGGGCGTTATCTAAATCACCACGGGCCAGCGAGCATTGaa > 1:313569/1‑44 (MQ=255)
cTACGGGCGTTATCTAAATCACCACGGGCCAGCGAGCATTGAATCAACATTGCCAGGCACTGAAGCTGtt > 1:598922/1‑70 (MQ=255)
cTACGGGCGTTATCTAAATCACCACGGGCCAGCGAGCATTGAATCAACATTGCCAGGCACTGAAGCTGTTg > 1:144829/1‑71 (MQ=255)
cTACGGGCGTTATCTAAATCACCACGGGCCAGCGAGCATTGAATCAACATTGCCAGGCACTGAAGCTGTTg > 1:3796183/1‑71 (MQ=255)
tACGGGCGTTATCTAAATCACCACGGGCCAGCGAGCATTGAATCAACAt > 1:2528024/1‑49 (MQ=255)
aCGGGCGTTATCTAAATCACCACAGGCCAGCTAGCATTGAATCaa < 1:279363/45‑1 (MQ=255)
cGGGCGTTATCTAAATCACCACGGGCCAGCGAGCATTGAATCAACATTGCCAGGCACTGAAGCTGTTGc < 1:1504747/69‑1 (MQ=255)
gggCGTTATCTAAATCACCACGGGCCAGCGAGCATTGAATCAACATTGCCAGGCACTGAAGCTGTTGCtgt < 1:2587156/71‑1 (MQ=255)
gggCGTTATCTAAATCACCACGGGCCAGCGAGCATTGAATCAACATTGCCAGGCACTGAAGCTGTTGCtgt < 1:4033719/71‑1 (MQ=255)
ggCGTTATCTAAATCACCACGGGCCAGCGAGCATTGAATCAACATTGCCAGGCACTGAAGCTGTTGCtgtg > 1:1315597/1‑71 (MQ=255)
ttATCTAAATCACCACGGGCCAGCGAGCATTGAATCaa < 1:3125871/38‑1 (MQ=255)
ttATCTAAATCACCACAGGCCAGCGAGCATTGAATCAACATTGCCAGGCACTGAAGc < 1:724156/57‑1 (MQ=255)
ttATCTAAATCACCACAGGCCAGCGAGCATTGAATCAACATTGCCAGGCACTGAAGc < 1:80469/57‑1 (MQ=255)
aTCTAAATCACCACGGGCCAGCGAGCATTGAATCAACa > 1:1352948/1‑38 (MQ=255)
aTCTAAATCACCACGGGCCAGCGAGCATTGAATCAACATTGCCAGGCACTGAAGc > 1:2041532/1‑55 (MQ=255)
aTCTAAATCACCACGGGCCAGCGAGCATTGAATCAACATTGCCAGGCACTGAAGCTGTTGCTGTGGCTGa > 1:3432512/1‑70 (MQ=255)
tCTAAATCACCACGGGCCAGCGAGCATTGAATCaa < 1:1563010/35‑1 (MQ=255)
tCTAAATCACCACGGGCCAGCGAGCATTGAATCAACATTGCCAGGCACTGAAGCTGtt < 1:3865369/58‑1 (MQ=255)
tCTAAATCACCACGGGCCAGCGAGCATTGAATCAACATTGCCAGGCACTGAAGCTGtt < 1:3915915/58‑1 (MQ=255)
aaTCACCACGGGCCAGCGAGCATTGAATCAACATTGc > 1:1414302/1‑37 (MQ=255)
aaTCACCACGGGCCAGCGAGCATTGAATCAACATTGc > 1:1562774/1‑37 (MQ=255)
aaTCACCACGGGCCAGCGAGCATTGAATCAACATTGCCAGGCACTGAAGCTGTTGCTGTGGCTGATaa < 1:3729832/68‑1 (MQ=255)
aTCACCACGGGCCAGCGAGCATTGAATCAACATTGc < 1:3822498/36‑1 (MQ=255)
aTCACCACGGGCCAGCGAGCATTGAATCAACATTGc < 1:1374631/36‑1 (MQ=255)
tCACCACGGGCCAGCGAGCATTGAATCAACATTGCCAGGCACTGAAGCTGTTGCTGTGGCTGATAAgacga > 1:2548997/1‑71 (MQ=255)
accacGGGCCAGCGAGCATTGAATCAACATTGCCAGGCACTGAAGCTGTTGCTGTGGCTGATAAgacgac > 1:3642147/1‑70 (MQ=255)
accacGGGCCAGCGAGCATTGAATCAACATTGCCAGGCACTGAAGCTGTTGCTGTGGCTGATAAgacgac < 1:1460742/70‑1 (MQ=255)
accacGGGCCAGCGAGCATTGAATCAACATTGCCAGGCACTGAAGCTGTTGCTGTGGCTGATAAgacga > 1:464454/1‑69 (MQ=255)
accacAGGCCAGCGAGCATTGAATCAACATTGCCAGGCACTGAAGCTGTTGCTGTGGCTGATAAgacgac < 1:1899580/70‑1 (MQ=255)
ccacGGGCCAGCGAGCATTGAATCAACATTGCCAGGCACTGAAGCTGTTGCTGTGGCTGATAAGACGACaa < 1:1108620/71‑1 (MQ=255)
|
TATTTGCCATTCCCCAGCAGGTTTTCCAGACGGTTCAGCTGGCTACGGGCGTTATCTAAATCACCACGGGCCAGCGAGCATTGAATCAACATTGCCAGGCACTGAAGCTGTTGCTGTGGCTGATAAGACGACAA > W3110S.gb/4085403‑4085536
|
| 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
