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 |
501,987 |
C→T |
43.3% |
P148P (CCC→CCT) |
modA → |
molybdate transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 501,987 | 0 | C | T | 43.3%
| 14.6
/ 37.8
| 53 | P148P (CCC→CCT) | modA | molybdate transporter subunit |
| Reads supporting (aligned to +/- strand): ref base C (15/15); new base T (13/10); total (28/25) |
| Fisher's exact test for biased strand distribution p-value = 7.82e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.17e-01 |
CACTGCTGAATGGCGGTCGCCTGGCGGTTGGCGATCCGGAACATGTTCCCGCTGGCATTTATGCAAAAGAAGCACTGCAAAAACTGGGCGCATGGGATACGCTCTCTCCGAAAC > minE/501938‑502051
|
cgctgctgAATGGCGGTCGCCTCGCGGTTGGTGATCCGGAACATGTCCCTGCTGGCATTTATGCgaa > 1:1730154/3‑67 (MQ=255)
cgctgctgAATGGCGGTCGCCTCGCGGTTGGTGATCCGGAACATGTCCCTGCTGGCATTTATGCgaa > 1:2715456/3‑67 (MQ=255)
cgctgctgAATGGCGGTCGCCTCGCGGTTGGTGATCCGGAACATGTCCCTGCTGGCATTTATGCgaa > 1:2758511/3‑67 (MQ=255)
cgctgctgAATGGCGGTCGCCTCGCGGTTGGTGATCCGGAACATGTCCCTGCTGGCATTTATGCgaa > 1:3119218/3‑67 (MQ=255)
cgctgctgAATGGCGGTCGCCTCGCGGTTGGTGATCCGGAACATGTCCCTGCTGGCATTTATGCgaa > 1:215007/3‑67 (MQ=255)
cgctgctgAATGGCGGTCGCCTCGCGGTTGGTGATCCGGAACATGTCCCTGCTGGCATTTATGCgaa > 1:1762549/3‑67 (MQ=255)
cgctgctgAATGGCGGTCGCCTCGCGGTTGGTGATCCGGAACATGTCCCTGCTGGCATTTATGCgaa > 1:1721745/3‑67 (MQ=255)
cgctgctgAATGGCGGTCGCCTCGCGGTTGGTGATCCGGAACATGTCCCTGCTGGCATTTATGCgaa > 1:1681129/3‑67 (MQ=255)
cgctgctgAATGGCGGTCGCCTCGCGGTTGGTGATCCGGAACATGTCCCTGCTGGCATTTATGCgaa > 1:445187/3‑67 (MQ=255)
cgctgctgAATGGCGGTCGCCTCGCGGTTGGTGATCCGGAACATGTCCCTGCTGGCATTTATGCgaa > 1:485498/3‑67 (MQ=255)
cgctgctgAATGGCGGTCGCCTCGCGGTTGGTGATCCGGAACATGTCCCTGCTGGCATTTATGCgaa > 1:1109510/3‑67 (MQ=255)
cgctgctgAATGGCGGTCGCCTCGCGGTTGGTGATCCGGAACATGTCCCTGCTGGCATTTATGCgaa > 1:1186386/3‑67 (MQ=255)
cgctgctgAAAGGCGGTCGCCTCGCGGTTGGTGATCCGGAACATGTCCCTGCTGGCATTTATGCgaa > 1:1395921/3‑67 (MQ=255)
cACTGCTGAATGGCGGTCGCCTGGCGGTTGGCGATCCGGAACATGTTCCCGCTGGCATTTATGCaaa > 1:1595590/1‑67 (MQ=255)
cACTGCTGAATGGCGGTCGCCTGGCGGTTGGCGATCCGGAACATGTTCCCGCTGGCATTTATGCaaa > 1:1101447/1‑67 (MQ=255)
cACTGCTGAATGGCGGTCGCCTGGCGGTTGGCGATCCGGAACATGTTCCCGCTGGCATTTATGCaaa > 1:1699066/1‑67 (MQ=255)
cACTGCTGAATGGCGGTCGCCTGGCGGTTGGCGATCCGGAACATGTTCCCGCTGGCATTTATGCaaa > 1:2756262/1‑67 (MQ=255)
cACTGCTGAATGGCGGTCGCCTGGCGGTTGGCGATCCGGAACATGTTCCCGCTGGCATTTATGCaaa > 1:604149/1‑67 (MQ=255)
cACTGCTGAATGGCGGTCGCCTGGCGGTTGGCGATCCGGAACATGTTCCCGCTGGCATTTATGCaaa > 1:1778036/1‑67 (MQ=255)
cACTGCTGAATGGCGGTCGCCTGGCGGTTGGCGATCCGGAACATGTTCCCGCTGGCATTTATGCaaa > 1:761543/1‑67 (MQ=255)
cACTGCTGAATGGCGGTCGCCTGGCGGTTGGCGATCCGGAACATGTTCCCGCTGGCATTTATGCaaa > 1:3196363/1‑67 (MQ=255)
aCTGCTGAATGGCGGTCGCCTGGCGGTTGGCGATCCGGAACATGTTCCCGCTGGCATTTATGCAAaaga > 1:150431/1‑69 (MQ=255)
aCTGCTGAATGGCGGTCGCCTGGCGGTTGGCGATCCGGAACATGTTCCCGCTGGCATTTATGCAAaaga > 1:2077611/1‑69 (MQ=255)
aCTGCTGAATGGCGGTCGCCTGGCGGTTGGCGATCCGGAACATGTTCCCGCTGGCATTTATGCAAaaga > 1:1885744/1‑69 (MQ=255)
aCTGCTGAATGGCGGTCGCCTGGCGGTTGGCGATCCGGAACATGTTCCCGCTGGCATTTATGCAAaaga > 1:1622763/1‑69 (MQ=255)
tgctgAATGGCGGTCGCCTGGCGGTTGGCGATCCGGAACATGTTCCCGCTGGCATTTATGCAAaagaag < 1:281908/69‑1 (MQ=255)
tgctgAATGGCGGTCGCCTGGCGGTTGGCGATCCGGAACATGTTCCCGCTGGCATTTATGCAAaagaag < 1:2418655/69‑1 (MQ=255)
tgctgAATGGCGGTCGCCTGGCGGTTGGCGATCCGGAACATGTTCCCGCTGGCATTTATGCAAaagaac < 1:379301/69‑2 (MQ=255)
tgctgAATGGCGGTCGCCTCGCGGTTGGTGATCCGGAACATGTCCCTTCTGGCATTTATGCGAaagaag < 1:2386204/69‑1 (MQ=255)
tgctgAATGGCGGTCGCCTCGCGGTTGGTGATCCGGAACATGTCCCTGCTGGCATTTATGCGAaagaag < 1:1105023/69‑1 (MQ=255)
tgctgAATGGCGGTCGCCTCGCGGTTGGTGATCCGGAACATGTCCCTGCTGGCATTTATGCGAaagaag < 1:2568018/69‑1 (MQ=255)
tgctgAATGGCGGTCGCCTCGCGGTTGGTGATCCGGAACATGTCCCTGCTGGCATTTATGCGAaagaag < 1:2532615/69‑1 (MQ=255)
tgctgAATGGCGGTCGCCTCGCGGTTGGTGATCCGGAACATGTCCCTGCTGGCATTTATGCGAaagaag < 1:2451247/69‑1 (MQ=255)
tgctgAATGGCGGTCGCCTCGCGGTTGGTGATCCGGAACATGTCCCTGCTGGCATTTATGCGAaagaag < 1:1205917/69‑1 (MQ=255)
tgctgAATGGCGGTCGCCTCGCGGTTGGTGATCCGGAACATGTCCCTGCTGGCATTTATGCGAaagaag < 1:1232763/69‑1 (MQ=255)
tgctgAATGGCGGTCGCCTCGCGGTTGGTGATCCGGAACATGTCCCTGCTGGCATTTATGCGAaagaag < 1:2347321/69‑1 (MQ=255)
tgctgAATGGCGGTCGCCTCGCGGTTGGTGATCCGGAACATGTCCCTGCTGGCATTTATGCGAaagaag < 1:1976817/69‑1 (MQ=255)
tgcagAATGGCGGTCGCCTCGCGGTTGGTGATCCGGAACATGTCCCTGCTGGCATTTATGCGAaagaag < 1:261820/69‑1 (MQ=255)
gctgTCGCCTGGCGGTTGGCGATCCGGAACATGTTCCCGCTGGCATTTATGCAAAAGAAGCACTGCaaa < 1:3384187/66‑1 (MQ=255)
gCGGTCGCCTGGCGGTTGGCGATCCGGAACATGTTCCCGCTGGCATTTATGCAAAAGAAGCACTGCaaa < 1:915316/69‑1 (MQ=255)
gCGGTCGCCTGGCGGTTGGCGATCCGGAACATGTTCCCGCTGGCATTTATGCAAAAGAAGCACTGCaaa < 1:1167438/69‑1 (MQ=255)
gCGGTCGCCTGGCGGTTGGCGATCCGGAACATGTTCCCGCTGGCATTTATGCAAAAGAAGCACTGCaaa < 1:2247919/69‑1 (MQ=255)
tGGCGATCCGGAACATGTTCCCGCTGGCATTTATGCAAAAGAAGCACTGCAAAAACTGGGCGCATGGGa < 1:3024011/69‑1 (MQ=255)
tCCGGAACATGTTCCCGCTGGCATTTATGCAAAATAAGCACTGCAAAAACTGGGCGCATGGGATACGct < 1:1479826/69‑1 (MQ=255)
tCCGGAACATGTTCCCGCTGGCATTTATGCAAAAGAAGCACTGCAAAAACTGGGCGCATGGGATACGct < 1:3119461/69‑1 (MQ=255)
tCCGGAACATGTTCCCGCTGGCATTTATGCAAAAGAAGCACTGCAAAAACTGGGCGCATGGGATACGct < 1:3199469/69‑1 (MQ=255)
tCCGGAACATGTTCCCGCTGGCATTTATGCAAAAGAAGCACTGCAAAAACTGGGCGCATGGGATACGct < 1:2361496/69‑1 (MQ=255)
tCCGGAACATGTTCCCGCTGGCATTTATGCAAAAGAAGCACTGCAAAAACTGGGCGCATGGGATACGct < 1:2744315/69‑1 (MQ=255)
tCCGGAACATGTTCCCGCTGGCATTTATGCAAAAGAAGCACTGCAAAAACTGGGCGCATGGGATACGct < 1:911842/69‑1 (MQ=255)
ccGGAACATGTTCCCGCTGGCATTTATGCAAAAGAAGCACTGCAAAAACTGGGCGCATGGGATACGct < 1:3373481/68‑1 (MQ=255)
ttCCCGCTGGCATTTATGCAAATGAAGCACTGCAAAAACTGGGCGCATGGGATACGCTCTCTCCGAAAc > 1:2774709/1‑69 (MQ=255)
ttCCCGCTGGCATTTATGCAAAAGAAGCACTGCAAAAACTGGGCGCATGGGATACGCTCTCTCCGAAAc > 1:2117815/1‑69 (MQ=255)
ttCCCGCTGGCATTTATACAAAAGAAGCACTGCAAAAACTGGGCGCATGGGATACGCTCTCTCCGAAAc > 1:2630307/1‑69 (MQ=255)
|
CACTGCTGAATGGCGGTCGCCTGGCGGTTGGCGATCCGGAACATGTTCCCGCTGGCATTTATGCAAAAGAAGCACTGCAAAAACTGGGCGCATGGGATACGCTCTCTCCGAAAC > minE/501938‑502051
|
| 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
