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 R2
|
422 |
46.8 |
3726540 |
94.7% |
3529033 |
61.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,381,341 |
T→C |
9.3% |
S248S (AGT→AGC) |
degQ → |
serine endoprotease, periplasmic |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,381,341 | 0 | T | C | 9.3%
| 115.7
/ 4.4
| 43 | S248S (AGT→AGC) | degQ | serine endoprotease, periplasmic |
| Reads supporting (aligned to +/- strand): ref base T (18/21); new base C (2/2); total (20/23) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.21e-01 |
AACACTGCAATCCTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGCCATCCCCAGTAATATGGCGCGAACACTGGCGCAGCAGCTTATCGACTTTGGTGAAATCAAACGCGGTTTGTTAGGCATCA > W3110S.gb/3381282‑3381411
|
aaCACTGCAATCCTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGCCATCCCCAGTAATATGgcgc > 1:3122528/1‑70 (MQ=255)
aaCACTGCAATCCTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGCCATCCCCAGTAATATGgcgc > 1:464645/1‑70 (MQ=255)
aaCACTGCAATCCTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGCCATCCCCAGTAATATGgcgc > 1:2418505/1‑70 (MQ=255)
aaCACTGCAATCCTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGCCATCCCCAGTAATATGgcgc > 1:3646384/1‑70 (MQ=255)
aaCACTGCAATCCTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGCCATCCCCAGTAATATGGcgcg < 1:3422909/71‑1 (MQ=255)
cacTGCAATCCTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGCCATCCCCAGTAATATGGCGCGaa < 1:1675760/71‑1 (MQ=255)
acTGCAATCCTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGACATCCCCAGTAATATGGCGCGAac < 1:2264188/71‑1 (MQ=255)
cTGCAATCCTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGCCATCCCCAGTaa < 1:1441645/58‑1 (MQ=255)
cTGCAATCCTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGCCATCCCCAGTaa < 1:1561023/58‑1 (MQ=255)
cTGCAATCCTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGCCATCCCCAGTaa < 1:3440094/58‑1 (MQ=255)
cTGCAATCCTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGCCATCCCCAGTaa < 1:3466969/58‑1 (MQ=255)
gCAATCCTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGCCATCCCCAGCAata > 1:517748/1‑58 (MQ=255)
gCAATCCTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGCCATCCCCAGCAata > 1:418151/1‑58 (MQ=255)
aaTCCTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGCCATCCCCAGTaa < 1:153497/54‑1 (MQ=255)
aaTCCTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGCCATCCCCAGTaa < 1:1725132/54‑1 (MQ=255)
aaTCATTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGCCATCCCCAGTaa < 1:1415377/54‑1 (MQ=255)
tCCTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGCCATCCCCAGTaa < 1:2544808/52‑1 (MQ=255)
cTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGCCATCCCCAGTAata > 1:3634196/1‑52 (MQ=255)
gggATTGGATTTGCCATCCCCAGTAATATGGCGCGAACACTGGCGCAGCAGCTTATCGACTTTGGTGAAAt > 1:2347191/1‑71 (MQ=255)
attTGCCATCCCCAGTAATATGGCGCGAACACTGGCGCAGCAGCTTATCGACTTTGGTGAAATCAAAcgcg < 1:3518317/71‑1 (MQ=255)
tttGCCATCCCCAGTAATATGGCGGGAACACTGGCgca < 1:3641210/38‑1 (MQ=255)
tttGCCATCCCCAGTAATATGGCGCGAACACTGGCgca < 1:29948/38‑1 (MQ=255)
tGCCATCCCCAGTAATATGGCGCGAACACTGGCgcagc > 1:2970124/1‑38 (MQ=255)
tGCCATCCCCAGTAATATGGCGCGAACACTGGCgcagc > 1:1704145/1‑38 (MQ=255)
cATCCCCAGTAATATGGCGCGAACACTGGCGCAGCAGCTTATCGACTTTGGTGAAATCAAACGCGGTTTGt < 1:1224439/71‑1 (MQ=255)
cATCCCCAGTAATATGGCGCGAACACTGGCGCAGCAGCTTATCGACTTTGGTGAAATCAAACGCGGTTTGt < 1:491170/71‑1 (MQ=255)
cATCCCCAGTAATATGGCGCGAACACTGGCGCAGCAGCTTATCGACTTTGGTGAAATCAAACGCGGTTTGt < 1:2137983/71‑1 (MQ=255)
cATCCCCAGTAATATGGCGCGAACACTGGCGCAGCAGCTTATCGACTTTGGTGAAATCAAACGCGGTTTGt < 1:1747428/71‑1 (MQ=255)
cATCCCCAGTAATATGGCGCGAACACTGGCGCAGCAGCTTATCGACTTTGGTGAAATCAAACGCGGTTTGt < 1:1560213/71‑1 (MQ=255)
cATCCCCAGTAATATGGCGCGAACACTGGCGCAGCAGCTTATCGACTTTGGTGAAATCAAACGCGGTTTGt < 1:78829/71‑1 (MQ=255)
tCCCCAGCAATATGGCGCGAACACTGGCGCAGCAGCTTATCGACTTTGGTGAAATCa < 1:2309288/57‑1 (MQ=255)
tCCCCAGCAATATGGCGCGAACACTGGCGCAGCAGCTTATCGACTTTGGTGAAATCa < 1:677008/57‑1 (MQ=255)
ccccAGTAATATGGCGCGAACACTGGCGCAGCAGCTTATCGACTTTGGTGAAATCAAACGCGGTTTGTTa > 1:751419/1‑70 (MQ=255)
cccAGTAATATGGCGCGAACACTGGCGCAGCAGCTTATCGACTTTGGTGAAATCAAACGCGGTTTGTTAgg > 1:624110/1‑71 (MQ=255)
cccAGTAATATGGCGCGAACACTGGCGCAGCAGCTTATCGACTTTGGTGAAATCAAACGCGGTTTGTTAgg > 1:1079200/1‑71 (MQ=255)
cAGTAATATGGCGCGAACACTGGCGCAGCAGCTTATCGACTTTGGTGAAATCa < 1:1689782/53‑1 (MQ=255)
aGTAATATGGCGCGAACACTGGCGCAGCAGCTTATCGACTTTGGTGAAATCaaa > 1:972690/1‑54 (MQ=255)
aGTAATATGGCGCGAACACTGGCGCAGCAGCTTATCGACTTTGGTGAAATCaaa > 1:3627156/1‑54 (MQ=255)
aGTAATATGGCGCGAACACTGGCGCAGCAGCTTATCGACTTTGGTGAAATCaaa > 1:2772507/1‑54 (MQ=255)
aGTAATATGGCGCGAACACTGGCGCAGCAGCTTATCGACTTTGGTGAAATCaaa > 1:2039847/1‑54 (MQ=255)
gTAATATGGCGCGAACACTGGCGCAGCAGCTTATCGACTTTGGTGAAATCaaa > 1:2864394/1‑53 (MQ=255)
gTAATATGGCGCGAACACTGGCGCAGCAGCTTATCGACTTTGGTGAAATCaaa > 1:1494627/1‑53 (MQ=255)
gTAATATGGCGCGAACACTGGCGCAGCAGCTTATCGACTTTGGTGAAATCaaa > 1:1350653/1‑53 (MQ=255)
tAATATGGCGCGAACACTGGCGCAGCAGCTTATCGACtt > 1:3179436/1‑39 (MQ=255)
tAATATGGCGCGAACACTGGCGCAGCAGCTTATCGACTTTGGTGAAATCAAACGCGGTTTGTTAGGc < 1:3622454/67‑1 (MQ=255)
tAATATGGCGCGAACACTGGCGCAGCAGCTTATCGACTTTGGTGAAATCAAACGCGGTTTGTTAGGc < 1:3008081/67‑1 (MQ=255)
tAATATGGCGCGAACACTGGCGCAGCAGCTTATCGACTTTGGTGAAATCAAACGCGGTTTGTTAGGc < 1:1678063/67‑1 (MQ=255)
tAATATGGCGCGAACACTGGCGCAGCAGCTTATCGACTTTGGTGAAATCAAACGCGGTTTGTTAGGc < 1:141194/67‑1 (MQ=255)
tAATATGGCGCGAACACTGGCGCAGCAGCTTATCGACTTTGGTGAAATCAAACGCGGTTTGTTAGGCATc > 1:3415299/1‑70 (MQ=255)
tAATATGGCGCGAACACTGGCGCAGCAGCTTATCGACTTTGGTGAAATCAAACGCGGTTTGTTAGGCATc > 1:912729/1‑70 (MQ=255)
tAATATGGCGCGAACACTGGCGCAGCAGCTTATCGACTTTGGTGAAATCAAACGCGGTTTGTTAGGCATCa < 1:2865610/71‑1 (MQ=255)
tAATATGGCGCGAACACTGGCGCAGCAGCTTATCGACTTTGGTGAAATCAAACG‑GGTTTGTTAGGCATCa > 1:1580064/1‑70 (MQ=255)
|
AACACTGCAATCCTTGCGCCTGGCGGCGGGAGCGTCGGGATTGGATTTGCCATCCCCAGTAATATGGCGCGAACACTGGCGCAGCAGCTTATCGACTTTGGTGAAATCAAACGCGGTTTGTTAGGCATCA > W3110S.gb/3381282‑3381411
|
| 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
