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 F3 I0 R1
|
560 |
56.4 |
4650532 |
94.9% |
4413354 |
59.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,031,910 |
A→G |
18.2% |
N64D (AAC→GAC) |
idi → |
isopentenyl diphosphate isomerase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,031,910 | 0 | A | G | 18.2%
| 97.1
/ 16.5
| 44 | N64D (AAC→GAC) | idi | isopentenyl diphosphate isomerase |
| Reads supporting (aligned to +/- strand): ref base A (24/12); new base G (4/4); total (28/16) |
| Fisher's exact test for biased strand distribution p-value = 4.34e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.13e-01 |
CCAAAGGACAATTATTAGTTACCCGCCGCGCACTGAGCAAAAAAGCATGGCCTGGCGTGTGGACTAACTCGGTTTGTGGGCACCCACAACTGGGAGAAAGCAACGAAGACGCAGTGATCCGCCGTTGCCGTTA > W3110S.gb/3031845‑3031977
|
ccAAAGGACAATTATTAGTTACCCGCCGCGCACTTAGCAAAAAAGCATGGCCTGGCGTGTGGACTAACTCg > 1:1665252/1‑71 (MQ=255)
ccAAAGGACAATTATTAGTTACCCGCCGCGCACTGAGCAAAAAAGCATGGCCTGGCGTGTGGACTAACTCg > 1:2188761/1‑71 (MQ=255)
aaaGGACAATTATTAGTTACCCGCCGCGCACTGAGCAAAAAAGCATGGCCTGGCGTGTGGACTAACTCGGt > 1:3951815/1‑71 (MQ=255)
aGGACAATTATTAGTTACCCGCCGCGCACTGAGCAAAAAAGCATGGCCTGGCGTGTGGACTAACTCGGttt > 1:3771279/1‑71 (MQ=255)
aGGACAATTATTAGTTACCCGCCGCGCACTGAGCAAAAAAGCATGGCCTGGCGTGTGGACTAACTCGGttt < 1:3116004/71‑1 (MQ=255)
ttattaGTTACCCGCCGCGCACTGAGCAAAAAAGCATGGCCTGGCGTGTGGACTAACTCg > 1:3474295/1‑60 (MQ=255)
ttaGTTACCCGCCGCGCACTGAGCAAAAAAGCATGGCCTGGCGTGTGGACTAACTCGGTTTGTGGGCAcc > 1:1684758/1‑70 (MQ=255)
aCCCGCCGCGCACTGAGCAAAAAAGCATGGCCTGGCGTGTGGACTAACTCGGTTtg > 1:4397973/1‑56 (MQ=255)
ccgccgCGCACTGAGCAAAAAAGCATGGCCTGGCGTGTGGACTAACTCGGTTTGTGGGCACCCACAACTgg < 1:2347566/71‑1 (MQ=255)
gcgcACTGAGCAAAAAAGCATGGCCTGGCGTGTGGACTAACTCGGTTTGTGGGCACCCACAACTGGGAGaa < 1:2428023/71‑1 (MQ=255)
cACTGAGCAAAAAAGCATGGCCTGGCGTGTGGACTGACTCGGTTTGTGGGCACCcac < 1:2658174/57‑1 (MQ=255)
aCTGAGCAAAAAAGCATGGCCTGGCGTGTGGACTAACTCGGtt > 1:1379528/1‑43 (MQ=255)
cTGAGCAAAAAAGCATGGCCTGGCGTGTGGACTAACTCGGTTtgtg < 1:2005285/46‑1 (MQ=255)
tGAGCAAAAAAGCATGGCCTGGCGTGTGGACTGACTCgg < 1:2674625/39‑1 (MQ=255)
gAGCAAAAAAGCATGGCCTGGCGTGTGGACTGACTCGGTTTGTGGTCACCCACAACTGGGAGAAAGCAAc > 1:4482476/1‑70 (MQ=255)
gAGCAAAAAAGCATGGCCTGGCGTGTGGACTAACTCGGTTTGTGGGCACCCACaa > 1:1070818/1‑55 (MQ=255)
gAGCAAAAAAGCATGGCCTGGCGTGTGGACTAACTCGGTTTGTGGGCACCCACAACTGGGAGAAAGCAAc > 1:4564760/1‑70 (MQ=255)
aGCAAAAAAGCATGGCCTGGCGTGTGGACTGACTCGGTTTGTGGCCACCCACAACTGGGAGAAAGCAACg < 1:163381/70‑1 (MQ=255)
aGCAAAAAAGCATGGCCTGGCGTGTGGACTAACTCGGTTTGTGGGc > 1:2748191/1‑46 (MQ=255)
gCAAAAAAGCATGGCCTGGCGTGTGGACTAACTCGGTTTGTGGGCACCCACAACTGGGAGAAAGCAACGaa < 1:3947251/71‑1 (MQ=255)
aaaaaGCATGGCCTGGCGTGTGGACTAACTCGGTTTGTgg > 1:1367806/1‑40 (MQ=255)
aaaaGCATGGCCTGGCGTGTGGACTAACTCGGTTTGTGGGCACCCACAACTGGGAGAAAGCAACGAAGACg < 1:1013180/71‑1 (MQ=255)
aaaGCATGGCCTGGCGTGTGGACTGACTCGGTTtg > 1:708342/1‑35 (MQ=255)
aaaGCATGGCCTGGCGTGTGGACTAACTCGGTTtg > 1:677325/1‑35 (MQ=255)
aaaGCATGGCCTGGCGTGTGGACTAACTCGGTTtg > 1:4575011/1‑35 (MQ=255)
aaaGCATGGCCTGGCGTGTGGACTAACTCGGTTTGTGGGCACCCACAACTGGGAGAAAGCAACGAAGACg > 1:2056354/1‑70 (MQ=255)
aaGCATGGCCTGGCGTGTGGACTAACTCGGTTTGTGGTCACCCACAACTGGGAGAAAGCAACGAAGACg > 1:789833/1‑69 (MQ=255)
aaGCATGGCCTGGCGTGTGGACTAACTCGGTTTGTGGGCa > 1:1417890/1‑40 (MQ=255)
aaGCATGGCCTGGCGTGTGGACTAACTCGGTTTGTGGGCACCCACAAc > 1:3212379/1‑48 (MQ=255)
aaGCATGGCCTGGCGTGTGGACTAACTCGGTTTGTGGGCACCCACAACt < 1:2197909/49‑1 (MQ=255)
aGCATGACCTGGCGTGTGGACTAACTCGGTTTGTGGGCACCCACAACTGGGAGAAAGCAACGAAGACGCAg > 1:596042/1‑71 (MQ=255)
aTGGCCTGGCGTGTGGACTAACTCGGTTTGTGGGCACCCACAACTGGGAGAAAGCAACGAAGACGCAGTg < 1:698827/70‑1 (MQ=255)
aTGGCCTGGCGTGTGGACTAACTCGGTTTGTGGGCACCCACAACTGGGAGAAAGCAACGAAGACGCAGTGa < 1:2597967/71‑1 (MQ=255)
gCCTGGCGTGTGGACTAACTCGGTTTGTGGGCACCCACAACTGGGAGAAAGCAACGAAGACGCAGTGATcc > 1:2761236/1‑71 (MQ=255)
ccTGGCGTGTGGACTAACTCGGTTTGTGGGCACCCACAACTGGGAGAAAGCAACGAAGACGCAGTGATccg < 1:82780/71‑1 (MQ=255)
tgtgGACTGACTCGGTTTGTGGGCACCCACAACTGGGAGAAAGCAACGAAGACGCAGTGATccgc < 1:186088/65‑1 (MQ=255)
tgtgGACTAACTCGGTTTGTGGGCACCCACAACTGGGAGAAAGCAACGaa > 1:2344049/1‑50 (MQ=255)
tgGACTGACTCGGTTTGTGGGCACCCACAACTGGGAGAAAGCAACGAAGACGCAGTGATCCgccgttgccg > 1:4473645/1‑71 (MQ=255)
tgGACTGACTCGGTTTGTGGGCACCCACAACTGGGAGAAAGCAACGAAGACGCAGTGATCCgccgttgccg > 1:2121115/1‑71 (MQ=255)
tgGACTAACTCGGTTTGTGGGCACCCACAACTGGGAGAAAGCAACGAAGACGCAGTGATCCgccgttgccg > 1:817681/1‑71 (MQ=255)
tgGACTAACTCGGTTTGTGGGCACCCACAACTGGGAGAAAGCAACGAAGACGCAGTGATCCgccgttgcc > 1:2639617/1‑70 (MQ=255)
tgGACTAACTCGGTTTGTGGGCACCCACAACTGGGAGAAAGCAACGAAGACGCAGTGATCCgccgt < 1:2724659/66‑1 (MQ=255)
gactgactCGGTTTGTGGGCACCCACAACTGGGAGAAAGCAACGAAGACGCAGTGATCCgccgttgccgt > 1:2217666/1‑70 (MQ=255)
gACTAACTCGGTTTGTGGGCACCCACAACTGGGAGAAAGCAACGAAGACGCAGTGATCCgccgttgccgt < 1:1695768/70‑1 (MQ=255)
aCTAACTCGGTTTGTGGGCACCCACAACTGGGAGAAAGCAACGAAGACGCAGTGATCCGCCGTTGCCGTTa > 1:3365833/1‑71 (MQ=255)
|
CCAAAGGACAATTATTAGTTACCCGCCGCGCACTGAGCAAAAAAGCATGGCCTGGCGTGTGGACTAACTCGGTTTGTGGGCACCCACAACTGGGAGAAAGCAACGAAGACGCAGTGATCCGCCGTTGCCGTTA > W3110S.gb/3031845‑3031977
|
| 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
