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 |
3,205,103 |
A→G |
100% |
intergenic (‑191/‑16) |
ygiP ← / → ttdA |
predicted DNA‑binding transcriptional regulator/L‑tartrate dehydratase, alpha subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,205,103 | 0 | A | G | 88.2%
| 94.7
/ 4.3
| 34 | intergenic (‑191/‑16) | ygiP/ttdA | predicted DNA‑binding transcriptional regulator/L‑tartrate dehydratase, alpha subunit |
| Reads supporting (aligned to +/- strand): ref base A (3/1); new base G (11/19); total (14/20) |
| Fisher's exact test for biased strand distribution p-value = 2.83e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.92e-01 |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
GGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTC > W3110S.gb/3205035‑3205172
|
ggTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACgaa < 1:1823213/71‑1 (MQ=255)
ggTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACgaa < 1:3208910/71‑1 (MQ=255)
ggTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACgaa < 1:3484939/71‑1 (MQ=255)
ggTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACgaa < 1:2793713/71‑1 (MQ=255)
ggTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACgaa < 1:1864881/71‑1 (MQ=255)
agTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACgaa < 1:439445/70‑1 (MQ=255)
gTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACgaa > 1:165081/1‑70 (MQ=255)
gTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACgaa > 1:3548972/1‑70 (MQ=255)
gTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACgaa > 1:748377/1‑70 (MQ=255)
tGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACgaa < 1:623675/69‑1 (MQ=255)
cAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACGAAAACTg < 1:2587271/71‑1 (MQ=255)
cAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACGAAAACTg < 1:2431920/71‑1 (MQ=255)
cAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACGAAAACTg < 1:2199025/71‑1 (MQ=255)
tataAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACGAAAACTGGAGTTGc < 1:1428247/71‑1 (MQ=255)
tttttAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACGAAAACTGGAGTTGCCATGATGAGCGa < 1:1822408/71‑1 (MQ=255)
tttttAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACGAAAACTGGAGTTGCCATGATGAGCGa < 1:1246902/71‑1 (MQ=255)
tttttAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACGAAAACTGGAGTTGCCATGATGAGCGa < 1:2163474/71‑1 (MQ=255)
gTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACGAAAACTGGAGTTGCCATGATGAGCGAAAGtaata < 1:165527/70‑1 (MQ=255)
gTTTGTGGCGGTGAATTTTTCCAGACAAATACGAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGc < 1:1044196/70‑1 (MQ=255)
tttGTGGCGGTGAATTTTTCCAGACAAATACGAAAACTGGAGTTGCCATGATGAGCGAAAGt < 1:1819209/62‑1 (MQ=255)
tttGTGGCGGTGAATTTTTCCAGACAAATACGAAAACTGGAGTTGCCATGATGAGCGAAAGt < 1:1911807/62‑1 (MQ=255)
tttGTGGCGGTGAATTTTTCCAGACAAATACGAAAACTGGAGTTGCCATGATGAGCGAAAGt < 1:482957/62‑1 (MQ=255)
tttGTGGCGGTGAATTTTTCCAGACAAATACGAAAACTGGAGTTGCCATGATGAGCGAAAGt < 1:2349958/62‑1 (MQ=255)
tttGTGGCGGTGAATTTTTCCAGACAAATACGAAAACTGGAGTTGCCATGATGAGCGAAAGt < 1:1654619/62‑1 (MQ=255)
tgtgGCGGTGAATTTTTCCAGACAAATACGAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCaa > 1:614028/1‑69 (MQ=255)
tgtgGCGGTGAATTTTTCCAGACAAATACGAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCaa > 1:1376091/1‑69 (MQ=255)
tgGCGGTGAATTTTTCCAGACAAATACGAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAgg < 1:3585023/71‑1 (MQ=255)
ggTGAATTTTTCCAGACAAATACGAAAACTGGAGtt > 1:2429525/1‑36 (MQ=255)
aaTTTTTCCAGACAAATACGAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGaa > 1:3135186/1‑70 (MQ=255)
aaTTTTTCCAGACAAATACGAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGaa > 1:3333843/1‑70 (MQ=255)
aaTTTTTCCAGACAAATACGAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGaa > 1:346969/1‑70 (MQ=255)
aaTTTTTCCAGACAAATACGAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGaa > 1:3473812/1‑70 (MQ=255)
aaTTTTTCCAGACAAATACGAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGaa > 1:50467/1‑70 (MQ=255)
tttttCCAGACAAATACGAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAAt > 1:2402231/1‑69 (MQ=255)
tttttCCAGACAAATACGAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAAt > 1:9639/1‑69 (MQ=255)
cAGACAAATACGAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGc < 1:17275/56‑1 (MQ=255)
gACAAATACGAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAg > 1:1282757/1‑56 (MQ=255)
gACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGc < 1:1898086/47‑1 (MQ=255)
aCAAATACGAAAACTTGAGTTGCCATGATGAGCGAAAGTAATAAGc < 1:1793439/46‑1 (MQ=255)
aCAAATACGAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGc < 1:283335/46‑1 (MQ=255)
aCAAATACGAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGc < 1:1500941/46‑1 (MQ=255)
aaaTACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACa > 1:3625183/1‑67 (MQ=255)
cAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTgac > 1:3320384/1‑69 (MQ=255)
cAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTc > 1:1633099/1‑71 (MQ=255)
|
GGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTC > W3110S.gb/3205035‑3205172
|
| 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
