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 |
1,950,925 |
G→A |
56.9% |
H221Y (CAT→TAT) |
visC ← |
predicted oxidoreductase, FAD/NAD(P)‑binding domain |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,950,925 | 0 | G | A | 56.9%
| 14.9
/ 47.9
| 65 | H221Y (CAT→TAT) | visC | predicted oxidoreductase, FAD/NAD(P)‑binding domain |
| Reads supporting (aligned to +/- strand): ref base G (18/10); new base A (29/8); total (47/18) |
| Fisher's exact test for biased strand distribution p-value = 2.67e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.08e-01 |
TGCTGCATCCGCTGCGCTTCCTCTGGCGACAGTGACCAGACAATCGAGCAAAGATGCGGATCGCTAAGCGGTAAAAAGGCCAGAATGCCTTCGCCATGGAAAACCTGCCGCGCC > minE/1950870‑1950983
|
tgctgcATCCGCTGCGCTTCCTCTGGCGACAGTGACCAGACAATCGAGCAAAGATGCGGATCGCTAAGc > 1:660793/1‑69 (MQ=255)
tgctgcATCCGCTGCGCTTCCTCTGGCGACAGTGACCAGACAATCGAGCAAAGATGCGGATCGCTAAGc > 1:1931387/1‑69 (MQ=255)
tgctgcATCCGCTGCGCTTCCTCTGGCGACAGTGACCAGACAATCGAGCAAAGATGCGGATCGCTAAGc > 1:1297122/1‑69 (MQ=255)
tgctgcATCCGCTGCGCTTCCTCTGGCGACAGTGACCAGACAATCGAGCAAAGATGCGGATCGCTAAGc > 1:2592673/1‑69 (MQ=255)
tgctgcATCCGCTGCGCTTCCTCTGGCGACAGTGACCAGACAATCGAGCAAAGATGCGGATCGCTAAGc > 1:1778805/1‑69 (MQ=255)
tgctgcATCCGCTGCGCTTCCTCTGGCGACAGTGACCAGACAATCGAGCAAAGATGCGGATCGCTAAGc > 1:256203/1‑69 (MQ=255)
tgcATCCGCAGCGCTTCCTCTGGCGACAGTGACCAGACAATCGAGCAAAGATACGGATCGCTAAGCgg > 1:2129979/1‑68 (MQ=255)
tgcATCCGCAGCGCTTCCTCTGGCGACAGTGACCAGACAATCGAGCAAAGATACGGATCGCTAAGCgg > 1:3327377/1‑68 (MQ=255)
tgcATCCGCAGCGCTTCCTCTGGCGACAGTGACCAGACAATCGAGCAAAGATACGGATCGCTAAGCgg > 1:3162384/1‑68 (MQ=255)
tgcATCCGCAGCGCTTCCTCTGGCGACAGTGACCAGACAATCGAGCAAAGATACGGATCGCTAAGCgg > 1:2385263/1‑68 (MQ=255)
cGCTGCGCTTCCTCTGGCGACAGTGACCAGACAATCGAGCAAAGATGCGGATCGCTAAGCGGTaaaaa > 1:2592633/1‑68 (MQ=255)
cGCTGCGCTTCCTCTGGCGACAGTGACCAGACAATCGAGCAAAGATGCGGATCGCTAAGCGGTAAAAAg > 1:2792062/1‑69 (MQ=255)
cGCTGCGCTTCCTCTGGCGACAGTGACCAGACAATCGAGCAAAGATGCGGATCGCTAAGCGGTAAAAAg < 1:2158018/69‑1 (MQ=255)
cGCTGCGCTTCCTCTGGCGACAGTGACCAGACAATCGAGCAAAGATGCGGATCGCTAAGCGGTAAAAAg > 1:2700004/1‑69 (MQ=255)
cGCTGCGCTTCCTCTGGCGACAGTGACCAGACAATCGAGCAAAGATGCGGATCGCTAAGCGGTAAAAAg > 1:2910252/1‑69 (MQ=255)
cGCTGCGCTTCCTCTGGCGACAGTGACCAGACAATCGAGCAAAGATGCGGATCGCTAAGCGGTAAAAAg < 1:3214317/69‑1 (MQ=255)
cGCTGCGCTTCCTCTGGCGACAGTGACCAGACAATCGAGCAAAGATGCGGATCGCTAAGCGGTAAAAAg < 1:960592/69‑1 (MQ=255)
cGCTGCGCTTCCTCTGGCGACAGTGACAAGACAATCGAGCAAAGATGCGGATCGCTAAGCGGTAAAAAg > 1:2772445/1‑69 (MQ=255)
cTTCCTCTGGCGACAGTGACCAGACAATCGAGCAAAGATGCGGATCGCTAAGCGGTAAAAAGGCCAg < 1:1986146/67‑1 (MQ=255)
ccTCTGGCGACAGTGCCCAGACAATCGAGCAAAGATACGGATCGCTAAGCGGTAAAAAGGCCAGAATg > 1:1695551/1‑68 (MQ=255)
ccTCTGGCGACAGTGACCAGACAATCGAGCAAAGATACGGATCGCTAAGCGGTAAAAAgg > 1:2982570/1‑60 (MQ=255)
ccTCTGGCGACAGTGACCAGACAATCGAGCAAAGATACGGATCGCTAAGCGGTAAAAAGGCCAGAATGc > 1:1447845/1‑69 (MQ=255)
ccTCTGGCGACAGTGACCAGACAATCGAGCAAAGATACGGATCGCTAAGCGGTAAAAAGGCCAGAATGc > 1:1124164/1‑69 (MQ=255)
ccTCTGGCGACAGTGACCAGACAATCGAGCAAAGATACGGATCGCTAAGCGGTAAAAAGGCCAGAATGc > 1:3058192/1‑69 (MQ=255)
ccTCTGGCGACAGTGACCAGACAATCGAGCAAAGATACGGATCGCTAAGCGGTAAAAAGGCCAGAATGc > 1:3069702/1‑69 (MQ=255)
ccTCTGGCGACAGTGACCAGACAATCGAGCAAAGATACGGATCGCTAAGCGGTAAAAAGGCCAGAATGc > 1:3215479/1‑69 (MQ=255)
ccTCTGGCGACAGTGACCAGACAATCGAGCAAAGATACGGATCGCTAAGCGGTAAAAAGGCCAGAATGc > 1:3318781/1‑69 (MQ=255)
ccTCTGGCGACAGTGACCAGACAATCGAGCAAAGATACGGATCGCTAAGCGGTAAAAAGGCCAGAATGc > 1:3386075/1‑69 (MQ=255)
ccTCTGGCGACAGTGACCAGACAATCGAGCAAAGATACGGATCGCTAAGCGGTAAAAAGGCCAGAATGc > 1:489199/1‑69 (MQ=255)
ccTCTGGCGACAGTGACCAGACAATCGAGCAAAGATACGGATCGCTAAGCGGTAAAAAGGCCAGAATGc > 1:562994/1‑69 (MQ=255)
ccTCTGGCGACAGTGACCAGACAATCGAGCAAAGATACGGATCGCTAAGCGGTAAAAAGGCCAGAATGc > 1:591905/1‑69 (MQ=255)
ccTCTGGCGACAGTGACCAGACAATCGAGCAAAGATACGGATCGCTAAGCGGTAAAAAGGCCAGAATGc > 1:621228/1‑69 (MQ=255)
ccTCTGGCGACAGTGACCAGACAATCGAGCAAAGATACGGATCGCTAAGCGGTAAAAAGGCCAGAATGc > 1:708024/1‑69 (MQ=255)
ccTCTGGCGACAGTGACCAGACAATCGAGCAAAGATACGGATCGCTAAGCGGTAAAAAGGCCAGAATGc > 1:772615/1‑69 (MQ=255)
ccTCTGGCGACAGTGACCAGACAATCGAGCAAAGATACGGATCGCTAAGCGGTAAAAAGGCCAGAATGc > 1:843432/1‑69 (MQ=255)
ccTCTGGCGACAGTGACCAGACAATCGAGCAAAGATACGGATCGCTAAGCGGTAAAAAGGCCAGAATGc > 1:913404/1‑69 (MQ=255)
ccTCTGGCGACAGTGACCAGACAATCGAGCAAAGATACGGATCGCTAAGCGGTAAAAAGGCCAGAATGc > 1:1518259/1‑69 (MQ=255)
ccTCTGGCGACAGTGACCAGACAATCGAGCAAAGATACGGATCGCTAAGCGGTAAAAAGGCCAGAATGc > 1:2835007/1‑69 (MQ=255)
ccTCTGGCGACAGTGACCAGACAATCGAGCAAAGATACGGATCGCTAAGCGGTAAAAAGGCCAGAATGc > 1:1798558/1‑69 (MQ=255)
ccTCTGGCGACAGTGACCAGACAATCGAGCAAAGATACGGATCGCTAAGCGGTAAAAAGGCCAGAATGc > 1:2284973/1‑69 (MQ=255)
ccTCTGGCGACAGTGACCAGACAATCGAGCAAAGATACGGATCGCTAAGCGGTAAAAAGGCCAGAATGc > 1:245024/1‑69 (MQ=255)
ccTCTGGCGACAGTGACCAGACAATCGAGCAAAGATACGGATCGCTAAGCGGTAAAAAGGCCAGAATGc > 1:2173704/1‑69 (MQ=255)
ccTCTGGCGACAGTGACCAGACAATCGAGCAAAGATAAGGATCGCTAAGCGGTAAAAAGGCCAGAATGc > 1:2133958/1‑69 (MQ=255)
ccTCTGGCGAAAGTGACCAGACAATCGAGCAAAGATACGGATc > 1:2909037/1‑43 (MQ=38)
gACAGTGACCAGACAATCGAGCAAAGATGCGGATCGCTAAGCGGTAAAAAGGCCAGAATGCCTTCGCCa < 1:2820516/69‑1 (MQ=255)
gACAGTGACCAGACAATCGAGCAAAGATGCGGATCGCTAAGCGGTAAAAAGGCCAGAATGCCTTCGCCa < 1:1033427/69‑1 (MQ=255)
gACAGTGACCAGACAATCGAGCAAAGATGCGGATCGCTAAGCGGTAAAAAGGCCAGAATGCCTTCGCCa < 1:635844/69‑1 (MQ=255)
gACAGTGACCAGACAATCGAGCAAAGATGCGGATCGCTAAGCGGTAAAAAGGCCAGAATGCCTTCGCCa < 1:714310/69‑1 (MQ=255)
gACAGTGACCAGACAATCGAGCAAAGATGCGGATCGCTAAGCGGTAAAAAGGCCAGAATGCCTTCGCCa < 1:882821/69‑1 (MQ=255)
gACAGTGACCAGACAATCGAGCAAAGATGCGGATCGCTAAGCGGTAAAAAGGCCAGAATGCCTTCGCCa < 1:1892562/69‑1 (MQ=255)
gACCAGACAATCGAGCAAAGATGCGGATCGCTAAGCGGTAAAAAGGCCAGAATGCCTTCGCCATGGaaa > 1:2239254/1‑69 (MQ=255)
cGAGCAAAGATGCGGATCGCTAAGCGGTAAAAAGGCCAGAATGCCTTc > 1:705289/1‑48 (MQ=255)
cGAGCAAAGATGCGGATCGCTAAGCGGTAAAAAGGCCAGAATGCCTTCGCCATGGAAAACCTGCcgcg > 1:1157367/1‑68 (MQ=255)
cGAGCAAAGATGCGGATCGCTAAGCGGTAAAAAGGCCAGAATGCCTTCGCCATGGAAAACCTGCCgcgc > 1:483010/1‑69 (MQ=255)
cGAGCAAAGATGCGGATCGCTAAGCGGTAAAAAGGCCAGAATGCCTTCGCCATGGAAAACCTGCCgcgc > 1:2543301/1‑69 (MQ=255)
cGAGCAAAGATGCGGATCGCTAAGCGGTAAAAAGGCCAGAATGCCTTCGCCATGGAAAACCTGCCgcgc > 1:1196229/1‑69 (MQ=255)
cGAGCAAAGATGCGGATCGCTAAGCGGTAAAAAGGCCAGAATGCCTTCGCCATGGAAAACCTGCCgcgc > 1:1432858/1‑69 (MQ=255)
gAGCAAAGATACGGATCGCTAAGCGGTAAAAAGGCCAGAATGCCTTCGCCATGGAAAACCTGCCGCGcc < 1:2101461/69‑1 (MQ=255)
gAGCAAAGATACGGATCGCTAAGCGGTAAAAAGGCCAGAATGCCTTCGCCATGGAAAACCTGCCGCGcc < 1:1154773/69‑1 (MQ=255)
gAGCAAAGATACGGATCGCTAAGCGGTAAAAAGGCCAGAATGCCTTCGCCATGGAAAACCTGCCGCGcc < 1:2314226/69‑1 (MQ=255)
gAGCAAAGATACGGATCGCTAAGCGGTAAAAAGGCCAGAATGCCTTCGCCATGGAAAACCTGCCGCGcc < 1:577235/69‑1 (MQ=255)
gAGCAAAGATACGGATCGCTAAGCGGTAAAAAGGCCAGAATGCCTTCGCCATGGAAAACCTGCCGCGcc < 1:2381700/69‑1 (MQ=255)
gAGCAAAGATACGGATCGCTAAGCGGTAAAAAGGCCAGAATGCCTTCGCCATGGAAAACCTGCCGCGcc < 1:182218/69‑1 (MQ=255)
gAGCAAAGATACGGATCGCTAAGCGGTAAAAAGGCCAGAATGCCTTCGCCATGGAAAACCTGCCGCGcc < 1:3257558/69‑1 (MQ=255)
gAGCAAAGATACGGATCGCTAAGCGGTAAAAAGGCCAGAATGCCTTCGCCATGGAAAACCTGCCGCGcc < 1:178531/69‑1 (MQ=255)
|
TGCTGCATCCGCTGCGCTTCCTCTGGCGACAGTGACCAGACAATCGAGCAAAGATGCGGATCGCTAAGCGGTAAAAAGGCCAGAATGCCTTCGCCATGGAAAACCTGCCGCGCC > minE/1950870‑1950983
|
| 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
