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 |
312,225 |
C→A |
31.1% |
A216A (GCG→GCT) |
acrB ← |
multidrug efflux system protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 312,225 | 0 | C | A | 31.1%
| 90.7
/ 44.8
| 77 | A216A (GCG→GCT) | acrB | multidrug efflux system protein |
| Reads supporting (aligned to +/- strand): ref base C (45/8); new base A (11/13); total (56/21) |
| Fisher's exact test for biased strand distribution p-value = 7.17e-04 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.75e-03 |
TGAGCAATAATAGAGGCGTTAAGCTGTTGGCCTTTCACCGGCGGCGTACCACCGAGCTGACCCGCCGCAACCTGGGCGTTCTGCGCTTTGATGGCGGTAATGACATCAACCGGCGTTAGCTGGAATTTGT > minE/312163‑312292
|
tGAGCAATAATAGAGGCGTTAAGCTGTTGGCCTTTCACCGGCGGCGTACCACCGAGCTGACCCGCCGCa > 1:1139815/1‑69 (MQ=255)
tGAGCAATAATAGAGGCGTTAAGCTGTTGGCCTTTCACCGGCGGCGTACCACCGAGCTGACCCGCCGCa > 1:2364843/1‑69 (MQ=255)
gCAATAATAGAGGCGTTAAGCTGTTGGCCTTTCACCGGCGGCGTACCACCGAGCTGACCCGCCGCAAcc > 1:372151/1‑69 (MQ=255)
gCAATAATAGAGGCGTTAAGCTGTTGGCCTTTCACCGGCGGCGTACCACCGAGCTGACCCGCCGCAAcc > 1:2975600/1‑69 (MQ=255)
gCAATAATAGAGGCGTTAAGCTGTTGGCCTTTCACCGGCGGCGTACCACCGAGCTGACCCGCCGCAAcc > 1:725117/1‑69 (MQ=255)
gCAATAATAGAGGCGTTAAGCTGTTGGCCTTTCACCGGCGGCGTACCACCGAGCTGACCCGCCGCAAcc > 1:2028324/1‑69 (MQ=255)
ataGAGGCGTTAAGCTGTTGGCCTTTCACCGGCGGCGTACCACCGAGCTGACCCGCCGCaa > 1:2658836/1‑61 (MQ=255)
gagGCGTTAAGCTGTTGGCCTTTCACCGGCGGCGTACCACCGAGCTGACCCGCCGCAACCTGGGCGTTc > 1:430561/1‑69 (MQ=255)
gagGCGTTAAGCTGTTGGCCTTTCACCGGCGGCGTACCACCGAGCTGACCCGCCGCAACCTGGGCGTTc > 1:3264492/1‑69 (MQ=255)
gagGCGTTAAGCTGTTGGCCTTTCACCGGCGGCGTACCACCGAGCTGACCCGCCGCAACCTGGGCGTTc > 1:2786224/1‑69 (MQ=255)
ggCGTTAAGCTGTTGGCCTTTCACCGGCGGCGTACCACCGAGCTGACCCGCCGCAACCTGGGCGTTCt > 1:2250333/1‑68 (MQ=255)
ggCGTTAAGCTGTTGGCCTTTCACCGGCGGCGTACCACCGAGCTGACCCGCCGCAACCTGGGCGTTCTg > 1:2259199/1‑69 (MQ=255)
ggCGTTAAGCTGTTGGCCTTTCACCGGCGGCGTACCACCGAGCTGACCCGCCGCAACCTGGGCGTTCTg > 1:2164412/1‑69 (MQ=255)
ggCGTTAAGCTGTTGGCCTTTCACCGGCGGCGTACCACCGAGCTGACCCGCCGCAACCTGGGCGTTCTg > 1:1431834/1‑69 (MQ=255)
ggCGTTAAGCTGTTGGCCTTTCACCGGCGGCGTACCACCGAGCTGACCCGCCGCAACCTGGGCGTTCTg > 1:3295229/1‑69 (MQ=255)
ggCGTTAAGCTGTTGGCCTTTCACCGGCGGCGTACCACCGAGCTGACCCGCCGCAACCTGGGCGTTCTg > 1:2181951/1‑69 (MQ=255)
ggCGTTAAGCTGTTGGCCTTTCACCGGCGGCGTACCACCGAGCTGACCCGCCGCAACCTGGGCGTTCTg > 1:835399/1‑69 (MQ=255)
ggCGTTAAGCTGTTGGCCTTTCACCGGCGGCGTACCACCGAGCTGACCCGCCGCAACCTGGGCGTTCTg > 1:2696083/1‑69 (MQ=255)
ggCGTTAAGCTGTTGGCCTTTCACCGGCGGCGTACCACCGAGCTGACCCGCCGCAACCTGGGCGTTCTg > 1:484426/1‑69 (MQ=255)
ggCGTTAAGCTGTTGGCCTTTCACCGGCGGCGTACCACCGAGCTGACCCGCCGCAACCTGGGCGTTCTg > 1:1320212/1‑69 (MQ=255)
ggCGTTAAGCTGTTGGCCTTTCACCGGCGGCGTACCACCGAGCTGACCCGCCGCAACCTGGGCGTTCTg > 1:2878777/1‑69 (MQ=255)
ggCGTTAAGCTGTTGGCCTTTCACCGGCGGCGTACCACCGAGCTGACCCGCCGCAACCTGGGCGTTCTg > 1:1499852/1‑69 (MQ=255)
aaGCTGTTGGCCTTTCACCGGCGGCGTACCACCGAGCTTACCCGCCGCAACCTGGGCGTTCTGCGCttt < 1:809402/69‑1 (MQ=255)
aaGCTGTTGGCCTTTCACCGGCGGCGTACCACCGAGCTGACCCGCCGCACCCTGGGCGTTCTGCGCttt > 1:1705023/1‑69 (MQ=255)
aaGCTGTTGGCCTTTCACCGGCGGCGTACCACCGAGCTGACCCGCCGCAACCTGGGCGTTCTGCGCttt < 1:2277039/69‑1 (MQ=255)
aaGCTGTTGGCCTTTCACCGGCGGCGTACCACCGAGCTGACCCGCCGCAACCTGGGCGTTCTGCGCttt > 1:1302374/1‑69 (MQ=255)
aaGCTGTTGGCCTTTCACCGGCGGCGTACCACCGAGCTGACCCGCCGCAACCTGGGCGTTCTGCGCttt < 1:2255684/69‑1 (MQ=255)
aaGCTGTTGGCCTTTCACCGGCGGCGTACCACCGAGCTGACCCGCCGCAACCTGGGCGTTCTGCGCttt > 1:2232589/1‑69 (MQ=255)
tGTTGGCCTTTCACCGGCGGCGTACCACCGAGCTGACCCGCCGCAACCTGGGCGTTCTGCGCTTTGATg > 1:3118144/1‑69 (MQ=255)
tGTTGGCCTTTCACCGGCGGCGTACCACCGAGCTGACCCGCCGCAACCTGGGCGTTCTGCGCTTTGATg > 1:1897063/1‑69 (MQ=255)
tGTTGGCCTTTCACCGGCGGCGTACCACCGAGCTGACCCGCCGCAACCTGGGCGTTCTGCGCTTTGATg > 1:600790/1‑69 (MQ=255)
tGTTGGCCTTTCACCGGCGGCGTACCACCGAGCTGACCCGCCGCAACCTGGGCGTTCTGCGCTTTGATg > 1:3252444/1‑69 (MQ=255)
gCCTTTCACCGGCGGCGTACCACCGAGCTGACCCGCCGCAACCTGGGCGTTCTGCGCTTTGATGGCGGt > 1:3324381/1‑69 (MQ=255)
gCCTTTCACCGGCGGCGTACCACCGAGCTGACCCGCCGCAACCTGGGCGTTCTGCGCTTTGATGGCGGt > 1:2686746/1‑69 (MQ=255)
tttCACCGGCGGCGTACCACCGAGCTGACCCGCCGCAACCTGGGCGTTCTGCGCTTTGATGGCGGTAAt > 1:2842782/1‑69 (MQ=255)
aCCGGCGGCGTACCACCGAGCTGACCAGCTGCAACCTGAGCGTTc > 1:2855617/1‑45 (MQ=38)
aCCGGCGGCGTACCACCGAGCTGACCAGCTGCAACCTGAGCGTTCTGTGCTTTGATGGCGGTAATGAc > 1:2105950/1‑68 (MQ=255)
aCCGGCGGCGTACCACCGAGCTGACCAGCTGCAACCTGAGCGTTCTGTGCTTTGATGGCGGTAATGAc > 1:889310/1‑68 (MQ=255)
aCCGGCGGCGTACCACCGAGCTGACCAGCTGCAACCTGAGCGTTCTGTGCTTTGATGGCGGTAATGAc > 1:676711/1‑68 (MQ=255)
aCCGGCGGCGTACCACCGAGCTGACCAGCTGCAACCTGAGCGTTCTGTGCTTTGATGGCGGTAATGAc > 1:1694619/1‑68 (MQ=255)
aCCGGCGGCGTACCACCGAGCTGACCAGCTGCAACCTGAGCGTTCTGTGCTTTGATGGCGGTAATGAc > 1:696110/1‑68 (MQ=255)
aCCGGCGGCGTACCACCGAGCTGACCAGCTGCAACCTGAGCGTTCTGTGCTTTGATGGCGGTAATGAc > 1:2452437/1‑68 (MQ=255)
aCCGGCGGCGTACCACCGAGCTGACCAGCTGCAACCTGAGCGTTCTGTGCTTTGATGGCGGTAATGAc > 1:1816651/1‑68 (MQ=255)
aCCGGCGGCGTACCACCGAGCTGACCAGCTGCAACCTGAGCGTTCTGTGCTTTGATGGCGGTAATGAc > 1:1844992/1‑68 (MQ=255)
aCCGGCGGCGTACCACCGAGCTGACCAGCTGCAACCTGAGCGTTCTGTGCTTTGATGGCGGTAATGAc > 1:1248518/1‑68 (MQ=255)
aCCGGCGGCGTACCACCGAGCTGACCAGCTGCAACCTGAGCGTTCTGTGCTTTGATGGCGGTAATGAc > 1:3344012/1‑68 (MQ=255)
ggcggcGTACCACCGAGCTGACCCGCCGCAACCTGGGCGTTCTGCGCTTTGATGGCGGTAATGACATCa > 1:1422177/1‑69 (MQ=255)
ggcggcGTACCACCGAGCTGACCCGCCGCAACCTGGGCGTTCTGCGCTTTGATGGCGGTAATGACATCa > 1:2179174/1‑69 (MQ=255)
tACCACCGAGCTGACCAGCTGCAACCTGAGCGTTCTGTGCTTTGATGGCGGTa < 1:3185091/53‑1 (MQ=255)
tACCACCGAGCTGACCAGCTGCAACCTGAGCGTTCTGTGCTTTGATGGCGGTa < 1:1478262/53‑1 (MQ=255)
tACCACCGAGCTGACCAGCTGCAACCTGAGCGTTCTGTGCTTTGATGGCGGTa < 1:603127/53‑1 (MQ=255)
tACCACCGAGCTGACCAGCTGCAACCTGAGCGTTCTGTGCTTTGATGGCGGTa < 1:101998/53‑1 (MQ=255)
tACCACCGAGCTGACCAGCTGCAACCTGAGCGTTCTGTGCTTTGATGGCGGTa < 1:2941744/53‑1 (MQ=255)
tACCACCGAGCTGACCAGCTGCAACCTGAGCGTTCTGTGCTTTGATGGCGGTa < 1:1410470/53‑1 (MQ=255)
tACCACCGAGCTGACCAGCTGCAACCTGAGCGTTCTGTGCTTTGATGGCGGTa < 1:2375443/53‑1 (MQ=255)
tACCACCGAGCTGACCAGCTGCAACCTGAGCGTTCTGTGCTTTGATGGCGGTa < 1:2178183/53‑1 (MQ=255)
tACCACCGAGCTGACCAGCTGCAACCTGAGCGTTCTGTGCTTTGATGGCGGTa < 1:2112361/53‑1 (MQ=255)
tACCACCGAGCTGACCAGCTGCAACCTGAGCGTTCTGTGCTTTGATGGCGGTa < 1:145919/53‑1 (MQ=255)
tACCACCGAGCTGACCAGCTGCAACCTGAGCGTTCTGTGCTTTGATGGCGGTa < 1:1957006/53‑1 (MQ=255)
tACCACCGAGCTGACCAGCTGCAACCTGAGCGTTCTGTGCTTTGATGGCGGTa < 1:1604366/53‑1 (MQ=255)
tACCACCGAGCTGACCAGCTGCAACCTGAGCGTTCTGTGCTTTGATGGCGGTa < 1:863649/53‑1 (MQ=255)
ccaccGAGCTGACCCGCCGCAACCTGGGCGTTCTGCGCTTTGATGGCGGt < 1:3017226/50‑1 (MQ=255)
ccaccGAGCTGACCCGCCGCAACCTGGGCGTTCTGCGCTTTGATGGCGGt < 1:2763983/50‑1 (MQ=255)
ccaccGAGCTGACCCGCCGCAACCTGGGCGTTCTGCGCTTTGATGGCGGt < 1:1736255/50‑1 (MQ=255)
ccaccGAGCTGACCCGCCGCAACCTGGGCGTTCTGCGCTTTGATGGCGGt < 1:3425509/50‑1 (MQ=255)
ccaccGAGCTGACCCGCCGCAACCTGGGCGTTCTGCGCTTTGATGGCGGt < 1:1647967/50‑1 (MQ=255)
ccaccGAGCTGACCCGCCGCAACCTGGGCGTTCTGCGCTTTGATGGCGGTaa > 1:3361060/1‑52 (MQ=255)
ccaccGAGCTGACCCGCCGCAACCTGGGCGTTCTGCGCTTTGATGGCGGTAATGACATCAACCGGCGtt > 1:89342/1‑69 (MQ=255)
ccaccGAGCTGACCCGCCGCAACCTGGGCGTTCTGCGCTTTGATGGCGGTAATGACATCAACCGGCGtt > 1:366514/1‑69 (MQ=255)
ccaccGAGCTGACCCGCCGCAACCTGGGCGTTCTGCGCTTTGATGGCGGTAATGACATCAACCGGCGtt > 1:3324596/1‑69 (MQ=255)
ccaccGAGCTGACCCGCCGCAACCTGGGCGTTCTGCGCTTTGATGGCGGTAATGACATCAACCGGCGtt > 1:3138870/1‑69 (MQ=255)
ccaccGAGCTGACCCGCCGCAACCTGGGCGTTCTGCGCTTTGATGGCGGTAATGACATCAACCGGCGtt > 1:2531617/1‑69 (MQ=255)
ccaccGAGCTGACCCGCCGCAACCTGGGCGTTCTGCGCTTTGATGGCGGTAATGACATCAACCGGCGtt > 1:216625/1‑69 (MQ=255)
ccaccGAGCTGACCCGCCGCAACCTGGGCGTTCTGCGCTTTGATGGCGGTAATGACATCAACCGGCGtt > 1:1992864/1‑69 (MQ=255)
ccaccGAGCTGACCCGCCGCAACCTGGGCGTTCTGCGCTTTGATGGCGGTAATGACATCAACCGGCGtt > 1:1114657/1‑69 (MQ=255)
ccaccGAGCTGACCCGCCGCAACCTGGGCGTTCTGCGCTTTGATGGCGGTAATGACATCAACCGGCGt > 1:1848539/1‑68 (MQ=255)
ccaccGAGCTGACCCGCCGCAACCTGGGCGTTCTGCGCTTTGATGGCGGTAATGACATCAACCGGCGt > 1:1507303/1‑68 (MQ=255)
ccgccgCAACCTGGGCGTTCTGCGCTTTGATGGCGGTAATGACATCAACCGGCGTTAGCTGGAATTTGt < 1:455265/69‑1 (MQ=255)
ccgccgCAACCTGGGCGTTCTGCGCTTTGATGGCGGTAATGACATCAACCGGCGTTAGCTGGAATTTGt < 1:3401244/69‑1 (MQ=255)
ccgccgCAACCTGGGCGTTCTGCGCTTTGATGGCGGTAATGACATCAACCGGCGTTAGCTGGAATTTGt < 1:1071213/69‑1 (MQ=255)
|
TGAGCAATAATAGAGGCGTTAAGCTGTTGGCCTTTCACCGGCGGCGTACCACCGAGCTGACCCGCCGCAACCTGGGCGTTCTGCGCTTTGATGGCGGTAATGACATCAACCGGCGTTAGCTGGAATTTGT > minE/312163‑312292
|
| 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
