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 |
|
A6 F21 I0 R2
|
370 |
72.1 |
3738297 |
91.5% |
3420541 |
62.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,512,108 |
C→T |
39.7% |
C141Y (TGC→TAC) |
yicE ← |
predicted transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,512,108 | 0 | C | T | 39.7%
| 45.4
/ 77.3
| 68 | C141Y (TGC→TAC) | yicE | predicted transporter |
| Reads supporting (aligned to +/- strand): ref base C (15/26); new base T (16/11); total (31/37) |
| Fisher's exact test for biased strand distribution p-value = 8.43e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.82e-01 |
AACGCCAGAAACCAGCGGCGTAATAATGCGGCGCGCCAGATGCAGAACGCGGGAGATCACCATCTCGGTGCAACTTGCCAGCATCAACGTGCCGAACAAAGCCGCCATCATGGTAGGAACATCAGCACCACCGGTTTTC > minE/2512038‑2512176
|
aaCGCCAGAAACCAGCGGCGTAATAATGCGGCGCGCCAGATGCAGAACGCGGGAGATCACCATCTCGGTGc < 1:3246047/71‑1 (MQ=255)
aCGCCAGAAACCAGCGGCGTAATAATGCGGCGCGCCAGATGCAGAACGCGGGAGATCACCATCTCGGTGc > 1:1108289/1‑70 (MQ=255)
aCGCCAGAAACCAGCGGCGTAATAATGCGGCGCGCCAGATGCAGAACGCGGGAGATCACCATCTCGGTGc > 1:74167/1‑70 (MQ=255)
gCCAGAAACCAGCGGCGTAATAATGCGGCGCGCCAGATGCAGAACGCGGGAGATCACCATCTCGGTGCAAc > 1:2974357/1‑71 (MQ=255)
cAGAAACCAGCGGCGTAATAATGCGGCGCGCCAGATGCAGAACGCGGGAGATCACCATCTCGGTGTaa > 1:1229338/1‑68 (MQ=255)
gAAACCAGCGGCGTAATAATGCGGCGCGCCAGATGCAGAACGCGGGAGATCACCATCTCGGTGCAACTTGc > 1:363675/1‑71 (MQ=255)
gAAACCAGCGGCGTAATAATGCGGCGCGCCAGATGCAGAACGCGGGAGATCACCATCTCGGTGCAACTTGc > 1:1771338/1‑71 (MQ=255)
gAAACCAGCGGCGTAATAATGCGGCGCGCCAGATGCAGAACGCGGGAGATCACCATCTCGGTGCAACTTGc > 1:2003533/1‑71 (MQ=255)
aaaCCAGTGGCGTAATAATGCGGCGCGCCAGATGCAGAACGCGGGAGATCACCATCTCGGTGCAACTTGc < 1:2936444/70‑1 (MQ=255)
aaaCCAGCGGCGTAATAATGCGGCGCGCCAGATGCAGAACGCGGGAGATCACCATCTCGGTGTAACTTGcc < 1:1061977/71‑1 (MQ=255)
aaaCCAGCGGCGTAATAATGCGGCGCGCCAGATGCAGAACGCGGGAGATCACCATCTCGGTGTAACTTGc > 1:253129/1‑70 (MQ=255)
aaaCCAGCGGCGTAATAATGCGGCGCGCCAGATGCAGAACGCGGGAGATCACCATCTCGGTGTAACTTGc > 1:3695876/1‑70 (MQ=255)
aaaCCAGCGGCGTAATAATGCGGCGCGCCAGATGCAGAACGCGGGAGATCACCATCTCGGTGTAACTTGc > 1:1474897/1‑70 (MQ=255)
aCCAGCGGCGTAATAATGCGGCGCGCCAGATGCAGAACGCGGGAGATCACCATCTCGGTGTAACTTGCCa > 1:2386317/1‑70 (MQ=255)
ccAGCGGCGTAATAATGCGGCGCGCCAGATGCAGAACGCGGGAGATCACCATCTCGGTGCATCTTGCCAGc < 1:489650/71‑1 (MQ=255)
ccAGCGGCGTAATAATGCGGCGCGCCAGATGCAGAACGCGGGAGATCACCATCTCGGTGCAACTTGCCAGc < 1:2026056/71‑1 (MQ=255)
ccAGCGGCGTAATAATGCGGCGCGCCAGATGCAGAACGCGGGAGATCACCATCTCGGTGCAACTTGCCAGc < 1:657878/71‑1 (MQ=255)
ccAGCGGCGTAATAATGCGGCGCGCCAGATGCAGAACGCGGGAGATCACCATCTCGGTGCAACTTGCCAGc < 1:3319696/71‑1 (MQ=255)
cAGCGGCGTAATAATGCGGCGCGCCAGATGCAGAACGCGGGAGATCACCATCTCGGTGCAACTTGCCAGCa < 1:2151899/71‑1 (MQ=255)
gcggcgTAATAATGCGGCGCGCCAGATGCAGAACGCGGGAGATCACCATCTCGGTGCAACTTGCCAGCAt > 1:1960688/1‑70 (MQ=255)
ggcgTAATAATGCGGCGCGCCAGATGCAGAACGCGGGAGATCACCATCTCGGTGCaa < 1:393122/57‑1 (MQ=255)
ggcgTAATAATGCGGCGCGCCAGATGCAGAACGCGGGAGATCACCATCTCGGTGCaa < 1:3404920/57‑1 (MQ=255)
ggcgTAATAATGCGGCGCGCCAGATGCAGAACGCGGGAGATCACCATCTCGGTGCaa < 1:3591727/57‑1 (MQ=255)
ggcgTAATAATGCGGCGCGCCAGATGCAGAACGCGGGAGATCACCATCTCGGTGCaa < 1:2438747/57‑1 (MQ=255)
ggcgTAATAATGCGGCGCGCCAGATGCAGAACGCGGGAGATCACCATCTCGGTGCAACTTGCCAGCATCaa > 1:1491129/1‑71 (MQ=255)
cgTAATAATGCGGCGCGCCAGATGCAGAACGCGGGAGATCACCATCTCGGTGCAACt > 1:416772/1‑57 (MQ=255)
gTAATAATGCGGCGCGCCAGATGCAGAACGCGGGAGATCACCATCTCGGTGTAACTTGCCAGCATCAACGt < 1:3397496/71‑1 (MQ=255)
aatGCGGCGCGCCAGATGCAGAACGCGGGAGATCACCATCTCGGTGTAACTTGCCAGCATCAACGTGCCg < 1:266794/70‑1 (MQ=255)
aatGCGGCGCGCCAGATGCAGAACGCGGGAGATCACCATCTCGGTGTAACTTGCCAGCATCAACGTGCCg > 1:346551/1‑70 (MQ=255)
atGCGGCGCGCCAGATTCAGAACGCGGGAGATCACCATCTCGGTGCAACTTGCCAGCATCAACGTGCCGa < 1:2840941/70‑1 (MQ=255)
atGCGGCGCGCCAGATGCAGAACGCGGGAGATCACCATCTCGGTGCAACTTGCCAGCATCAACGTGCCGa < 1:1356626/70‑1 (MQ=255)
atGCGGCGCGCCAGATGCAGAACGCGGGAGATCACCATCTCGGTGCAACTTGCCAGCATCAACGTGCCGa < 1:2112655/70‑1 (MQ=255)
atGCGGCGCGCCAGATGCAGAACGCGGGAGATCACCATCTCGGTGCAACTTGCCAGCATCAACGTGCCGa < 1:2595439/70‑1 (MQ=255)
atGCGGCGCGCCAGATGCAGAACGCGGGAGATCACCATCTCGGTGCAACTTGCCAGCATCAACGTGCCGa < 1:3522615/70‑1 (MQ=255)
cggcgCGCCAGATGCAGAACGCGGGAGATCACCATCTCGGTGTAACTTGCCAGCATCAACGTGCCGAACaa < 1:2346587/71‑1 (MQ=255)
cggcgCGCCAGATGCAGAACGCGGGAGATCACCATCTCGGTGCAACTTGCCAGCATCa < 1:2292695/58‑1 (MQ=255)
gcCAGATGCAGAACGCGGGAGATCACCATCTCGGTGTAACTTGCCAGCATCAACGTGCCGAACAAAgccgc > 1:2699452/1‑71 (MQ=255)
aGATGCAGAACGCGGGAGATCACCATCTCGGTGTAACTTGCCAGCATCAACGTGCCGAACAAAGCCGCcat > 1:258933/1‑71 (MQ=255)
aGATGCAGAACGCGGGAGATCACCATCTCGGTGTAACTTGCCAGCATCAACGTGCCGAACAAAGCCGCcat > 1:2496987/1‑71 (MQ=255)
gATGCAGAACGCGGGAGATCACCATCTCGGTGTAACTTGCCAGCATCAACGTGCCGAACAAAGCCGCcatc < 1:933810/71‑1 (MQ=255)
gATGCAGAACGCGGGAGATCACCATCTCGGTGCAACTTGCCAGCATCAACGTGCCGAACAAAgccgc < 1:1197027/67‑1 (MQ=255)
cAGAACGCGGGAGATCACCATCTCGGTGCAACTTGCCAGCATCAACGTGCCGAACAAAGCCGCCATCATgg < 1:1771392/71‑1 (MQ=255)
gAACGCGGGAGATCACCATCTCGGTGTAACTTGCCAGCATCAACGTGCCGAACaaa < 1:3504434/56‑1 (MQ=255)
gAACGCGGGAGATCACCATCTCGGTGTAACTTGACAGCATCAACGTGCCGAACaaa < 1:2289580/56‑1 (MQ=255)
gAACGCGGGAGATCACCATCTCGGGGTAACTTGCCAGCATCAACGTGCCGAACaaa < 1:612277/56‑1 (MQ=255)
aaCGCGGGAGATCACCATCTCGGTGTAACTTGCCAGCATCAACGTGCCGAACAAAGCCGCcat > 1:2996541/1‑63 (MQ=255)
aaCGCGGGAGATCACCATCTCGGTGTAACTTGCCAGCATCAACGTGCCGAACAAAGCCGCcat > 1:3117430/1‑63 (MQ=255)
aaCGCGGGAGATCACCATCTCGGTGTAACTTGCCAGCATCAACGTGCCGAACAAAGCCGCcat > 1:3262882/1‑63 (MQ=255)
aCGCGGGAGATCACCATCTCGGTGCAACTTGCCAGCATCAACGTGCCGAACAAAGCCGCCATCATGGTAgg < 1:2701290/71‑1 (MQ=255)
cgcgGGAGATCACCATCTCGGTGTAACTTGCCAGCATCAACGTGCCGAACAAAGCCGCcatca > 1:2137474/1‑63 (MQ=255)
cgcgGGAGATCACCATCTCGGTGTAACTTGCCAGCATCAACGTGCCGAACAAAGCCGCCATCATGGTAgg > 1:1767894/1‑70 (MQ=255)
ggAGATCACCATCTCGGTGTAACTTGCCAGCATAAACGTg > 1:3531696/1‑40 (MQ=255)
tCACCATCTCGGTGTAACTTGCCAGCATCAACGTGCCGAACAAAGCCGCcatc < 1:1899887/53‑1 (MQ=255)
cATCTCGGTGCAACTTGCCAGCATCAACGTGCCGACCAAAgc > 1:825331/1‑42 (MQ=255)
cATCTCGGTGCAACTTGCCAGCATCAACGTGCCGAACAAAGCCGCCATCATGGTAg > 1:1205060/1‑56 (MQ=255)
cATCTCGGTGCAACTTGCCAGCATCAACGTGCCGAACAAAGCCGCCATCATGGTAGGAACATCAGcaccac > 1:2780329/1‑71 (MQ=255)
cATCTCGGTGCAACTTGCCAGCATCAACGTGCCGAACAAAGCCGCCATCATGGTAGGAACATCAGcaccac > 1:2567001/1‑71 (MQ=255)
cATCTCGGTGCAACTTGCCAGCATCAACGTGCCGAACAAAGCCGCCATCATGGTAGGAACATCAGcaccac < 1:1814471/71‑1 (MQ=255)
tctcGGTGTAACTTGCCAGCATCAACGTGCCGAACAAAGCCGCCATCATGGTAGGAACATCAGCACCACCg > 1:3167434/1‑71 (MQ=255)
ctcGGTGTAACTTGCCAGCATCAACGTGCCGAACAAAGCCGCCATCATGGTAGGAACATCAGcacc < 1:3288235/66‑1 (MQ=255)
ctcGGTGTAACTTGCCAGCATCAACGTGCCGAACAAAGCCGCCATCATGGTAGGAACATCAGcacc < 1:2692212/66‑1 (MQ=255)
cGGTGCAACTTGCCAGCATCAACGTGCCGAACAAAGCCGCCATCATGGTAGGAACATCAGCACCACCGGtt > 1:2529168/1‑71 (MQ=255)
ggTGCAACTTGCCAGCATCAACGTGCCGAACAAAGCCGCCATCATGGTAGGAACATCAGCACCACCgg < 1:212002/68‑1 (MQ=255)
gtgtAACTTGCCAGCATCAACGTGCCGAACAAAGCCGCCATCATGGTAGGAACATCAGCACCACCGGtttt > 1:643980/1‑71 (MQ=255)
gTGCAACTTGCCAGCATCAACGTGCCGAACAAAGCCGCCATCATGGTa < 1:2966047/48‑1 (MQ=255)
gTGCAACTTGCCAGCATCAACGTGCCGAACAAAGCCGCCATCATGGTa < 1:3439206/48‑1 (MQ=255)
gTGCAACTTGCCAGCATCAACGTGCCGAACAAAGCCGCCATCATGGTAGGAACATCAGCACCACCGGtttt < 1:3393568/71‑1 (MQ=255)
gTGCAACTTGCCAGCATCAACGTGCCGAACAAAGCCGCCATCATGGTAGGAACATCAGCACCACCGGtttt < 1:3208060/71‑1 (MQ=255)
tGCAACTTGCCAGCATCAACGTGCCGAACAAAGCCGCCATCATGGTa > 1:141141/1‑47 (MQ=255)
tGCAACTTGCCAGCATCAACGTGCCGAACAAAGCCGCCATCATGGTAGGAACATCAGCACCACCGGtttt > 1:531630/1‑70 (MQ=255)
tGCAACTTGCCAGCATCAACGTGCCGAACAAAGCCGCCATCATGGTAGGAACATCAGCACCACCGGTTTTc < 1:3722379/71‑1 (MQ=255)
gCAACTTGCCAGCATCAACGTGCCGAACAAAGCCGCCATCATGGTAGGAACATCAGCACCACCGGtttt > 1:784385/1‑69 (MQ=255)
cAACTTGCCAGCATCAACGTGCCGAACAAAGCCGCCATCATGGTAgg > 1:997877/1‑47 (MQ=255)
|
AACGCCAGAAACCAGCGGCGTAATAATGCGGCGCGCCAGATGCAGAACGCGGGAGATCACCATCTCGGTGCAACTTGCCAGCATCAACGTGCCGAACAAAGCCGCCATCATGGTAGGAACATCAGCACCACCGGTTTTC > minE/2512038‑2512176
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
