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 F28 I1 R1
|
122 |
92.7 |
4382561 |
94.3% |
4132755 |
66.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
minE |
2,279,749 |
Δ1 bp |
coding (633/1101 nt) |
trmA → |
tRNA (uracil‑5‑)‑methyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,279,746 | 0 | A | . | 98.5%
| 271.7
/ ‑1.6
| 65 | coding (630/1101 nt) | trmA | tRNA (uracil‑5‑)‑methyltransferase |
| Reads supporting (aligned to +/- strand): ref base A (0/0); major base . (50/14); minor base C (1/0); total (51/14) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TTACCCAGCCGAACGCGGCGATGAATATTCAGATGCTGGAATGGGCGCTGGACGTAACCAAAGGCTCAAAAGGCGATTTACTGGAGCTGTACTGCGGCAACGGTAACTTTTCATTAGCGCTGGCGCGTAAT > minE/2279679‑2279809
|
ttACCCAGCCGAACGCGGCGATGAATATTCAGATGCTGGAATGGGCGCTGGACGTAACCAAAGGCTCaaag > 1:2563630/1‑70 (MQ=255)
ttACCCAGCCGAACGCGGCGATGAATATTCAGATGCTGGAATGGGCGCTGGACGTAACCAAAGGCTCaaag > 1:4193132/1‑70 (MQ=255)
tACCCAGCCGAACGCGGCGATGAATATTCAGATGCTGGAATGGGCGCTGGACGTAACCAAAGGCTCaaag < 1:527827/70‑2 (MQ=255)
tACCCAGCCGAACGCGGCGATGAATATTCAGATGCTGGAATGGGCGCTGGACGTAACCAAAGGCTCaaag < 1:2898387/70‑2 (MQ=255)
tACCCAGCCGAACGCGGCGATGAATATTCAGATGCTGGAATGGGCGCTGGACGTAACCAAAGGCTCaaag < 1:3930627/70‑2 (MQ=255)
tACCCAGCCGAACGCGGCGATGAATATTCAGATGCTGGAATGGGCGCTGGACGTAACCAAAGGCTCaaag < 1:3000736/70‑2 (MQ=255)
tACCCAGCCGAACGCGGCGATGAATATTCAGATGCTGGAATGGGCGCTGGACGTAACCAAAGGCTCaaag < 1:3607347/70‑2 (MQ=255)
aCCCAGCCGAACGCGGCGATGAATATTCAGATGCTGGAATGGGCGCTGGACGTAACCAAAGGCTCaaag < 1:1705836/69‑2 (MQ=255)
ggcgATGAATATTCAGATGCTGGAATGGGCGCTGGACGTAACCAAAGGCTC‑AAAGGCGATTTACTGGAGCt > 1:324468/1‑71 (MQ=255)
ttCAGATGCTGGAATGGGCGCTGGACGTAACCAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCa < 1:1075938/71‑1 (MQ=255)
ttCAGATGCTGGAATGGGCGCTGGACGTAACCAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCa < 1:2237136/71‑1 (MQ=255)
ttCAGATGCTGGAATGGGCGCTGGACGTAACCAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCa < 1:4278080/71‑1 (MQ=255)
ttCAGATGCTGGAATGGGCGCTGGACGTAACCAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCa < 1:1666248/71‑1 (MQ=255)
aTGGGCGCTGGACGTAACCAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCAAc > 1:602801/1‑60 (MQ=255)
aTGGGCGCTGGACGTAACCAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCAACGGTAACtttt > 1:2403187/1‑70 (MQ=255)
aTGGGCGCTGGACGTAACCAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCAACGGTAACtttt > 1:316493/1‑70 (MQ=255)
aTGGGCGCTGGACGTAACCAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCAACGGTAACtttt > 1:3543723/1‑70 (MQ=255)
aTGGGCGCTGGACGTAACCAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCAACGGTAACtttt > 1:3715283/1‑70 (MQ=255)
aTGGGCGCTGGACGTAACCAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCAACGGTAACtttt > 1:391726/1‑70 (MQ=255)
aTGGGCGCTGGACGTAACCAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCAACGGTAACtttt > 1:4261446/1‑70 (MQ=255)
aTGGGCGCTGGACGTAACCAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCAACGGTAACtttt > 1:428613/1‑70 (MQ=255)
aTGGGCGCTGGACGTAACCAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCAACGGTAACtttt > 1:740334/1‑70 (MQ=255)
aTGGGCGCTGGACGTAACCAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCAACGGTAACtttt > 1:80027/1‑70 (MQ=255)
aTGGGCGCTGGACGTAACCAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCAACGGTAACtttt > 1:1204639/1‑70 (MQ=255)
aTGGGCGCTGGACGTAACCAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCAACGGTAACtttt > 1:2055585/1‑70 (MQ=255)
aTGGGCGCTGGACGTAACCAAAGGCAC‑AAAGCCGATTTACTGGAGCTGTACTGCGGCAACGCTAACtttt > 1:597341/1‑70 (MQ=255)
aTGGGCGCTGGACGTAACCAAAGGC‑CCAAAGGCGATTTACTGGAGCTGTACTGCGGCAACGGTAACtttt > 1:85388/1‑70 (MQ=255)
aTGGGCGCTGGACGTAACAAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCAACGGTAACtttt > 1:2839047/1‑70 (MQ=255)
aTGGGCGCCGGACGTAACCAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCAACGGTAACtttt > 1:2059903/1‑70 (MQ=255)
gcgcTGGACGTAACCAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCAACGGTAACTTTTCAt > 1:1227092/1‑69 (MQ=255)
gcgcTGGACGTAACCAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCAACGGTAACTTTTCAt > 1:3090464/1‑69 (MQ=255)
gcgcTGGACGTAACCAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCAACGGTAACTTTTCAt > 1:2974113/1‑69 (MQ=255)
gcgcTGGACGTAACCAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCAACGGTAACTTTTCAt > 1:1311569/1‑69 (MQ=255)
gcgcTGGACGTAACCAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCAACGGTAACTTTTCAt > 1:124988/1‑69 (MQ=255)
cgcTGGACGTAACCAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCAACGGTAACTTTTCATTa > 1:4138578/1‑70 (MQ=255)
cgcTGGACGTAACCAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCAACGGTAACTTTTCATTAg > 1:2775622/1‑71 (MQ=255)
aCGTAACCAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCAACGGTAACTTTTCATTAGCGCTgg < 1:3238782/71‑1 (MQ=255)
aCGTAACCAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCAACGGTAACTTTTCATTAGCGCTgg < 1:3602396/71‑1 (MQ=255)
aCGTAACCAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCAACGGTAACTTTTCATTAGCGCTgg < 1:3308723/71‑1 (MQ=255)
aCGTAACCAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCAACGGTAACTTTTCATTAGCGCTgg < 1:1305167/71‑1 (MQ=255)
aCGTAACCAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCAACGGTAACTTTTCATTAGCGCTgg < 1:3249769/71‑1 (MQ=255)
aCGTAACCAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCAACGGTAACTTTTCATTAGCGCTgg < 1:575947/71‑1 (MQ=255)
aCGTAACCAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCAACGGTAACTTTTCATTAGCGCTgg < 1:1147524/71‑1 (MQ=255)
aCGTAACCAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCAACGGTAACTTTTCATTAGCGCTgg < 1:2255784/71‑1 (MQ=255)
ccAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCAACGGTAACTTTTCATTAGCGCTGgcgc > 1:662045/1‑68 (MQ=255)
ccAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCAACGGTAACTTTTCATTAGCGCTGgcgc > 1:3730732/1‑68 (MQ=255)
ccAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCAACGGTAACTTTTCATTAGCGCTGGcgcg > 1:1221354/1‑69 (MQ=255)
ccAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCAACGGTAACTTTTCATTAGCGCTGGcgcg > 1:1121769/1‑69 (MQ=255)
ccAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCAACGGTAACTTTTCATTAGCGCTGGCGCGt > 1:2470584/1‑70 (MQ=255)
ccAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCAACGGTAACTTTTCATTAGCGCTGGCGCGt > 1:1184551/1‑70 (MQ=255)
ccAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCAACGGTAACTTTTCATTAGCGCTGGCGCGt > 1:1212956/1‑70 (MQ=255)
ccAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCAACGGTAACTTTTCATTAGCGCTGGCGCGt > 1:709093/1‑70 (MQ=255)
ccAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCAACGGTAACTTTTCATTAGCGCTGGCGCGt > 1:3921071/1‑70 (MQ=255)
ccAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCAACGGTAACTTTTCATTAGCGCTGGCGCGt > 1:885347/1‑70 (MQ=255)
ccAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCAACGGTAACTTTTCATTAGCGCTGGCGCGt > 1:154837/1‑70 (MQ=255)
ccAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCAACGGTAACTTTTCATTAGCGCTGGCGCGt > 1:2505992/1‑70 (MQ=255)
ccAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCAACGGTAACTTTTCATTAGCGCTGGCGCGt > 1:3378791/1‑70 (MQ=255)
ccAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCAACGGTAACTTTTCATTAGCGCTGGCGCGt > 1:3288708/1‑70 (MQ=255)
ccAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCAACGGTAACTTTTCATTAGCGCTGGCGCGt > 1:2691055/1‑70 (MQ=255)
ccAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCAACGGTAACTTTTCATTAGCGCTGGCGCGt > 1:3086543/1‑70 (MQ=255)
ccAAAGACTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCAACGGTAACTTTTCATTAGCGCTGGCGCGt > 1:3721/1‑70 (MQ=255)
cAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCAACGGTAACTTTTCATTAGCGCTGGCGCGTaa > 1:2364198/1‑71 (MQ=255)
cAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCAACGGTAACTTTTCATTAGCGCTGGCGCGTaa > 1:3894711/1‑71 (MQ=255)
cAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCAACGGTAACTTTTCATTAGCGCTGGCGCGTaa > 1:86637/1‑71 (MQ=255)
cAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCAACGGTAACTTTTCATTAGCGCTGGCGCGTaa > 1:2635917/1‑71 (MQ=255)
cAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCAACGGTAACTTTTCATTAGCGCTGGCGCGTaa > 1:1159697/1‑71 (MQ=255)
cAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCAACGGTAACTTTTCATTAGCGCTGGCGCGTaa > 1:1061676/1‑71 (MQ=255)
cAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCAACGGTAACTTTTCATTAGCGCTGGCGCGTaa > 1:3220731/1‑71 (MQ=255)
cAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCAACGGTAACTTTTCATTAGCGCTGGCGCGTaa > 1:3503936/1‑71 (MQ=255)
cAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCAACGGTAACTTTTCATTAGCGCTGGCGCGTaa > 1:4243374/1‑71 (MQ=255)
cAAAGGCTC‑AAAGGCGATTTACTGGAGCTGTACTGCGGCAACGGTAACTTTTCATTAGCGCTGGCGCGTaa > 1:3610765/1‑71 (MQ=255)
aaaGGCTC‑AAAGGCGATTTACTGGAGCTGGACTGCGGCAACGGTAACTTTTCATTAGCGCTGGCGCGTAAt < 1:2232793/71‑1 (MQ=255)
aaaGGCTC‑AAAGGCGATTTACTGGAGCTGCACTGCGGCAACGGTAACTTTTCATTAGCGCTGGCGCGTAAt < 1:2227862/71‑1 (MQ=255)
|
TTACCCAGCCGAACGCGGCGATGAATATTCAGATGCTGGAATGGGCGCTGGACGTAACCAAAGGCTCAAAAGGCGATTTACTGGAGCTGTACTGCGGCAACGGTAACTTTTCATTAGCGCTGGCGCGTAAT > minE/2279679‑2279809
|
| 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
