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 F21 I0 R1
|
476 |
35.3 |
2812105 |
96.7% |
2719305 |
61.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,809,581 |
G→A |
9.5% |
G52G (GGG→GGA) |
mprA → |
DNA‑binding transcriptional regulator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,809,581 | 0 | G | A | 9.5%
| 124.2
/ 3.9
| 42 | G52G (GGG→GGA) | mprA | DNA‑binding transcriptional regulator |
| Reads supporting (aligned to +/- strand): ref base G (17/21); new base A (2/2); total (19/23) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.80e-01 |
TGCATGCACATGCAAAGCAAGCTGCTGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGGATTAACGAGACGTTGTTTATGGCGTTGATTACGCTGGAGTCTCAGGAAAACCACAGTATTCAGCCTTCT > W3110S.gb/2809522‑2809650
|
tgcatgcaCATGCAAAGCAAGCTGCTGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGGATTAACga < 1:889141/68‑1 (MQ=255)
tgcatgcaCATGCAAAGCAAGCTGCTGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGGATTAACGAGAc > 1:978156/1‑71 (MQ=255)
tgcacatgcaAAGCAAGCTGCTGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGGATTAAc < 1:1849198/62‑1 (MQ=255)
tgcacatgcaAAGCAAGCTGCTGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGGATTAACGAGACgttg > 1:1508998/1‑71 (MQ=255)
cacatgcaAAGCAAGCTGCTGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGGATTAACGAGACgttgtt > 1:2483012/1‑71 (MQ=255)
cacatgcaAAGCAAGCTGCTGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGAATTAACGAGACgttgtt < 1:1410262/71‑1 (MQ=255)
caAAGCAAGCTGCTGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGGATTaa > 1:1180625/1‑53 (MQ=255)
caAAGCAAGCTGCTGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGGATTAACGAGACGTTGtttt > 1:1071912/1‑66 (MQ=255)
aaaGCAAGCTGCTGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGGATTAACGAGACgttgtt < 1:116335/64‑1 (MQ=255)
agcaagcTGCTGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGGATTAACGAGACGTTGTTTATGGCg < 1:1855787/69‑1 (MQ=255)
gcaagcTGCTGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGGATTAACGAGACGTTGTTTATGGCGtt > 1:656892/1‑70 (MQ=255)
gcaagcTGCTGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGGATTAACGAGACGTTGTTTATGGCGtt < 1:1640339/70‑1 (MQ=255)
aagcTGCTGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGGATTAACGAGACGTTGTTTATGGCGTTGAt < 1:2358806/71‑1 (MQ=255)
ctgctgGAGAACCGCAATAAAATGCTGAAGGCTCAGGGGATTAACGAGACGTTGTTTa > 1:677735/1‑58 (MQ=255)
ctgctgGAGAACCGCAATAAAATGCTGAAGGCTCAGGGGATTAACGAGACGTTGTTTATGGCGTTGAt < 1:424055/68‑1 (MQ=255)
ctgctgGAGAACCGCAATAAAATGCTGAAGGCTCAGGGGATTAACGAGACGTTGTTTATGGCGTTGATTAc < 1:1208681/71‑1 (MQ=255)
ctgctgGAGAACCGCAATAAAATGCTGAAGGCTCAGGGGATTAACGAGACGTTGTTTATGGCGTTGATTAc > 1:411911/1‑71 (MQ=255)
tgctgGAGAACCGCAATAAAATGCTGAAGGCTCAGGGGAtt < 1:1389831/41‑1 (MQ=255)
tgGAGAACCGCAATAAAATGCTGAAGGCTCAGGGGATTAACga < 1:1432046/43‑1 (MQ=255)
gagaACCTCAATAAAATGCTGAAGGCTCAGGGGATTAACGAGACGTTGTTTATGGCGTTGATTACGCTgg < 1:805857/70‑1 (MQ=255)
gagaACCGCAATAAAATGCTGAAGGCTCAGGGGATTAACGAGACGTTGTTTATGGCGTTGATTACGCTgg < 1:905865/70‑1 (MQ=255)
gagaACCGCAATAAAATGCTGAAGGCTCAGGGGATTAACGAGACGTTGTTTATGGCGTTGATTACGCTGGa < 1:443808/71‑1 (MQ=255)
ccGCAATAAAATGCTGAAGGCTCAGGGGATTAACGAGACgttg > 1:1717097/1‑43 (MQ=255)
ccGCAAAAAAATGCTGAAGGCTCAGGGGATTAACGAGACgttg > 1:359971/1‑43 (MQ=255)
gCAATAAAATGCTGAAGGCTCAGGGGATTAACGAGACGTTGTTTATGGCGTTGATTACGc > 1:1965389/1‑60 (MQ=255)
gCAATAAAATGCTGAAGGCTCAGGGGATTAACGAGACGTTGTTTATGGCGTTGATTACGc > 1:265895/1‑60 (MQ=255)
gCAATAAAATGCTGAAGGCTCAGGGGATTAACGAGACGTTGTTTATGGCGTTGATTACGc > 1:292908/1‑60 (MQ=255)
aTAAAATGCTGAAGGCTCAGGGGATTAACGAGACGTTGTTTATGGCGTTGATTACGCTGGa < 1:675067/61‑1 (MQ=255)
aTAAAATGCTGAAGGCTCAGGGGATTAACGAGACGTTGTTTATGGCGTTGATTACGCTGGAGTCTCAGGaa < 1:625038/71‑1 (MQ=255)
aTAAAATGCTGAAGGCTCAGGGGATTAACGAGACGTTGTTTATGGCGTTGATTACGCTGGAGTCTCAGGaa < 1:621648/71‑1 (MQ=255)
tAAAATGCTGAAGGCTCAGGGGATTAACGAGACGTTGTTTa < 1:1192477/41‑1 (MQ=255)
tAAAATGCTGAAGGCTCAGGGAATTAACGAGACgttgtt < 1:2772854/39‑1 (MQ=255)
aaaTGCTGAAGGCTCAGGGGATTAACGAGACGTTGTTTATGGCGTTGATTACGCTGGAGTCTCAGGAAAAc > 1:1352589/1‑71 (MQ=255)
aaaTGCTGAAGGCTCAGGGGATTAACGAGACGTTGTTTATGGCGTTGATTACGCTGGAGTCTCAGGAAAAc > 1:210438/1‑71 (MQ=255)
aaaTGCTGAAGGCTCAGGGGATTAACGAGACGTTGTTTATGGCGTTGATTACGCTGGAGTCTCAGGAAAAc > 1:846556/1‑71 (MQ=255)
aaaTGCTGAAGGCTCAGGGAATTAACGAGACGTTGTTTATgg > 1:1579008/1‑42 (MQ=255)
aaaTGCTGAAGGCTCAGGGAATTAACGAGACGTTGTTTATgg > 1:1612102/1‑42 (MQ=255)
gCTGAAGGCTCAGGGGATTAACGAGACGTTGTTTAt > 1:26279/1‑36 (MQ=255)
aaGGCTCAGGGGATTAACGAGACGTTGTTTATGGCGTTGATTACGCTGGAGTCTCAGGAAAACCACAGTa < 1:1856412/70‑1 (MQ=255)
gCTCAGGGGATTAACGAGACGTTGTTTATGGCGtt < 1:2726426/35‑1 (MQ=255)
gCTCAGGGGATTAACGAGACGTTGTTTATGGCGtt < 1:93765/35‑1 (MQ=255)
gCTCAGGGGATTAACGAGACGTTGTTTATGGCGtt < 1:1157653/35‑1 (MQ=255)
tgggATTAACGAGACGTTGTTTATGGCGTTGATTACGCTg < 1:2100964/39‑1 (MQ=255)
ggATTAACGAGACGTTGTTTATGGCGTTGATTACGCTGGAGTCTCAGGAAAACCACAGTATTCAGCCTTCt > 1:1006609/1‑71 (MQ=255)
gATTAACGAGACGTTGTTTATGGCGTTGATTACGCTGGAGTCTCAGGa > 1:989646/1‑48 (MQ=255)
|
TGCATGCACATGCAAAGCAAGCTGCTGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGGATTAACGAGACGTTGTTTATGGCGTTGATTACGCTGGAGTCTCAGGAAAACCACAGTATTCAGCCTTCT > W3110S.gb/2809522‑2809650
|
| 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
