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 F17 I0 R2
|
276 |
45.3 |
3729697 |
93.0% |
3468618 |
60.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,588,010 |
T→G |
61.5% |
D64A (GAC→GCC) |
ydeP ← |
predicted oxidoreductase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,588,010 | 0 | T | G | 61.5%
| 65.5
/ 32.8
| 44 | D64A (GAC→GCC) | ydeP | predicted oxidoreductase |
| Reads supporting (aligned to +/- strand): ref base T (8/9); new base G (20/7); total (28/16) |
| Fisher's exact test for biased strand distribution p-value = 1.08e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AAAGAGGCGTTTACCTGCTTATCCGTGACTTCCCAGGCGATTGCTTTTGCGCCGTTTTCACAAATGTCGAATGACGCACTGTGCTTAGGATCTGGCCATGCACAACCCGGACAGTCAAAGCCCTCTGGCTTA > W3110S.gb/1587944‑1588075
|
aaagaGGCGTTTACCTGCTTATCCGTGACTTCCCAGGCGATTGCTTTTGCGCCGTTTTCACAAATGTCg < 1:972464/69‑1 (MQ=255)
aaagaGGCGTTTACCTGCTTATCCGTGACTTCCCAGGCGATTGCTTTTGCGCCGTTTTCACAAATGTCg < 1:1792554/69‑1 (MQ=255)
gagGCGTTTACCTGCTTATCCGTGACTTCCCAGGCGATTGCTTTTGCGCCGTTTTCACAAATGTCGAAt < 1:1694467/69‑1 (MQ=255)
gagGCGTTTACCTGCTTATCCGTGACTTCCCAGGCGATTGCTTTTGCGCCGTTTTCACAAATGTCGAAt < 1:1549631/69‑1 (MQ=255)
gagGCGTTTACCTGCTTATCCGTGACTTCCCAGGCGATTGCTTTTGCGCCGTTTTCACAAATGTCGAAt < 1:155610/69‑1 (MQ=255)
tACCTGCTTATCCGTGACTTCCCAGGCGATTTCTTTTGCGCCGTTTTCACAAATGGCg < 1:3554129/58‑1 (MQ=255)
tACCTGCTTATCCGTGACTTCCCAGGCGATTGCTTTTGCGCCGTTTTCACAAATGTCGAATGACGCACt > 1:2006426/1‑69 (MQ=255)
tACCTGCTTATCCGTGACTTCCCAGGCGATTGCTTTTGCGCCGTTTTCACAAATGGCg > 1:1109298/1‑58 (MQ=255)
tACCTGCTTATCCGTGACTTCCCAGGCGATTGCTTTTGCGCCGTTTTCACAAATGGCg < 1:456885/58‑1 (MQ=255)
cTGCTTATCCGTGACTTCCCAGGCGATTGCTTTTGCGCCGTTTTCACAAATGGCGAATGACGCACtgtg > 1:107941/1‑69 (MQ=255)
cTGCTTATCCGTGACTTCCCAGGCGATTGCTTTTGCGCCGTTTTCACAAATGGCGAATGACGCACtgtg > 1:672714/1‑69 (MQ=255)
cTGCTTATCCGTGACTTCCCAGGCGATTGCTTTTGCGCCGTTTTCACAAATGGCGAATGACGCACtgtg > 1:1268463/1‑69 (MQ=255)
cTGCTTATCCGTGACTTCCCAGGCGATTGCTTTTGCGCCGTTTTCACAAATGGCGAATGACGCACtgtg > 1:1566308/1‑69 (MQ=255)
gCTTATCCGTGACTTCCCAGGTGATTGCTTTTGCGCCGTTTTCACAAATGGCGAATGACGCACt > 1:2753244/1‑64 (MQ=255)
gCTTATCCGTGACTTCCCAGGCGATTGCTTTTGCGCCGTTTTCACAAATGGCGAATGACGCACtgtg > 1:2893020/1‑67 (MQ=255)
gCTTATCCGTGACTTCCCAGGCGATTGCTTTTGCGCCGTTTTCACAAATGGCGAATGACGCACt > 1:443591/1‑64 (MQ=255)
gCTTATCCGTGACTTCCCAGGCGATTGCTTTTGCGCCGTTTTCACAAATGGCGAATGACGCACt > 1:871293/1‑64 (MQ=255)
gCTTATCCGTGACTTCCCAGGCGATTGCTTTTGCGCCGTTTTCACAAATGGCGAATGACGCACt > 1:3365272/1‑64 (MQ=255)
gCTTATCCGTGACTTCCCAGGCGATTGCTTTTGCGCCGTTTTCACAAATGGCGAATGACGCACt > 1:2324615/1‑64 (MQ=255)
tCCGTGACTTCCCAGGCGATTGCTTTTGCGCCGTTTTCACAAATGGCGAATGACGCACTGTGCTTAGGa > 1:657219/1‑69 (MQ=255)
ccGTGACTTCCCAGGCGATTGCTTTTGCGCCGTTTTCACAAATGGCGAATGACGCACTGTGCTTAGGa < 1:3670046/68‑1 (MQ=255)
ccGTGACTTCCCAGGCGATTGCTTTTGCGCCGTTTTCACAAATGGCGAATGACGCACTGTGCTTAGGa < 1:1241320/68‑1 (MQ=255)
cGTGACTTCCCAGGCGATTGCTTTTGCGCCGTTTTCACAAATGGCGAATGACGCACTGTGCTTAGGa < 1:503348/67‑1 (MQ=255)
cGTGACTTCCCAGGCGATTGCTTTTGCGCCGTTTTCACAAATGGCGAATGACGCACTGTGCTTAGGATc > 1:2164812/1‑69 (MQ=255)
aCTTCCGAGGCGATTGCTTTTGCGCCGTTTTCACAAATGTCg < 1:2179089/42‑1 (MQ=255)
aCTTCCCAGGCGATTGCTTTTGCGCCGTTTTCACAAATGTCGAATGACGCACTGTGCTTAGGATCTGGc < 1:1342995/69‑1 (MQ=255)
ggCGATTGCTTTTGCGCCGTTTTCACAAATGGCGAATGACg > 1:273607/1‑41 (MQ=255)
ggCGATTGCTTTTGCGCCGTTTTCACAAATGGCGAATGACg > 1:3439138/1‑41 (MQ=255)
gCGATTGCTTTTGCGCCGTTTTGACAAATGGCGAATGACGCACTGTGCTTAGGATCTGGCCATGCACaa > 1:2828708/1‑69 (MQ=255)
gCGATTGCTTTTGCGCCGTTTTCACAAATGGCGAATGACGCACTGTGCTTAGGATCTGGCCATGCACaa > 1:1319902/1‑69 (MQ=255)
gCGATTGCTTTTGCGCCGTTTTCACAAATGGCGAATGACGCACTGTGCTTAGGATCTGGCCATGCACaa > 1:703538/1‑69 (MQ=255)
gATTGCTTTTGCGCCGTTTTCACAAATGTCGAATGACGCACTGTGCTTAgg > 1:2646755/1‑51 (MQ=255)
gATTGCTTTTGCGCCGTTTTCACAAATGTCGAATGACGCACTGTGCTTAgg > 1:2186905/1‑51 (MQ=255)
gATTGCTTTTGCGCCGTTTTCACAAATGTCGAATGACGCACTGTGCTTAgg > 1:2544457/1‑51 (MQ=255)
tGCTTTTGCGCCGTTTTCACAAATGGCGAATGACGCACTGTGCt > 1:1974198/1‑44 (MQ=255)
gCTTTTGCGCCGTTTTCACAAATGTCGAATGACGCAc > 1:2665131/1‑37 (MQ=255)
gcgcCGTTTTCACAAATGGCGAATGACGCACTGTGCTTAGGATCTGGCCATGCACAACCCGGACAGTc < 1:2975752/68‑1 (MQ=255)
cgcCGTTTTCACAAATGTCGAATGACGCACTGTGCTTAGGATCTGGCGATGCACAACCCGGACAGTCa < 1:2693043/68‑1 (MQ=255)
ttttCACAAATGGCGAATGACGCACTGTGCTTAGGATCTGGCCATGCACAACCCGGACAGTCAAAGccc < 1:1122153/69‑1 (MQ=255)
ttCACAAATGTCGAATGACGCACTGTGCTTAGGATCTGGCCATg > 1:2768837/1‑44 (MQ=255)
tCACAAATGGCGAATGACGCACTGTGCTTAGGATCTGGCCATGCACAACCCGGACAGTCAAAGCCctct > 1:3124197/1‑69 (MQ=255)
aaaTGTCGAATGACGCACTGTGCTTAGGATCTGGCCATGCACAACCCGGACAGTCAAAGCCCTCTGGCt < 1:401369/69‑1 (MQ=255)
aTGTCGAATGACGCACTGTGCTTAGGATCTGGCCATGCACAACCCGGACAGTCAAAGCCCTCTGGCTTa > 1:1669392/1‑69 (MQ=255)
aTGTCGAAAGACGCACTGTGCTTAGGATCTGGCCATGCACAACCCGGACAGTCAAAGCCCTCTGGCTTa > 1:1888016/1‑69 (MQ=255)
|
AAAGAGGCGTTTACCTGCTTATCCGTGACTTCCCAGGCGATTGCTTTTGCGCCGTTTTCACAAATGTCGAATGACGCACTGTGCTTAGGATCTGGCCATGCACAACCCGGACAGTCAAAGCCCTCTGGCTTA > W3110S.gb/1587944‑1588075
|
| 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
