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 F8 I0 R2
|
296 |
77.6 |
4260404 |
88.1% |
3753415 |
61.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,240,151 |
A→G |
60.0% |
L27P (CTG→CCG) |
zwf ← |
glucose‑6‑phosphate dehydrogenase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,240,151 | 0 | A | G | 60.0%
| 27.6
/ 44.3
| 40 | L27P (CTG→CCG) | zwf | glucose‑6‑phosphate dehydrogenase |
| Reads supporting (aligned to +/- strand): ref base A (9/7); new base G (9/15); total (18/22) |
| Fisher's exact test for biased strand distribution p-value = 3.35e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.28e-01 |
GCCGATAATCCGGGTGTCCGGGTTGAGCTGACCGGCTTTTTCCAGTTGATACAGGGAAGGCAGCAATTTACGACGCGCAAGGTCGCCTTTCGCGCCGAAAATGACCAGGTCACAGGCCTGGGCT > minE/1240090‑1240213
|
gCCGATAATCCGGGTGTCCGGGTTGAGCTGACCGGCTTTTTCCAGTTGATACAGGGAAGGCAGCAATTTac > 1:2664964/1‑71 (MQ=255)
aTAATCCGGGTGTCCGGGTTGAGCTGACCGGCTTTTTCCAGTTGATACAGGGAAGGCGGCaa < 1:609451/62‑1 (MQ=255)
cGGGTGTCCGGGTTGAGCTGACCGGCTTTTTCCAGTTGATACAGGGAAGGCGGCAATTTACGACGCGCaa < 1:3361263/70‑1 (MQ=255)
cGGGTGTCCGGGTTGAGCTGACCGGCTTTTTCCAGTTGATACAGGGAAGGCGGCAATTTACGACGCGCAAg < 1:3177677/71‑1 (MQ=255)
tgtCCGGGTTGAGCTGACCGGCTTTTTCCAGTTGATACAGGGAAGGCGGCAATTTACGACGCGCAAGGTCg > 1:201824/1‑71 (MQ=255)
cGGGTTGAGCTGACCGGCTTTTTCCAGTTGATACAGGGAAGGCAGCAATTTACGACGCGCAAGGTCGCCtt < 1:484222/71‑1 (MQ=255)
cGGGTTGAGCTGACCGGCTTTTTCCAGTTGATACAGGGAAGGCAGCAATTTACGACGCGCAAGGTCGCCtt < 1:1321015/71‑1 (MQ=255)
ttGAGCTGACCGGCTTTTTCCAGTTGATACAGGGAAGGCGGCAATTTACGACGCGCAAGGTCGCCTTTcgc < 1:1249525/71‑1 (MQ=255)
cttaCCGGCTGTTTCCAGTTGATACAGGGAAGGCGGCAATTTACGACGCGCAAGGTCGCCTTTCGCGCCGa < 1:423707/68‑1 (MQ=255)
cTGACCGGCTTTTTCCAGTTGATACAGGGAAGGCGGCAATTTACGACGCGCAAGGTCGCCTTTCGCGCCGa < 1:3322385/71‑1 (MQ=255)
aCCGGCTTTTTCCAGTTGATACAGGGAAGGCAGCAATTTACGACGCGCAAGGTCGCCTTTCGCGCCGaa < 1:1968104/69‑1 (MQ=255)
ccGGCTTTTTCCAGTTGATACAGGGAAGGCAGCAATTTACGACGCGCAAGGTCGCCTTTCGCGCCGAAAAt < 1:372472/71‑1 (MQ=255)
ccGGCTTTTTCCAGTTGATACAGGGAAGGCAGCAATTTACGACGCGCAAGGTCGCCTTTCGCGCCGAAAAt < 1:3660781/71‑1 (MQ=255)
cGGCTTTTTCCAGTTGATACAGGGAAGGCAGCAATTTacgacg > 1:1374192/1‑43 (MQ=255)
cGGCTTTTTCCAGTTGATACAGGGAAGGCAGCAATTTACGAcgc > 1:265230/1‑44 (MQ=255)
cGGCTTTTTCCAGTTGATACAGGGAAGGCAGCAATTTACGAcgc > 1:1273810/1‑44 (MQ=255)
cGGCTTTTTCCAGTTGATACAGGGAAGGCAGCAATTTACGAcgc > 1:3034050/1‑44 (MQ=255)
cGGCTTTTTCCAGTTGATACAGGGAAGGCAGCAATTTACGAcgc > 1:3397137/1‑44 (MQ=255)
cGGCTTTTTCCAGTTGATACAGGGAAGGCAGCAATTTACGAcgc > 1:3444556/1‑44 (MQ=255)
cTTTTTCCAGTTGATACAGGGAAGGCAGCAATTTACGACGCGCAAGGTCGCCTTTCGCGCCGAAAATGAcc < 1:671866/71‑1 (MQ=255)
ttGATACAGGGAAGGCAGCAATTTACGACGCGCAAg < 1:1358523/36‑1 (MQ=255)
tGATACAGGGAAGGCAGCAATTTACGACGCGCAAGGTCGCCTTTCGCGCCGAAAATGACCAGGTCACAGGc > 1:4172802/1‑71 (MQ=255)
gATACAGGGAAGGCGGCAATTTACGACGCGCAAGGTCGCCTTTCGCGCCGAAAATGACCAGGTCACAGGcc > 1:1825779/1‑71 (MQ=255)
gATACAGGGAAGGCGGCAATTTACGACGCGCAAGGTCGCCTTTCGCGCCGAAAATGACCAGGTCACAGGcc > 1:1162994/1‑71 (MQ=255)
gATACAGGGAAGGCGGCAATTTACGACGCGCAAGGTCGCCTTTCGCGCCGAAAATGACCAGGTCACAGGc > 1:4209281/1‑70 (MQ=255)
gATACAGGGAAGGCGGCAATTTACGACGCGCAAGGTCGCCTTTCGCGCCGAAAATGACCAGGTCACAGGc > 1:4159573/1‑70 (MQ=255)
tACAGGGAAGGCGGCAATTTACGACGCGCAAGGTCGCCtt < 1:492671/40‑1 (MQ=255)
tACAGGGAAGGCGGCAATTTACGACGCGCAAGGTCGCCtt < 1:4239072/40‑1 (MQ=255)
tACAGGGAAGGCGGCAATTTACGACGCGCAAGGTCGCCtt < 1:426231/40‑1 (MQ=255)
tACAGGGAAGGCGGCAATTTACGACGCGCAAGGTCGCCtt < 1:1114376/40‑1 (MQ=255)
tACAGGGAAGGCGGCAATTTACGACGCGCAAGGTCGCCtt < 1:684492/40‑1 (MQ=255)
tACAGGGAAGGCGGCAATTTACGACGCGCAAGGTCGCCtt < 1:3667473/40‑1 (MQ=255)
tACAGGGAAGGCGGCAATTTACGACGCGCAAGGTCGCCtt < 1:3525574/40‑1 (MQ=255)
tACAGGGAAGGCGGCAATTTACGACGCGCAAGGTCGCCtt < 1:2685120/40‑1 (MQ=255)
tACAGGGAAGGCGGCAATTTACGACGCGCAAGGTCGCCtt < 1:2149425/40‑1 (MQ=255)
cAGGGAAGGCGGCAATTTACGACGCGCAAGGTCGCCTTTCGCGCCGAAAATGACCAg > 1:3976967/1‑57 (MQ=255)
cAGGGAAGGCGGCAATTTACGACGCGCAAGGTCGCCTTTCGCGCCGAAAATGACCAg > 1:3557212/1‑57 (MQ=255)
cAGGGAAGGCGGCAATTTACGACGCGCAAGGTCGCCTTTCGCGCCGAAAATGACCAg > 1:1835577/1‑57 (MQ=255)
cAGGGAAGGCGGCAATTTACGACGCGCAACGTCGCCTTTCGCGCCGAAAATGa > 1:4023795/1‑53 (MQ=255)
gggAAGGCAGCAATTTACGACGCGCAAGGTCGCCTTTCGCGCCGAAAATGACCAGGTCACAGGCCTGGGCt > 1:456138/1‑71 (MQ=255)
gcagcaATTTACGACGCGCAAGGTCGCCTTTCGCGCCGAAAATGACCAGGTca < 1:30645/53‑1 (MQ=255)
gcagcaATTTACGACGCGCAAGGTCGCCTTTCGCGCCGAAAATGACCAGGTca < 1:291051/53‑1 (MQ=255)
gcagcaATTTACGACGCGCAAGGTCGCCTTTCGCGCCGAAAATGACCAGGTca < 1:109832/53‑1 (MQ=255)
cagcaATTTACGACGCGCAAGGTCGCCTTTCGCGCCGAAAATGACCAGGTca < 1:3632872/52‑1 (MQ=255)
cagcaATTTACGACGCACAAGGTCGCCTTTCGCGCCGAAAATGACCAGGTca < 1:795416/52‑1 (MQ=255)
|
GCCGATAATCCGGGTGTCCGGGTTGAGCTGACCGGCTTTTTCCAGTTGATACAGGGAAGGCAGCAATTTACGACGCGCAAGGTCGCCTTTCGCGCCGAAAATGACCAGGTCACAGGCCTGGGCT > minE/1240090‑1240213
|
| 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
