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 |
|
A5 F17 I0 R2
|
162 |
60.6 |
4616657 |
98.5% |
4547407 |
62.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
4,027,859 |
A→G |
20.0% |
L232L (TTG→CTG) |
yhhT ← |
predicted inner membrane protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,027,859 | 0 | A | G | 20.0%
| 60.0
/ 11.7
| 30 | L232L (TTG→CTG) | yhhT | predicted inner membrane protein |
| Reads supporting (aligned to +/- strand): ref base A (10/14); new base G (4/2); total (14/16) |
| Fisher's exact test for biased strand distribution p-value = 3.78e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.83e-01 |
ACAGCAGCACCTGAATCATTGGCGGTACGGCGGAAATTACCGCGCCGATATTGGGCACGTAGTTGAGCAAAAACGCCAGTACTGCCCACATCAGCGCAAACTGCACCCCCATCAGCTCCAGCCCCAGCCAGACGATGACA > W3110S.gb/4027790‑4027929
|
aCAGCAGCACCTGAATCATTGGCGGTACGGCGGAAATTACCGCGCCGATATTGGGCACGTAGTTGAGCaaa < 1:697009/71‑1 (MQ=255)
aCAGCAGCACCTGAATCATTGGCGGTACGGCGGAAATTACCGCGCCGATATTGGGCACGTAGTTGAGCaaa < 1:4236110/71‑1 (MQ=255)
aCAGCAGCACCTGAATCATTGGCGGTACGGCGGAAATTACCGCGCCGATATTGGGCACGTAGTTGAGCaaa < 1:4200481/71‑1 (MQ=255)
aCAGCAGCACCTGAATCATTGGCGGTACGGCGGAAATTACCGCGCCGATATTGGGCACGTAGTTGAGCaa > 1:1872572/1‑70 (MQ=255)
aCAGCAGCACCTGAATCATTGGCGGTACGGCGGAAATTACCGCGCCGATATTGGGCACGTAGTTGAGCaa > 1:3259429/1‑70 (MQ=255)
gcagcaCCTGAATCATTGGCGGTACGGCGGAAATTACCGCGCCGATATTGGGCACGTAGTTGAGCAAAAAc < 1:305931/71‑1 (MQ=255)
agcaCCTGAATCATTGGCGGTACGGCGGAAATTACCGCGCCGATATTGGGCACGTAGTTGAGCAAAAACGc < 1:2683627/71‑1 (MQ=255)
agcaCCTGAATCATTGGCGGTACGGCGGAAATTACCGCGCCGATATTGGGCACGTAGTTGAGCAAAAACGc < 1:3217222/71‑1 (MQ=255)
ccTGAATCATTGGCGGTACGGCGGAAATTACCGCGCCGATATTGGGCACGTAGTTGAGCAAAAACGCCAg > 1:1383434/1‑70 (MQ=255)
gAATCATTGGCGGTACGGCGGAAATTACCGCGCCGATATTGGGCACGTAGTTGAGCAAAAACGCCAGTACt > 1:1724691/1‑71 (MQ=255)
aTCATTGGCGGTACGGCGGAAATTACCGCGCCGATATTGGGCACGTAGTTGAGCAAAAACGCCAGt < 1:1951011/66‑1 (MQ=255)
gCGGTACGGCGGAAATTACCGCGCCGATATTGGGCACGTAGTTGAGCAAAAACGCCAGTACTGCCCACATc < 1:2155699/71‑1 (MQ=255)
gCGGTACGGCGGAAATTACCGCGCCGATATTGGGCACGTAGTTGAGCAAAAACGCCAGTACTGCCCACATc < 1:243602/71‑1 (MQ=255)
cggcggAAATTACCGCGCCGATATTGGGCACGTAGTTGAGCAAAAACGCCAg > 1:1413769/1‑52 (MQ=255)
ggcggAAATTACCGCGCCGATATTGGGCACGTAGTTGAGCAAAAACGCCAGTACTGCCCACATCAGCGCaa < 1:2667752/71‑1 (MQ=255)
gcggAAATTACCGCGCCGATATTGGGCACGTAGTTGAGCaa < 1:3809793/41‑1 (MQ=255)
cggAAATTACCGCGCCGATATTGGGCACGTAGTTGAGCAAAAACGCCAGTACTGCCCACATCAGCGCAAAc > 1:2550605/1‑71 (MQ=255)
gAAATTACCGCGCCGATATTGGGCACGTAGTTGAGCAAAAACGCCa > 1:2003386/1‑46 (MQ=255)
aaaTTACCGCGCCGATATTGGGCACGTAGTTGAGCAGAAACGCCAGTACTGCCCACATCAGCGCAAACTg > 1:1017173/1‑70 (MQ=255)
aTTACCGCGCCGATATTGGGCTCGTAGTTGAGCAAAAACGCCAGTACTGCCCACATCAGCGCAAACTGCAc > 1:2332097/1‑71 (MQ=255)
aTTACCGCGCCGATATTGGGCACGTAGTTGAGCAAAAACGCCAGTACTg > 1:3733914/1‑49 (MQ=255)
tACCGCGCCGATATTGGGCACGTAGTTGAGCAAAAACGCCAGTACTGCCCACATCAGCGCAAACTGCAccc > 1:979584/1‑71 (MQ=255)
aCCGCGCCGATATTGGGCACGTAGTTGAGCAAAAACGCCAGTACTGCCCACATCAGCGCAAACTGCAccc < 1:4542924/70‑1 (MQ=255)
ccGCGCCGATATTGGGCACGTAGTTGAGCAGAAACGCCAGTACTGCCCACATCAGCGCAAACTGCAcccc > 1:352459/1‑70 (MQ=255)
gcgcCGATATTGGGCACGTAGTTGAGCAGAAACGCCAGTACTGCCCACATCAGCGCAAACTGCACCCCCAt < 1:1986081/71‑1 (MQ=255)
cgcCGATATTGGGCACGTAGTTGAGCAAAAACGCCAGTACTGCCCACATCAGCGCAAACTGCACCCCCATc < 1:3942581/71‑1 (MQ=255)
ccGATATTGGGCACGTAGTTGAGCAGAAACGCCAGTACTGCCCACATCAGCGCAAACTGCACCCCCATCAg > 1:3813558/1‑71 (MQ=255)
atatTGGGCACGTAGTTGAGCAAAAACGCCAGTACTGCCCACATCAGTGCAAACTGCACCCCCATCAGCTc < 1:1175079/71‑1 (MQ=255)
aCGTAGTTGAGCAGAAACGCCAGTACTGCCCACATCAGCGCAAACTGCACCCCCATCAGCTccagccccag > 1:2123163/1‑71 (MQ=255)
aCGTAGTTGAGCAAAAACGCCAGTACTGCCCACATCAGCGCAAACTGCACCCCCATCAGCTccagccccag < 1:4431995/71‑1 (MQ=255)
aCGTAGTTGAGCAAAAACGCCAGTACTGCCCACATCAGCGCAAACTGCACCCCAATCAGCt > 1:501837/1‑61 (MQ=255)
aGTTGAGCAAAAACGCCAGTACTGCCCACATCAGCGCAAACTGCACCCCCATCa < 1:2823403/54‑1 (MQ=255)
atGAGCAGAAACGCCAGTACTGCCCACATCAGCGCAAACTGCACCCCCATCAGCTCCAGCCCCAGCCAGAc < 1:1864637/70‑1 (MQ=255)
gAGCAAAAACGCCAGTACTGCCCACATCAGCGCAAACTGCACCCCCATCAGCTCCAGCCCCAGCCAGACg < 1:1264898/70‑1 (MQ=255)
gAGCAAAAACGCCAGTACTGCCCACATCAGCGCAAACTGCACCCCCATCAGCTCCAGCCCCAGCCAGACg < 1:2843928/70‑1 (MQ=255)
gCAAAAACGCCAGTACTGCCCACATCAGCGCAAACTGCACCCCCATCAGCTCCAGCCCCAGCCAGACGAt > 1:4365293/1‑70 (MQ=255)
aaaaaCGCCAGTACTGCCCACATCAGCGCAAACTGCACCCCCATCAGCTCCAGCCCCAGCCAGACGATGac < 1:205071/71‑1 (MQ=255)
aaaaaCGCCAGTACTGCCCACATCAGCGCAAACTGCACCCCCATCAGCTCCAGCCCCAGCCAGACGATGa > 1:2871073/1‑70 (MQ=255)
aaaaCGCCAGTACTGCCCACATCAGCGCAAACTGCa < 1:2458417/36‑1 (MQ=255)
aaaaCGCCAGTACTGCCCACATCAGCGCAAACTGCACCCCCa > 1:1196597/1‑42 (MQ=255)
aaaaCGCCAGTACTGCCCACATCAGCGCAAACTGCACCCCCATCa > 1:3056793/1‑45 (MQ=255)
aaaaCGCCAGTACTGCCCACATCAGCGCAAACTGCACCCCCATCAGCTCCAGCCCCAGCCAGACGATGaca > 1:2094150/1‑71 (MQ=255)
|
ACAGCAGCACCTGAATCATTGGCGGTACGGCGGAAATTACCGCGCCGATATTGGGCACGTAGTTGAGCAAAAACGCCAGTACTGCCCACATCAGCGCAAACTGCACCCCCATCAGCTCCAGCCCCAGCCAGACGATGACA > W3110S.gb/4027790‑4027929
|
| 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
