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 F3 I0 R2
|
260 |
44.3 |
3360226 |
90.5% |
3041004 |
64.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,701,087 |
A→G |
100% |
A103A (GCT→GCC) |
rbsC ← |
D‑ribose transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,701,087 | 0 | A | G | 78.3%
| 42.1
/ 8.0
| 23 | A103A (GCT→GCC) | rbsC | D‑ribose transporter subunit |
| Reads supporting (aligned to +/- strand): ref base A (5/0); new base G (18/0); total (23/0) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.79e-01 |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
CTACAATCACCCCGGTTACCGCACCAATTGCGGCACCTAACGCGAGAGCAGCAGCGACAGCCACCAGCGCATTGACTTCAATGCCGACGATAGATGCAGCAACTGCGCCGGTCAGCGCC > W3110S.gb/3701038‑3701156
|
cTACAATCACCCCAGTTACCGCACCAATTGCGGCACCTAACGCGAGAGCGGCAGCGACAGCCACCAGCGCa > 1:2413786/1‑71 (MQ=255)
cTACAATCACCCCAGTTACCGCACCAATTGCGGCACCTAACGCGAGAGCGGCAGCGACAGCCACCAGCGCa > 1:61834/1‑71 (MQ=255)
cTACAATCACCCCAGTTACCGCACCAATTGCGGCACCTAACGCGAGAGCGGCAGCGACAGCCACCAGCGCa > 1:3314813/1‑71 (MQ=255)
cTACAATCACCCCAGTTACCGCACCAATTGCGGCACCTAACGCGAGAGCGGCAGCGACAGCCACCAGCGCa > 1:3218271/1‑71 (MQ=255)
cTACAATCACCCCAGTTACCGCACCAATTGCGGCACCTAACGCGAGAGCGGCAGCGACAGCCACCAGCGCa > 1:291153/1‑71 (MQ=255)
cTACAATCACCCCAGTTACCGCACCAATTGCGGCACCTAACGCGAGAGCGGCAGCGACAGCCACCAGCGCa > 1:2803528/1‑71 (MQ=255)
cTACAATCACCCCAGTTACCGCACCAATTGCGGCACCTAACGCGAGAGCGGCAGCGACAGCCACCAGCGCa > 1:2765680/1‑71 (MQ=255)
cTACAATCACCCCAGTTACCGCACCAATTGCGGCACCTAACGCGAGAGCGGCAGCGACAGCCACCAGCGCa > 1:256980/1‑71 (MQ=255)
cTACAATCACCCCAGTTACCGCACCAATTGCGGCACCTAACGCGAGAGCGGCAGCGACAGCCACCAGCGCa > 1:2407201/1‑71 (MQ=255)
cTACAATCACCCCAGTTACCGCACCAATTGCGGCACCTAACGCGAGAGCGGCAGCGACAGCCACCAGCGCa > 1:2373502/1‑71 (MQ=255)
cTACAATCACCCCAGTTACCGCACCAATTGCGGCACCTAACGCGAGAGCGGCAGCGACAGCCACCAGCGCa > 1:209019/1‑71 (MQ=255)
cTACAATCACCCCAGTTACCGCACCAATTGCGGCACCTAACGCGAGAGCGGCAGCGACAGCCACCAGCGCa > 1:2010968/1‑71 (MQ=255)
cTACAATCACCCCAGTTACCGCACCAATTGCGGCACCTAACGCGAGAGCGGCAGCGACAGCCACCAGCGCa > 1:1965692/1‑71 (MQ=255)
cTACAATCACCCCAGTTACCGCACCAATTGCGGCACCTAACGCGAGAGCGGCAGCGACAGCCACCAGCGCa > 1:1824329/1‑71 (MQ=255)
cTACAATCACCCCAGTTACCGCACCAATTGCGGCACCTAACGCGAGAGCGGCAGCGACAGCCACCAGCGCa > 1:1558327/1‑71 (MQ=255)
cTACAATCACCCCAGTTACCGCACCAATTGCGGCACCTAACGCGAGAGCGGCAGCGACAGCCACCAGCGCa > 1:1381651/1‑71 (MQ=255)
cTACAATCACCCCAGTTACCGCACCAATTGCGGCACCTAACGCGAGAGCGGCAGCGACAGCCACCAGCGCa > 1:1264256/1‑71 (MQ=255)
cTACAATCACCCCAGTTACCGCACCAATTGCAGCACCTAACGCGAGAGCGGCAGCGACAGCCACCAGCGCa > 1:1264507/1‑71 (MQ=255)
tACCGCACCAATTGCGGCACCTAACGCGAGAGCAGCAGCGACAGCCACCAGCGCATTGACTTCaa > 1:1101727/1‑65 (MQ=255)
tACCGCACCAATTGCGGCACCTAACGCGAGAGCAGCAGCGACAGCCACCAGCGCATTGACTTCAATg > 1:2728393/1‑67 (MQ=255)
tACCGCACCAATTGCGGCACCTAACGCGAGAGCAGCAGCGACAGCCACCAGCGCATTGACTTCAATg > 1:2825738/1‑67 (MQ=255)
tACCGCACCAATTGCGGCACCTAACGCGAGAGCAGCAGCGACAGCCACCAGCGCATTGACTTCAATg > 1:1310256/1‑67 (MQ=255)
tACCGCACCAATTGCGGCACCTAACGCGAGAGCAGCAGCGACAGCCACCAGCGCATTGACTTCAATg > 1:601516/1‑67 (MQ=255)
cagcagcGACAGCCACCAGCGCATTGACTTCAATGCCGACGATAGATGCAGCAACTGCGCCGGTCAGCGcc < 1:2923525/71‑1 (MQ=255)
|
CTACAATCACCCCGGTTACCGCACCAATTGCGGCACCTAACGCGAGAGCAGCAGCGACAGCCACCAGCGCATTGACTTCAATGCCGACGATAGATGCAGCAACTGCGCCGGTCAGCGCC > W3110S.gb/3701038‑3701156
|
| 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
