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 F8 I0 R1
|
311 |
50.1 |
4085234 |
95.9% |
3917739 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,449,319 |
A→G |
35.7% |
G671G (GGT→GGC) |
rpoC ← |
RNA polymerase, beta prime subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,449,319 | 0 | A | G | 35.7%
| 20.4
/ 25.8
| 28 | G671G (GGT→GGC) | rpoC | RNA polymerase, beta prime subunit |
| Reads supporting (aligned to +/- strand): ref base A (9/9); new base G (5/5); total (14/14) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.53e-01 |
GATACACGATCGTTCGCCGCAGCCCAGATATCGATAACTTTGTTGTAGCGTTCGCCCGCAGTTACCAGACCAGACTGGAACTGCTCCTGAATTTCAGCAACTTCTGCTTCTGCCTCGGAGATGATTTCGTGTTTC > W3110S.gb/3449251‑3449385
|
gATACACGATCGTTCGCCGCAGCCCAGATATCGATAACTTTGTTGTAGCGTTCGCCCGCAGTTaccagac < 1:3117552/70‑1 (MQ=255)
gATACACGATCGTTCGCCGCAGCCCAGATATCGATAACTTTGTTGTAGCGTTCGCCCGCAGTTaccagac < 1:4029270/70‑1 (MQ=255)
gATACACGATCGTTCGCCGCAGCCCAGATATCGATAACTTTGTTGTAGCGTTCGCCCGCAGTTaccagac < 1:2417672/70‑1 (MQ=255)
gATACACGATCGTTCGCCGCAGCCCAGATATCGATAACTTTGTTGTAGCGTTCGCCCGCAGTTaccagac < 1:2369688/70‑1 (MQ=255)
aTACACGATCGTTCGCCGCAGCCCAGATATCGATAACTTTGTTGTAGCGTTCGCCCGCAGTTaccaggcca < 1:3509271/71‑1 (MQ=255)
aTACACGATCGTTCGCCGCAGCCCAGATATCGATAACTTTGTTGTAGCGTTCGCCCGCAGTTaccaggcca < 1:3891768/71‑1 (MQ=255)
aTACACGATCGTTCGCCGCAGCCCAGATATCGATAACTTTGTTGTAGCGTTCGCCCGCAGTTaccagacca < 1:1182213/71‑1 (MQ=255)
aTACACGATCGTTCGCCGCAGCCCAGATATCGATAACTTTGTTGTAGCGTTCGCCCGCAGTTaccagacca < 1:3616398/71‑1 (MQ=255)
cacGATCGTTCGCCGCAGCCCAGATATCGATAACTTTGTTGTAGCGTTCGCCCGCAGTTAccagaccaga < 1:1751692/70‑1 (MQ=255)
gATCGTTCGCCGCAGCCCAGATATCGATAACTTTGTTGTAGCGTTCGCCCGCAGTTACCAGGCCAGACTgg < 1:3953347/71‑1 (MQ=255)
gATCGTTCGCCGCAGCCCAGATATCGATAACTTTGTTGTAGCGTTCGCCCGCAGTTACCAGACCAGACTgg < 1:347502/71‑1 (MQ=255)
gATCGTTCGCCGCAGCCCAGATATCGATAACTTTGTTGTAGCGTTCGCCCGCAGTTACCAGACCAGACTgg < 1:3938052/71‑1 (MQ=255)
gATCGTTCGCCGCAGCCCAGATATCGATAACTTTGTTGTAGCGTTCGCCCGCAGTTACCAGACCAGACTgg < 1:1488937/71‑1 (MQ=255)
gATCGTTCGCCGCAGCCCAGATATCGATAACTTTGTTGTAGCGTTCGCCCGCAGTTACCAGACCAGACTgg < 1:2040320/71‑1 (MQ=255)
cGTTCGCCGCAGCCCAGATATCGATAACTTTGTTGTAGCGTTCGCCCGCAGTTACCAGACCAGACTGGAAc > 1:1868180/1‑71 (MQ=255)
cGTTCGCCGCAGCCCAGATATCGATAACTTTGTTGTAGCGTTCGCCCGCAGTTACCAGACCAGACTGGAAc > 1:3222532/1‑71 (MQ=255)
cGTTCGCCGCAGCCCAGATATCGATAACTTTGTTGTAGCGTTCGCCCGCAGTTACCAGACCAGACTGGAAc > 1:3971353/1‑71 (MQ=255)
cgccgcAGCCCAGATATCGATAACTTTGTTGTAGCGTTCGCCCGCAGTTAccagaccaga > 1:2386164/1‑60 (MQ=255)
cgccgcAGCCCAGATATCGATAACTTTGTTGTAGCGTTCGCCCGCAGTTACCAGGCCAGACTGGAACTGCt > 1:3687437/1‑71 (MQ=255)
cgccgcAGCCCAGATATCGATAACTTTGTTGTAGCGTTCGCCCGCAGTTACCAGGCCAGACTGGAACTGCt > 1:3674838/1‑71 (MQ=255)
cAGCCCAGATATCGATAACTTTGTTGTAGCGTTCGCCCGCAGTTACCAGGCCAGACTGGAACTGCTCCTGa < 1:2585574/71‑1 (MQ=255)
cAGCCCAGATATCGATAACTTTGTTGTAGCGTTCGCCCGCAGTTACCAGGCCAGACTGGAACTGCTCCTGa < 1:998081/71‑1 (MQ=255)
cAGCCCAGATATCGATAACTTTGTTGTAGCGTTCGCCCGCAGTTACCAGGCCAGACTGGAACTGCTCCTGa < 1:3040611/71‑1 (MQ=255)
cAGCCCAGATATCGATAACTTTGTTGTAGCGTTCGCCCGCAGTTACCAGGCCAGACTGGAACTGCTCCTGa < 1:1846461/71‑1 (MQ=255)
tatCGATAACTTTGTTGTAGCGTTCGCCCGCAGTTACCAGACCAGACTGGAACTGCTCCTGAATTTCAGc > 1:3641740/1‑70 (MQ=255)
tatCGATAACTTTGTTGTAGCGTTCGCCCGCAGTTACCAGACCAGACTGGAACTGCTCCTGAATTTCAGc > 1:587005/1‑70 (MQ=255)
tatCGATAACTTTGTTGTAGCGTTCGCCCGCAGTTACCAGACCAGACTGGAACTGCTCCTGAATTTCAGCa < 1:1633398/71‑1 (MQ=255)
atCGATAACTTTGTTGTAGCGTTCGCCCGCAGTTAccagaccaga > 1:579943/1‑45 (MQ=255)
atCGATAACTTTGTTGTAGCGTTCGCCCGCAGTTACCAGACCAGACTGGAACTGCTCCTGAATTTCAGCaa > 1:1223363/1‑71 (MQ=255)
gATAACTTTGTTGTAGCGTTCGCCCGCAGTTACCAGGCCAGACTGGAACTGCTCCTGAATTTCAGCAActt > 1:3633140/1‑71 (MQ=255)
cTTTGTTGTAGCGTTCGCCCGCAGTTACCAGACCAGACTGGAACTGCTCCTGAATTTCAGCAActtctgct < 1:289192/71‑1 (MQ=255)
tttGTTGTAGCGTTCGCCCGCAGTTACCAGGCCAGACTGGAACTGCTCCTGAATTTCAGCaa > 1:1813902/1‑62 (MQ=255)
ttgttgTAGCGTTCGCCCGCAGTTACCAGACCAGACTGGAACTGCTCCTGAATTTCAGCAActtctgcttc > 1:3637196/1‑71 (MQ=255)
tgttgtAGCGTTCGCCCGCAGTTACCAGGCCAGACTGGAACTGCTCCTGAATTTCAGCAAc > 1:3026628/1‑61 (MQ=255)
tAGCGTTCGCCCGCAGTTACCAGACCAGACTGGAACTGCTCCTGAATTTCAGCAACTTCTGCTTCTGCCt < 1:1593159/70‑1 (MQ=255)
cGCCCGCAGTTACCAGACCAGACTGGAACTGCTCCTGAATTTCAGCAACTTCTGCTTCTGCCTCGga > 1:3548816/1‑67 (MQ=255)
gTTACCAGACCAGACTGGAACTGCTCCTGAATTTCAGCAACTTCTGCTTCTGCCTCg < 1:2997850/57‑1 (MQ=255)
ttACCAGACCAGACTGGAACTGCTCCTGAATTTCAGCAACTTCTGCTTCTGCCTCGGAGATGATTTCgtgt < 1:2915905/71‑1 (MQ=255)
tACCAGACCAGACTGGAACTGCTCCTGAATTTCAGCAActtctgctt > 1:83047/1‑47 (MQ=255)
accaggccagACTGGAACTGCTCCTGAATTTCAGCAACTTCTGCTTCTGCCTCGGAGATGATTTCGTGtt < 1:2774611/70‑1 (MQ=255)
accaggccagACTGGAACTGCTCCTGAATTTCAGCAACTTCTGCTTCTGCCTCGGAGATGATTTCGTGtt < 1:1742794/70‑1 (MQ=255)
accaggacagACTGGAACTGCTCCTGAATTTCAGCAActt > 1:1768190/1‑40 (MQ=38)
accagaccagACTGGAACTGCTCCTGAATTTCAGCAACTTCTGCTTCTGCCTCGGAGATGATTTCGTGttt > 1:245887/1‑71 (MQ=255)
accagaccagACTGGAACTGCTCCTGAATTTCAGCAACTTCTGCTTCTGCCTCGGAGATGATTTCGTGttt > 1:684726/1‑71 (MQ=255)
accagaccagACTGGAACTGCTCCTGAATTTCAGCAACTTCTGCTTCTGCCTCGGAGATGATTTCGTGtt < 1:2774310/70‑1 (MQ=255)
accagaccagACTGGAACTGCTCCTGAATTTCAGCAACTTCTGCTTCTGCCTCGGAGATGATTTCGTGtt < 1:574375/70‑1 (MQ=255)
ccagaccagaCTGGAACTGCTCCTGAATTTCAGCAACTTCTGCTTCTGCCTCGGAGATGATTTCGTGTttc < 1:2569899/71‑1 (MQ=255)
ccagaccagaCTGGAACTGCTCCTGAATTTCAGCAACTTCTGCTTCTGCCTCGGAGATGATTTCGTGTttc < 1:1605155/71‑1 (MQ=255)
|
GATACACGATCGTTCGCCGCAGCCCAGATATCGATAACTTTGTTGTAGCGTTCGCCCGCAGTTACCAGACCAGACTGGAACTGCTCCTGAATTTCAGCAACTTCTGCTTCTGCCTCGGAGATGATTTCGTGTTTC > W3110S.gb/3449251‑3449385
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
