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 |
|
A6 F1 I0 R1
|
2892 |
75.3 |
5698161 |
66.1% |
3766484 |
59.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
910,898 |
C→A |
24.0% |
T46T (ACC→ACA) ‡ |
ycjV → |
predicted sugar transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 910,898 | 0 | C | A | 24.0%
| 135.0
/ 23.6
| 54 | T46T (ACC→ACA) ‡ | ycjV | predicted sugar transporter subunit |
| Reads supporting (aligned to +/- strand): ref base C (23/18); new base A (5/8); total (28/26) |
| Fisher's exact test for biased strand distribution p-value = 3.46e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.55e-01 |
CAACCTGGAAATTGCCGATAAAGAGTTCATCGTGTTTGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATG > minE/910829‑910964
|
cAACCTGGAAATTGCCGATAAAGAGTTCATCGTGTTTGTCGGCCCGTCGGGCTGCGGTTAGTCGaccacc < 1:1217734/70‑1 (MQ=255)
cAACCTGGAAATTGCCGATAAAGAGTTCATCGTGTTTGTCGGCCCGTCGGGCTGCGGTAAGTCGACCAccc > 1:824059/1‑71 (MQ=255)
aaCCTGGAAATTGCCGATAAAGAGTTCATCGTGTTTGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCt > 1:3805422/1‑71 (MQ=255)
ccTGGAAATTGCCGATAAAGAGTTCATCGTGTTTGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTgc > 1:1101231/1‑71 (MQ=255)
gCCGATAAAGAGTTCATCGTGTTTGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCt > 1:3518709/1‑59 (MQ=255)
aTAAAGAGTTCATCGTGTTTGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCggg > 1:2677742/1‑71 (MQ=255)
aTAAAGAGTTCATCGTGTTTGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCggg < 1:4313803/71‑1 (MQ=255)
tAAAGAGTTCATCGTGTTTGTCGGCCCGTCGGGCTGAGGTAAGTCGACCACCCTGCGCATGATTGCCGGGc > 1:2904991/1‑71 (MQ=255)
aaaGAGTTCATCGTGTTTGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGcc < 1:1423039/66‑1 (MQ=255)
aaaGAGTTCATCGTGTTTGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCgg > 1:3532415/1‑68 (MQ=255)
aaaGAGTTCATCGTGTTTGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCgg > 1:3030204/1‑68 (MQ=255)
aaGAGTTCATCGTGTTTGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCtt < 1:1776606/71‑1 (MQ=255)
aaGAGTTCATCGTGTTTGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCtt < 1:397932/71‑1 (MQ=255)
aaGAGTTCATCGTGTTTGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCtt < 1:5631049/71‑1 (MQ=255)
aaGAGTTCATCGTGTTTGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCt > 1:4948168/1‑70 (MQ=255)
agagTTCATCGTGTTTGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGAtt < 1:4549639/61‑1 (MQ=255)
agagTTCATCGTGTTTGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGAtt < 1:4067487/61‑1 (MQ=255)
agagTTCATCGTGTTTGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGAtt < 1:2217567/61‑1 (MQ=255)
aTCGTGTTTGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGgaga < 1:1087574/70‑1 (MQ=255)
tCGTGTTTGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATc < 1:5374022/71‑1 (MQ=255)
gtgtTTGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAg < 1:4314524/71‑1 (MQ=255)
gtgtTTGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAg > 1:1155616/1‑71 (MQ=255)
gtgtTTGTCGGACCGTCTGGCTGCGGTAAATCGACTTTACTGCGCATGATTGCCGGGCTTGAGACGATCac > 1:888846/1‑70 (MQ=9)
gtTTGTCGGACCGTCTGGCTGCGGTAAATCGACTTTACTGCGCATGATTGCCGGGCTTGAGACGATCac > 1:3636701/1‑68 (MQ=2)
tttGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATg < 1:2215401/45‑1 (MQ=255)
tttGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTgag < 1:3017729/60‑1 (MQ=255)
tttGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTgag < 1:4453641/60‑1 (MQ=255)
tttGTCGGACCGTCTGGCTGCGGTAAATCGACTTTACTGCGCATGATTGCCGGGCTTGAGACGATc < 1:394054/66‑1 (MQ=2)
ttGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAgcgg > 1:404954/1‑70 (MQ=255)
tGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAgcggcg > 1:3345148/1‑71 (MQ=255)
ccGTCTGGCTGCGGTAAATCGACTTTACTGCGCATGATTGCCGGGCTTGAGACGATCACCAGCGGCGACCt > 1:216732/1‑71 (MQ=2)
cGTCTGGCTGCGGTAAATCGACTTTACTGCGCATGATTGCCGGGCTTGAGACGATCACCAGCGGCGACCTg < 1:1656270/71‑1 (MQ=9)
cGTCTGGCTGCGGTAAATCGACTTTACTGCGCATGATTGCCGGGCTTGAGACGATCACCAGCGGCGACCTg < 1:127381/71‑1 (MQ=9)
cGTCTGGCTGCGGTAAATCGACTTTACTGCGCATGATTGCCGGGCTTGAGACGATCACCAGCGGCGACCTg < 1:120551/71‑1 (MQ=9)
tctggCTGCGGTAAATCGACTTTACTGCGCATGATTGCCGGGCTTGAGACGATCACCAGCGGCGACCTGtt < 1:281672/68‑1 (MQ=9)
tCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGtt > 1:5202624/1‑71 (MQ=255)
tCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGtt > 1:4159067/1‑71 (MQ=255)
tggCTGCGGTAAATCGACTTTACTGCGCATGATTGCCGGGCTTGAGACGATCACCAGCGGCGACCTGttca > 1:389365/2‑69 (MQ=16)
gggCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGt > 1:1951081/1‑68 (MQ=255)
gggCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTg < 1:5055415/70‑1 (MQ=255)
gggCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTg > 1:811305/1‑70 (MQ=255)
gggCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGa > 1:1129392/1‑71 (MQ=255)
gggCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGa > 1:2278525/1‑71 (MQ=255)
gCTGCGGTAAATCGACTTTACTGCGCATGATTGCCGGGCTTGAGACGATCACCAGCGGCGACCTGttca < 1:1958908/69‑3 (MQ=16)
cTGCGGTAAATCGACTTTACTGCGCATGATTGCCGGGCTTGAGACGATCACCAGCGGCGACCTGTTCATCg > 1:19106/1‑71 (MQ=255)
tGCGGTAAATCGACTTTACTGCGCATGATTGCCGGGCTTga < 1:3188505/41‑1 (MQ=16)
cGGTAAATCGACTTTACTGCGCATGATTGCCGGGCTTGAGACGATCACCAGCGGCGACCTGTTCATCggt < 1:245155/70‑3 (MQ=255)
ggTAAGTCGACCACCCTGCGCATGATTGCCGGGCtt < 1:4409270/36‑1 (MQ=255)
tAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCa < 1:3368712/71‑1 (MQ=255)
aaGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCa > 1:747362/1‑70 (MQ=255)
aGTCGACCACCCTGCGCATGATTGCCGGGCTTgag > 1:219384/1‑35 (MQ=255)
aGTCGACCACCCTGCGCATGATTGCCGGGCTTgag < 1:3147373/35‑1 (MQ=255)
aGTCGACCACCCTGCGCATGATTGCCGGGCTTgag > 1:3091523/1‑35 (MQ=255)
aGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCaaa > 1:3327204/1‑71 (MQ=255)
gACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACgaa > 1:4028421/1‑71 (MQ=255)
gACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACgaa > 1:1960426/1‑71 (MQ=255)
accaccCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTg < 1:315964/54‑1 (MQ=255)
caccCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACgaatg > 1:2835923/1‑70 (MQ=255)
|
CAACCTGGAAATTGCCGATAAAGAGTTCATCGTGTTTGTCGGCCCGTCGGGCTGCGGTAAGTCGACCACCCTGCGCATGATTGCCGGGCTTGAGGAGATCAGCGGCGGCGATCTGTTGATCGACGGCAAACGAATG > minE/910829‑910964
|
| 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
