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 |
4,354,061 |
C→T |
24.6% |
G218G (GGG→GGA) |
dcuR ← |
DNA‑binding response regulator in two‑component regulatory system with DcuS |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,354,061 | 0 | C | T | 24.6%
| 114.0
/ 35.2
| 61 | G218G (GGG→GGA) | dcuR | DNA‑binding response regulator in two‑component regulatory system with DcuS |
| Reads supporting (aligned to +/- strand): ref base C (20/26); new base T (7/8); total (27/34) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ATTGGCAATATTGTTTCAGTAGTGAGTAGTGTTCTGCCTGAATACGGTAACGGTAAACTGGACGCCCCGTGACGCCATAATGGATACTGGTGAACAAGATGTGGCAGTTGACCAGCCAGATGAGGTATTTA > W3110S.gb/4353997‑4354127
|
aTTGGCAATATTGTTTCAGTAGTGAGTAGTGTTCTGCCTGAATACGGTAACGGTAAACTGGACGCCCCGt < 1:2402788/70‑1 (MQ=255)
aTTGGCAATATTGTTTCAGTAGTGAGTAGTGTTCTGCCTGAATACGGTAACGGTAAACTGGACGCCCCGt < 1:2804789/70‑1 (MQ=255)
tGGCAATATTGTTTCAGTAGTGAGTAGTGTTCTGCCTGAATACGGTAACGGTAAACTGGACGTCCCGTGa < 1:663008/70‑1 (MQ=255)
tGGCAATATTGTTTCAGTAGTGAGTAGTGTTCTGCCTGAATACGGTAACGGTAAACTGGACGTCCCGTGAc > 1:750925/1‑71 (MQ=255)
tatTGTTTCAGTAGTGAGTAGTGTTCTGCCTGAATACGGTAACGGTAAACTGGACGCCCCGt < 1:4012506/62‑1 (MQ=255)
atTGTTTCAGTAGTGAGTAGTGTTCTGCCTGAATACGGTAACGGTAAACTGGACGCCCCGTGACGCCATaa > 1:1082426/1‑71 (MQ=255)
atTGTTTCAGTAGTGAGTAGTGTTCTGCCTGAATACGGTAACGGTAAACTGGACGCCCCGTGACGCCATaa > 1:1012847/1‑71 (MQ=255)
atTGTTACAGTAGTGAGTAGTGTTCTGCCTGAATACGGTAACGGTAAACTGGACGCCCCGTGACGCCAtga > 1:524997/1‑69 (MQ=255)
ttGTTTCAGTAGTGAGTAGTGTTCTGCCTGAATACGGTAACGGTAAACTGGACGCCCCGTGACGCCATAAt > 1:1587165/1‑71 (MQ=255)
gTTTCAGTAGTGAGTAGTGTTCTGCCTGAATACGGTAACGGTAAACTGGACGCCCCGTGACGCCATAATg > 1:3745922/1‑70 (MQ=255)
tttCAGTAGTGAGTAGTGTTCTGCCTGAATACGGTAACGGTAAACTGGACGTCCCGTGACGCCATAATGGa < 1:3971928/71‑1 (MQ=255)
ttCAGTAGTGAGTAGTGTTCTGCCTGAATACGGTAACGGTAAACTGGACGCCCCGTGACGCCATAATGGa < 1:3970384/70‑1 (MQ=255)
tCAGTAGTGAGTAGTGTTCTGCCTGAATACGGTAACGGTAAACTGGACGCCCCGTGACGCCATAATGGAt < 1:4052377/70‑1 (MQ=255)
agtagtgagtagtgTTCTGCCTGAATACGGTAACGGTAAACTGGACGCCCCGTGACGCCATAATGGATACt < 1:740287/71‑1 (MQ=255)
gtgagtagtgTTCTGCCTGAATACGGTAACGGTAAACTGGACGCCCCGTGACGCCATAATGGATACTGGt > 1:2544896/1‑70 (MQ=255)
gtgagtagtgTTCTGCCTGAATACGGTAACGGTAAACTGGACGCCCCGTGACGCCATAATGGATACTGGt > 1:2253625/1‑70 (MQ=255)
tgagtagtgTTCTGCCTGAATACGGTAACGGTAAACTGGACGCCCCGTGACGCCAt < 1:2974124/56‑1 (MQ=255)
tgagtagtgTTCTGCCTGAATACGGTAACGGTAAACTGGACGCCCCGTGACGCCAt < 1:1862307/56‑1 (MQ=255)
agtagtgTTCTGCCTGAATACGGTAACGGTAAACTGGACGCCCCGTGACGCCATAATGGATACTGGTGaa > 1:2072656/1‑70 (MQ=255)
tagtgTTCTGCCTGAATACGGTAACGGTAAACTGGACGCCCCGTGACGCCATAATGGATACTGGTGAACaa < 1:2583058/71‑1 (MQ=255)
gtgtTCTGCCTGAATACGGTAACGGTAAACTGGACGCCCCGTGACGCCATAATGGATACTGGTGAACAAg < 1:66804/70‑1 (MQ=255)
tgtTCTGCCTGAATACGGTAAGGGTAAACTGGACGCCCCGTGACGCCAt < 1:2111961/49‑1 (MQ=255)
ttCTGCCTGAATACGGTAACTGTAAACTGGACGCCCCGTGACGCCATAATGGATACTGGTGAACAAGAtgt > 1:1587494/1‑71 (MQ=255)
ttCTGCCTGAATACGGTAACGGTAAACTGGACGTCCCGTGACGCCATAATGGATACTGGTGAACAAGa > 1:425130/1‑68 (MQ=255)
ttCTGCCTGAATACGGTAACGGTAAACTGGACGCCCCGTGACGCCATAATGGATACTGGTGAACaa < 1:1304211/66‑1 (MQ=255)
ttCTGCCTGAATACGGTAACGGTAAACTGGACGCCCCGTGACGCCATAATGGATACTGGTGAACAAGAtgt > 1:3030864/1‑71 (MQ=255)
atCTGCCTGAATACGGTAACGGTAAACTGGACGTCCCGTGACGCCATAATGGATACTGGTGAACAAGa > 1:1119529/2‑68 (MQ=255)
cTGCCTGAATACGGTAACGGTAAACTGGACGCCCCGTGACGCCATAATGGATa > 1:1773974/1‑53 (MQ=255)
cTGCCTGAATACGGTAACGGTAAACTGGACGCCCCGTGACGCCATAATGGATa > 1:2823538/1‑53 (MQ=255)
cTGCCTGAATACGGTAACGGTAAACTGGACGCCCCGTGACGCCATAATGGATa > 1:443453/1‑53 (MQ=255)
tGCCTGAATACGGTAACGGTAAACTGGACGCCCCGt < 1:1870927/36‑1 (MQ=255)
tGCCTGAATACGGTAACGGTAAACTGGACGCCCCGTGACGCCAt < 1:599014/44‑1 (MQ=255)
gCCTGAATACGGTAACGGTAAACTGGACGCCCCGTGAAGCCATAATGGATACTGGTGAACAAGATGTgg > 1:3434368/1‑69 (MQ=255)
cTGAATACGGTAACGGTAAACTGGACGCCCCGTGACGCCATAATg < 1:426098/45‑1 (MQ=255)
taaTACGGTAACGGTAAACTGGACGCCCCGTGACGCCAt < 1:2271770/38‑1 (MQ=255)
gAATACGGTAACGGTAAACTGGACGCCCCGTGACGCCATAATGGa > 1:543522/1‑45 (MQ=255)
aaTACGGTAACGGTAAACTGGACGTCCCGTGACGCCATAATGGATACTGGTGAACAAGATGTGGCAGtt < 1:619085/69‑1 (MQ=255)
aaTACGGTAACGGTAAACTGGACGCCCCGTGACGCCAt < 1:1179409/38‑1 (MQ=255)
aTACGGTAACGGTAAACTGGACGTCCCGTGACGCCATAATGGATACTGGTGAACAAGATGTGGCAGTTGa < 1:3737938/70‑1 (MQ=255)
aTACGGTAACGGTAAACTGGACGTCCCGTGACGCCATAATGGATACTGGTGAACAAGATGTGGCAGTTGAc < 1:1114119/71‑1 (MQ=255)
tACGGTAACGGTAAACTGGACGCCCCGTGACGCCATAATGGATACTGGTGAACAAg < 1:618192/56‑1 (MQ=255)
tACGGTAACGGTAAACTGGACGCCCCGTGACGCCATAATGGATACTGGTGAACAAg < 1:581810/56‑1 (MQ=255)
cggtaacggtaaACTGGACGCCCCGTGACGCCATAATGGATACTGGTGAACAAGATGTGGCAGTTGAccag > 1:385942/1‑71 (MQ=255)
ggtaacggtaaACTGGACGTCCCGTGACGCCATAATGGATACTGGTGAACAAGATGTGGCAGTTGAccagc > 1:3174016/1‑71 (MQ=255)
ggtaacggtaaACTGGACGCCCCGTGACGCCATAATGGATACTGGTGAACAAGATGTGGCAGTTGAccagc < 1:3433783/71‑1 (MQ=255)
gtaacggtaaACTGGACGCCCCGTGACGCCATAATGGATACTGGTGAACAAGATGTGGCAGTTGAccagc < 1:1078931/70‑1 (MQ=255)
gtaacggtaaACTGGACGCCCCGTGACGCCATAATGGATACTGGTGAACAAGATGTGGCAGTTGAccagc > 1:1358491/1‑70 (MQ=255)
gtaacggtaaACTGGACGCCCCGTGACGCCATAATGGATACTGGTGAACAAGATGTGGCAGTTGAccagc > 1:1363297/1‑70 (MQ=255)
taacggtaaACTGGACGTCCCGTGACGCCATAATGGATACTGGTGAACAAGATGTGGCAGTTGAccagcca < 1:3997180/71‑1 (MQ=255)
aacggtaaACTGGACGCCCCGTGACGCCATAATGGa > 1:4077479/1‑36 (MQ=255)
acggtaaACTGGACGTCCCGTGACGCCATAATGGATACTGGTGAACAAGATGTGGCAGTTGAc > 1:2536742/1‑63 (MQ=255)
ggtaaACTGGACGCCCCGTGACGCCATAATGGATACTGGTGAACAAGATGTGGCAGTTGACCAGCCAGAt > 1:1514323/1‑70 (MQ=255)
gtaaACTGGACGTCCCGTGACGCCATAATGGATACTGGTGAACAAGATGTGGCAGTTGAc < 1:2570200/60‑1 (MQ=255)
aaaCTGGACGCCCCGTGACGCCATAATGGATACTGGTGAACAAGAtg < 1:1364988/47‑1 (MQ=255)
aCTGGACGCCCCGTGACGCCATAATGGATACTGGTGAACAAGATGTGGCAGTTGACCAGCCAGATGAGGTa < 1:2431071/71‑1 (MQ=255)
gACGTCCCGTGACGCCATAATGGATACTGGTGAACAAGATGTGGCAGTTGACCAGCCAGATGAGGTAtt < 1:1178893/69‑1 (MQ=255)
gACGTCCCGTGACGCCATAATGGATACTGGTGAACAAGATGTGGCAGTTGACCAGCCAGATGAGGTATTTa > 1:3163715/1‑71 (MQ=255)
gACGTCACGTGACGCCATAATGGATACTGGTGAACAAGATGTGGCAGTTGACCAGCCAGATGAGGTATTTa > 1:3417910/1‑71 (MQ=255)
gACGCCCCGTGACGCCATAATGGATACTGGTGAACAAGATGTGGCAGTTGACCAGCCAGATGAGGTAtt < 1:414579/69‑1 (MQ=255)
gACGCCCCGTGACGCCATAATGGATACTGGTGAACAAGATGTGGCAGTTGACCAGCCAGATGAGGTAtt < 1:4008872/69‑1 (MQ=255)
gACGCCCCGTGACGCCATAATGGATACTGGTGAACAAGATGTGGCAGTTGACCAGCCAGATGAGGTAtt < 1:2102045/69‑1 (MQ=255)
|
ATTGGCAATATTGTTTCAGTAGTGAGTAGTGTTCTGCCTGAATACGGTAACGGTAAACTGGACGCCCCGTGACGCCATAATGGATACTGGTGAACAAGATGTGGCAGTTGACCAGCCAGATGAGGTATTTA > W3110S.gb/4353997‑4354127
|
| 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
