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 |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,305,466 |
C→T |
48.0% |
G124G (GGC→GGT) |
priA → |
primosome factor n' |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,305,466 | 0 | C | T | 48.0%
| 6.8
/ 63.6
| 75 | G124G (GGC→GGT) | priA | primosome factor n' |
| Reads supporting (aligned to +/- strand): ref base C (13/26); new base T (24/12); total (37/38) |
| Fisher's exact test for biased strand distribution p-value = 5.53e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.89e-01 |
ATTTTACTACGCCAGGGGCGGCCTGCGGCGAACGCGCCGATGTGGTACTGGTTTGCCACTGAACAAGGCCAGGCGGTGGATCTGAACAGCCTGAAACGCTCCCCCAAGCAACAACAGGCGCTGGCGGCGTTA > minE/2305398‑2305529
|
aTTTTACTACGCCAGGGGCGGCCTGCGGCGAACGCGCCGATGTGGTACTGGTTTGCCACTGAACAAGGc < 1:35214/69‑1 (MQ=255)
aTTTTACTACGCCAGGGGCGGCCTGCGGCGAACGCGCCGATGTGGTACTGGTTTGCCACTGAACAAGGc < 1:721470/69‑1 (MQ=255)
ttttACTACGCCAGGGGCGGCCTGCGGCGAACGCGCCGATGTGGTACTGGTTTGCCACTGAACAAGGc < 1:2285799/68‑1 (MQ=255)
acGCCAGGGGCGGCCTGCGGCGAACGCGCCGATGTGGTACTGGTTTGCCACTGAACAAGGCCAGGCgg < 1:1001389/68‑1 (MQ=255)
acGCCAGGGGCGGCCTGCGGCGAACGCGCCGATGTGGTACTGGTTTGCCACTGAACAAGGCCAGGCgg < 1:324771/68‑1 (MQ=255)
acGCCAGGGGCGGCCTGCGGCGAACGCGCCGATGTGGTACTGGTTTGCCACTGAACAAGGCCAGGCgg < 1:1267071/68‑1 (MQ=255)
gcggcCTGCGGCGAACGCGCCGATGTGGTACTGGTTTGCCACTGAACAAGGCCAGGCGGTGGATCTg > 1:243788/1‑67 (MQ=255)
gcggcCTGCGGCGAACGCGCCGATGTGGTACTGGTTTGCCACTGAACAAGGCCAGGCGGTGGATCTg > 1:794907/1‑67 (MQ=255)
aaCGCGCCGATGTGGTACTGGTTTGCCACTGAACAAGGCCAGGCGGTGGATCTGAACAGCCTGAAACGc < 1:129840/69‑1 (MQ=255)
aaCGCGCCGATGTGGTACTGGTTTGCCACTGAACAAGGCCAGGCGGTGGATCTGAACAGCCTGAAACGc < 1:1081540/69‑1 (MQ=255)
aaCGCGCCGATGTGGTACTGGTTTGCCACTGAACAAGGCCAGGCGGTGGATCTGAACAGCCTGAAACGc < 1:99896/69‑1 (MQ=255)
aaCGCGCCGATGTGGTACTGGTTTGCCACTGAACAAGGCCAGGCGGTGGATCTGAACAGCCTGAAACGc < 1:2813290/69‑1 (MQ=255)
aaCGCGCCGATGTGGTACTGGTTTGCCACTGAACAAGGCCAGGCGGTGGATCTGAACAGCCTGAAACGc < 1:291548/69‑1 (MQ=255)
aaCGCGCCGATGTGCTACTGGTTTGCCACTGAACAAGGCCAGGCGGTGGATCTGAACAGCCTGAAACGc < 1:3306989/69‑1 (MQ=255)
cgcgCCGATGTGGTACTGGTTTGCCACTGAACAAGGCCAGGCGGTGGATCTGAACAGCCTGAAACGCTc > 1:54350/1‑69 (MQ=255)
cgcgCCGATGTGGTACTGGTTTGCCACTGAACAAGGCCAGGCGGTGGATCTGAACAGCCTGAAACGCTc > 1:2152706/1‑69 (MQ=255)
cgcCGATGTGGTACTGGTTTGCCACTGAACAAGGCCAGGCGGTGGATCTGAACAGCCTGAAACGCTccc < 1:236500/69‑1 (MQ=255)
cgcCGATGTGGTACTGGTTTGCCACTGAACAAGGCCAGGCGGTGGATCTGAACAGCCTGAAACGCTccc < 1:1591218/69‑1 (MQ=255)
cGATGTGGTACTGGTTTGCCACTGAACAAGGTCAGGCGGTGGATCTGAACAGCCTGAAACGTTcgccaa < 1:1697301/69‑3 (MQ=255)
cGATGTGGTACTGGTTTGCCACTGAACAAGGTCAGGCGGTGGATCTGAACAGCCTGAAACGTTcgccaa < 1:2473161/69‑3 (MQ=255)
cGATGTGGTACTGGTTTGCCACTGAACAAGGTCAGGCGGTGGATCTGAACAGCCTGAAACGTTcgccaa < 1:2879354/69‑3 (MQ=255)
cGATGTGGTACTGGTTTGCCACTGAACAAGGTCAGGCGGTGGATCTGAACAGCCTGAAACGTTcgccaa < 1:3158453/69‑3 (MQ=255)
cGATGTGGTACTGGTTTGCCACTGAACAAGGTCAGGCGGTGGATCTGAACAGCCTGAAACGTTcgccaa < 1:1468748/69‑3 (MQ=255)
cGATGTGGTACTGGTTTGCCACTGAACAAGGTCAGGCGGTGGATCTGAACAGCCTGAAACGTTcgccaa < 1:396583/69‑3 (MQ=255)
cGATGTGGTACTGGTTTGCCACTGAACAAGGTCAGGCGGTGGATCTGAACAGCCTGAAACGTTcgccaa < 1:831015/69‑3 (MQ=255)
cGATGTGGTACTGGTTTGCCACTGAACAAGGTCAGGCGGTGGATCTGAACAGCCTGAAACGTTcgccaa < 1:512251/69‑3 (MQ=255)
gATGTGGTACTGGTTTGCCACTGAACAAGGTCAGGCGGTGGATCTGAACAGCCTGAAACGTTcgccaa < 1:3140320/68‑3 (MQ=255)
gATGTGGTACTGGTTTGCCACTGAACAAGGTCAGGCGGTGGATCTGAACAGCCTGAAACGTTcgccaa < 1:2366539/68‑3 (MQ=255)
gATGTGGTACTGGTTTGCCACTGAACAAGGTCAGGCGGTGGATCTGAACAGCCTGAAACGTTcgccaa < 1:1043831/68‑3 (MQ=255)
gATGTGGTACTGGTTTGCCACTGAACAAGGTCAGGCGGTGGATCTGAACAGCCTGAAACGTTcgccaa < 1:1806475/68‑3 (MQ=255)
aCTGGTTTGCCACTGAACAAGGCCAGGCGGTGGATCTGAACAGCCTGAAACGCTCCCCCAAGcaacaa < 1:2313498/68‑1 (MQ=255)
aCTGGTTTGCCACTGAACAAGGCCAGGCGGTGGATCTGAACAGCCTGAAACGCTCCCCCAAGcaacaa < 1:2219779/68‑1 (MQ=255)
aCTGGTTTGCCACTGAACAAGGCCAGGCGGTGGATCTGAACAGCCTGAAACGCTCCCCCAAGcaacaa < 1:3034205/68‑1 (MQ=255)
aCTGGTTTGCCACTGAACAAGGCCAGGCGGTGGATCTGAACAGCCTGAAACGCTCCCCCAAGcaacaa < 1:2825988/68‑1 (MQ=255)
aCTGGTTTGCCACTGAACAAGGCCAGGCGGTGGATCTGAACAGCCTGAAACGCTCCCCCAAGcaacaa < 1:2703262/68‑1 (MQ=255)
cTGGTTTGCCACTGAACAAGGCCAGGCGGTGGATCTGAACAGCCTGAAACGCTCCCCCAAGcaacaa < 1:733986/67‑1 (MQ=255)
cTGGTTTGCCACTGAACAAGGCCAGGCGGTGGATCTGAACAGCCTGAAACGCTCCCCCAAGCAacaaca < 1:121318/69‑1 (MQ=255)
cTGGTTTGCCACTGAACAAGGCCAGGCGGTGGATCTGAACAGCCTGAAACGCTCCCCCAAGCAacaaca < 1:1219121/69‑1 (MQ=255)
cTGGTTTGCCACTGAACAAGGCCAGGCGGTGGATCTGAACAGCCTGAAACGCTCCCCCAAGCAacaaca < 1:1524006/69‑1 (MQ=255)
cTGGTTTGCCACTGAACAAGGCCAGGCGGTGGATCTGAACAGCCTGAAACGCTCCCCCAAGCAacaaca < 1:3208107/69‑1 (MQ=255)
cTGGTTTGCCACTGAACAAGGCCAGGCGGTGGATCTGAACAGCCTGAAACGCTCCCCCAAGCAacaaca < 1:1842277/69‑1 (MQ=255)
gAACAAGGCCAGGCGGTGGATCTGAACAGCCTGAAACGCTCCCCCAAGCAACAACAGGCGCTggcggc > 1:2551743/1‑68 (MQ=255)
gAACAAGGCCAGGCGGTGGATCTGAACAGCCTGAAACGCTCCCCCAAGCAACAACAGGCGCTggcggc > 1:212963/1‑68 (MQ=255)
gAACAAGGCCAGGCGGTGGATCTGAACAGCCTGAAACGCTCCCCCAAGCAACAACAGGCGCTggcggc > 1:345692/1‑68 (MQ=255)
aaCAAGGTCAGGCGGTTGATCTGAACAGCCTGAAACGTTCGCCAAAg > 1:2476852/1‑47 (MQ=21)
aaCAAGGTCAGGCGGTGGATCTGAACAGCCTGAAACGTTCGCCAAAg > 1:1596550/1‑47 (MQ=25)
aaCAAGGTCAGGCGGTGGATCTGAACAGCCTGAAACGTTCGCCAAAg > 1:692515/1‑47 (MQ=25)
aaCAAGGTCAGGCGGTGGATCTGAACAGCCTGAAACGTTCGCCAAAg > 1:668804/1‑47 (MQ=25)
aaCAAGGTCAGGCGGTGGATCTGAACAGCCTGAAACGTTCGCCAAAg > 1:600904/1‑47 (MQ=25)
aaCAAGGTCAGGCGGTGGATCTGAACAGCCTGAAACGTTCGCCAAAg > 1:542623/1‑47 (MQ=25)
aaCAAGGTCAGGCGGTGGATCTGAACAGCCTGAAACGTTCGCCAAAg > 1:47833/1‑47 (MQ=25)
aaCAAGGTCAGGCGGTGGATCTGAACAGCCTGAAACGTTCGCCAAAg > 1:1453608/1‑47 (MQ=25)
aaCAAGGTCAGGCGGTGGATCTGAACAGCCTGAAACGTTCGCCAAAg > 1:1211747/1‑47 (MQ=25)
aaCAAGGTCAGGCGGTGGATCTGAACAGCCTGAAACGTTCGCCAAAg > 1:3429125/1‑47 (MQ=25)
aaCAAGGTCAGGCGGTGGATCTGAACAGCCTGAAACGTTCGCCAAAg > 1:3364186/1‑47 (MQ=25)
aaCAAGGTCAGGCGGTGGATCTGAACAGCCTGAAACGTTCGCCAAAg > 1:912301/1‑47 (MQ=25)
aaCAAGGTCAGGCGGTGGATCTGAACAGCCTGAAACGTTCGCCAAAg > 1:263592/1‑47 (MQ=25)
aaCAAGGTCAGGCGGTGGATCTGAACAGCCTGAAACGTTCGCCAAAg > 1:3213144/1‑47 (MQ=25)
aaCAAGGTCAGGCGGTGGATCTGAACAGCCTGAAACGTTCGCCAAAg > 1:2082664/1‑47 (MQ=25)
aaCAAGGTCAGGCGGTGGATCTGAACAGCCTGAAACGTTCGCCAAAg > 1:2466613/1‑47 (MQ=25)
aaCAAGGTCAGGCGGTGGATCTGAACAGCCTGAAACGTTCGCCAAAg > 1:1187304/1‑47 (MQ=25)
aaCAAGGTCAGGCGGTGGATCTGAACAGCCTGAAACGTTCGCCAAAg > 1:3080796/1‑47 (MQ=25)
aaCAAGGTCAGGCGGTGGATCTGAACAGCCTGAAACGTTCGCCAAAg > 1:2984667/1‑47 (MQ=25)
aaCAAGGTCAGGCGGTGGATCTGAACAGCCTGAAACGTTCGCCAAAg > 1:2975155/1‑47 (MQ=25)
aaCAAGGTCAGGCGGTGGATCTGAACAGCCTGAAACGTTCGCCAAAg > 1:81102/1‑47 (MQ=25)
aaCAAGGTCAGGCGGTGGATCTGAACAGCCTGAAACGTTCGCCAAAg > 1:2515969/1‑47 (MQ=25)
aaCAAGGTCAGGCGGTGGATCTGAACAGCCTGAAACGTTCGCCAAAg > 1:79915/1‑47 (MQ=25)
aaCAAGGTCAGGCGGTGGATCTGAACAGCCTGAAACGTTCGCCAAAg > 1:1879833/1‑47 (MQ=25)
aaCAAGGCCAGGCGGTGGATCTGAACAGCCTGAAACGCTCCCCCAAGcaacaa < 1:1826511/53‑1 (MQ=255)
cAAGGCCAGGCGGTGGATCTGAACAGCCTGAAACGCTCCCCCAAGCAACAACAGGCGCTGGCGGCGTTa > 1:1047581/1‑69 (MQ=255)
cAAGGCCAGGCGGTGGATCTGAACAGCCTGAAACGCTCCCCCAAGCAACAACAGGCGCTGGCGGCGTTa > 1:1753987/1‑69 (MQ=255)
cAAGGCCAGGCGGTGGATCTGAACAGCCTGAAACGCTCCCCCAAGCAACAACAGGCGCTGGCGGCGTTa > 1:1239105/1‑69 (MQ=255)
cAAGGCCAGGCGGTGGATCTGAACAGCCTGAAACGCTCCCCCAAGCAACAACAGGCGCTGGCGGCGTTa > 1:1456653/1‑69 (MQ=255)
cAAGGCCAGGCGGTGGATCTGAACAGCCTGAAACGCTCCCCCAAGCAACAACAGGCGCTGGCGGCGTTa > 1:1945980/1‑69 (MQ=255)
cAAGGCCAGGAGGTGGATCTGAACAGCCTGAAACGCTCCCCCAAGCAACAACAGGCGCTGGCGGCGTTa > 1:2215298/1‑69 (MQ=255)
aaGGCCAGGCGGTGGATCTGAACAGCCTGAAACGCTCCCCCAAGCAACAACAGGCGCTGGCGGCGt < 1:2824955/66‑1 (MQ=255)
aaGGCCAGGCGGTGGATCTGAACAGCCTGAAACGCTCCCCCAAGCAACAACAGGCGCTGGCGGCGt < 1:2484680/66‑1 (MQ=255)
aaGGCCAGGCGGTGGATCTGAACAGCCTGAAACGCTCCCCCAAGCAACAACAGGCGCTGGCGGCGt < 1:2099980/66‑1 (MQ=255)
|
ATTTTACTACGCCAGGGGCGGCCTGCGGCGAACGCGCCGATGTGGTACTGGTTTGCCACTGAACAAGGCCAGGCGGTGGATCTGAACAGCCTGAAACGCTCCCCCAAGCAACAACAGGCGCTGGCGGCGTTA > minE/2305398‑2305529
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
