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 F28 I1 R2
|
90 |
19.5 |
1203533 |
67.3% |
809977 |
57.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
minE |
2,925,224 |
T→A |
K147N (AAA→AAT) |
holC ← |
DNA polymerase III, chi subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,925,224 | 0 | T | A | 96.5%
| 88.8
/ ‑3.4
| 29 | K147N (AAA→AAT) | holC | DNA polymerase III, chi subunit |
| Reads supporting (aligned to +/- strand): ref base T (0/1); new base A (28/0); total (28/1) |
| Fisher's exact test for biased strand distribution p-value = 3.45e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.40e-01 |
AGCGGCTGTTCGATATCTTGTGGGTTATATGTCTTTTCCATTATTTCCAGGTTGCCGTATTCA > minE/2925181‑2925243
|
aGCGGCTGTTCGATATCTTGTGGGTTATATGTCTTTTCCATTAATTCCAGGTTGCCGTATTc > 1:552267/1‑62 (MQ=255)
aGCGGCTGTTCGATATCTTGTGGGTTATATGTCTTTTCCATTAATTCCAGGTTGCCGTATTc > 1:997615/1‑62 (MQ=255)
aGCGGCTGTTCGATATCTTGTGGGTTATATGTCTTTTCCATTAATTCCAGGTTGCCGTATTc > 1:989132/1‑62 (MQ=255)
aGCGGCTGTTCGATATCTTGTGGGTTATATGTCTTTTCCATTAATTCCAGGTTGCCGTATTc > 1:910363/1‑62 (MQ=255)
aGCGGCTGTTCGATATCTTGTGGGTTATATGTCTTTTCCATTAATTCCAGGTTGCCGTATTc > 1:90696/1‑62 (MQ=255)
aGCGGCTGTTCGATATCTTGTGGGTTATATGTCTTTTCCATTAATTCCAGGTTGCCGTATTc > 1:899779/1‑62 (MQ=255)
aGCGGCTGTTCGATATCTTGTGGGTTATATGTCTTTTCCATTAATTCCAGGTTGCCGTATTc > 1:898190/1‑62 (MQ=255)
aGCGGCTGTTCGATATCTTGTGGGTTATATGTCTTTTCCATTAATTCCAGGTTGCCGTATTc > 1:839415/1‑62 (MQ=255)
aGCGGCTGTTCGATATCTTGTGGGTTATATGTCTTTTCCATTAATTCCAGGTTGCCGTATTc > 1:785506/1‑62 (MQ=255)
aGCGGCTGTTCGATATCTTGTGGGTTATATGTCTTTTCCATTAATTCCAGGTTGCCGTATTc > 1:672620/1‑62 (MQ=255)
aGCGGCTGTTCGATATCTTGTGGGTTATATGTCTTTTCCATTAATTCCAGGTTGCCGTATTc > 1:659568/1‑62 (MQ=255)
aGCGGCTGTTCGATATCTTGTGGGTTATATGTCTTTTCCATTAATTCCAGGTTGCCGTATTc > 1:653122/1‑62 (MQ=255)
aGCGGCTGTTCGATATCTTGTGGGTTATATGTCTTTTCCATTAATTCCAGGTTGCCGTATTc > 1:621096/1‑62 (MQ=255)
aGCGGCTGTTCGATATCTTGTGGGTTATATGTCTTTTCCATTAATTCCAGGTTGCCGTATTc > 1:61611/1‑62 (MQ=255)
aGCGGCTGTTCGATATCTTGTGGGTTATATGTCTTTTCCATTAATTCCAGGTTGCCGTATTc > 1:592268/1‑62 (MQ=255)
aGCGGCTGTTCGATATCTTGTGGGTTATATGTCTTTTCCATTAATTCCAGGTTGCCGTATTc > 1:1015870/1‑62 (MQ=255)
aGCGGCTGTTCGATATCTTGTGGGTTATATGTCTTTTCCATTAATTCCAGGTTGCCGTATTc > 1:467787/1‑62 (MQ=255)
aGCGGCTGTTCGATATCTTGTGGGTTATATGTCTTTTCCATTAATTCCAGGTTGCCGTATTc > 1:403980/1‑62 (MQ=255)
aGCGGCTGTTCGATATCTTGTGGGTTATATGTCTTTTCCATTAATTCCAGGTTGCCGTATTc > 1:343537/1‑62 (MQ=255)
aGCGGCTGTTCGATATCTTGTGGGTTATATGTCTTTTCCATTAATTCCAGGTTGCCGTATTc > 1:232052/1‑62 (MQ=255)
aGCGGCTGTTCGATATCTTGTGGGTTATATGTCTTTTCCATTAATTCCAGGTTGCCGTATTc > 1:173803/1‑62 (MQ=255)
aGCGGCTGTTCGATATCTTGTGGGTTATATGTCTTTTCCATTAATTCCAGGTTGCCGTATTc > 1:143196/1‑62 (MQ=255)
aGCGGCTGTTCGATATCTTGTGGGTTATATGTCTTTTCCATTAATTCCAGGTTGCCGTATTc > 1:114734/1‑62 (MQ=255)
aGCGGCTGTTCGATATCTTGTGGGTTATATGTCTTTTCCATTAATTCCAGGTTGCCGTATTc > 1:1084580/1‑62 (MQ=255)
aGCGGCTGTTCGATATCTTGTGGGTTATATGTCTTTTCCATTAATTCCAGGTTGCCGTATTc > 1:1079722/1‑62 (MQ=255)
aGCGGCTGTTCGATATCTTGTGGGTTATATGTCTTTTCCATTAATTCCAGGTTGCCGTATTc > 1:107423/1‑62 (MQ=255)
aGCGGCTGTTCGATATCTTGTGGGTTATATGTCTTTTCCATTAATTCCAGGTTGCCGTATTc > 1:106235/1‑62 (MQ=255)
aGCGGCTGTTCGATATCTTGTGGGTTATATGTCTTTTCCATTAATTCCAGGTTGCCGTATTc > 1:102232/1‑62 (MQ=255)
gCGGCTGTTCGATATCTTGTGGGTTATATGTCTTTTCCATTATTTCCAGGTTGCCGTATTCa < 1:401581/62‑1 (MQ=255)
|
AGCGGCTGTTCGATATCTTGTGGGTTATATGTCTTTTCCATTATTTCCAGGTTGCCGTATTCA > minE/2925181‑2925243
|
| 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
