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 |
|
A5 F28 I2 R2
|
154 |
32.4 |
3140800 |
76.4% |
2399571 |
54.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,939,036 |
C→T |
L288L (TTG→TTA) |
ygdE ← |
predicted methyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,939,036 | 0 | C | T | 78.3%
| 39.5
/ 8.4
| 24 | L288L (TTG→TTA) | ygdE | predicted methyltransferase |
| Reads supporting (aligned to +/- strand): ref base C (3/2); new base T (18/0); total (21/3) |
| Fisher's exact test for biased strand distribution p-value = 3.95e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.76e-01 |
GGTTGAAAATGGTTTCACGGCACCAGCCATTAACCAGCCACTGCGCCATCAATGCCGCAACTTTCGCCGGTTTTTCAACCATATCGCATACCATCC > W3110S.gb/2938987‑2939082
|
ggTTGAAAATGGTTTCACGGCACCAGCCATTAACCAGCCACTGCGCCATGAATGCCGCAAc < 1:1169352/61‑1 (MQ=255)
ggTTGAAAATGGTTTCACGGCACCAGCCATTAACCAGCCACTGCGCCATCAATGCCGCAAc < 1:1175138/61‑1 (MQ=255)
agTTTCACGGCACCAGCCATTAACCAGCCACTGCGCCATTAATGCCGCAACTTTCGCCGGtt > 1:2788454/2‑62 (MQ=255)
agTTTCACGGCACCAGCCATTAACCAGCCACTGCGCCATTAATGCCGCAACTTTCGCCGGtt > 1:815689/2‑62 (MQ=255)
agTTTCACGGCACCAGCCATTAACCAGCCACTGCGCCATTAATGCCGCAACTTTCGCCGGtt > 1:3093490/2‑62 (MQ=255)
agTTTCACGGCACCAGCCATTAACCAGCCACTGCGCCATTAATGCCGCAACTTTCGCCGGtt > 1:3089270/2‑62 (MQ=255)
agTTTCACGGCACCAGCCATTAACCAGCCACTGCGCCATTAATGCCGCAACTTTCGCCGGtt > 1:2898103/2‑62 (MQ=255)
agTTTCACGGCACCAGCCATTAACCAGCCACTGCGCCATTAATGCCGCAACTTTCGCCGGtt > 1:2877545/2‑62 (MQ=255)
agTTTCACGGCACCAGCCATTAACCAGCCACTGCGCCATTAATGCCGCAACTTTCGCCGGtt > 1:2872394/2‑62 (MQ=255)
agTTTCACGGCACCAGCCATTAACCAGCCACTGCGCCATTAATGCCGCAACTTTCGCCGGtt > 1:279141/2‑62 (MQ=255)
agTTTCACGGCACCAGCCATTAACCAGCCACTGCGCCATTAATGCCGCAACTTTCGCCGGtt > 1:2784979/2‑62 (MQ=255)
agTTTCACGGCACCAGCCATTAACCAGCCACTGCGCCATTAATGCCGCAACTTTCGCCGGtt > 1:2691763/2‑62 (MQ=255)
agTTTCACGGCACCAGCCATTAACCAGCCACTGCGCCATTAATGCCGCAACTTTCGCCGGtt > 1:2322809/2‑62 (MQ=255)
agTTTCACGGCACCAGCCATTAACCAGCCACTGCGCCATTAATGCCGCAACTTTCGCCGGtt > 1:2095731/2‑62 (MQ=255)
agTTTCACGGCACCAGCCATTAACCAGCCACTGCGCCATTAATGCCGCAACTTTCGCCGGtt > 1:2068080/2‑62 (MQ=255)
agTTTCACGGCACCAGCCATTAACCAGCCACTGCGCCATTAATGCCGCAACTTTCGCCGGtt > 1:2058321/2‑62 (MQ=255)
agTTTCACGGCACCAGCCATTAACCAGCCACTGCGCCATTAATGCCGCAACTTTCGCCGGtt > 1:1678192/2‑62 (MQ=255)
agTTTCACGGCACCAGCCATTAACCAGCCACTGCGCCATTAATGCCGCAACTTTCGCCGGtt > 1:1585632/2‑62 (MQ=255)
agTTTCACGGCACCAGCCATTAACCAGCCACTGCGCCATTAATGCCGCAACTTTAGCCGGtt > 1:60438/2‑62 (MQ=255)
agTTTCACGGCACCAGCCATTAACCAGACACTGCGCCATTAATGCCGCAACTTTCGCCGGtt > 1:3011849/2‑62 (MQ=255)
ttAACCAGCCACTGCGCCATCAATGCCGCAACTTTCGCCGGTTTTTCAACCATATCGCATAc < 1:975256/62‑1 (MQ=255)
cACTGCGCCATCAATGCCGCAACTTTCGCCGGTTTTTCAACCATATCGCATACCATcc > 1:2843607/1‑58 (MQ=255)
cACTGCGCCATCAATGCCGCAACTTTCGCCGGTTTTTCAACCATATCGCATACCATcc > 1:1753/1‑58 (MQ=255)
cACTGCGCCATCAATGCCGCAACTTTCGCCGGTTTTTCAACCATATCGCATACCATcc > 1:1558989/1‑58 (MQ=255)
|
GGTTGAAAATGGTTTCACGGCACCAGCCATTAACCAGCCACTGCGCCATCAATGCCGCAACTTTCGCCGGTTTTTCAACCATATCGCATACCATCC > W3110S.gb/2938987‑2939082
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
