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 F1 I1 R1
|
690 |
31.8 |
1836723 |
97.1% |
1783458 |
80.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
2,962,983 |
(T)5→4 |
coding (174/408 nt) |
ygdB ← |
DUF2509 domain‑containing protein YgdB |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 2,962,979 | 0 | T | . | 90.5%
| 65.2
/ 2.7
| 21 | coding (178/408 nt) | ygdB | DUF2509 domain‑containing protein YgdB |
| Reads supporting (aligned to +/- strand): ref base T (1/1); new base . (10/9); total (11/10) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.14e-01 |
CAGTAAACGCAAACAAACCTGGGCATCGGTTTCAGCGTACTGCGAGCACTGAACTGCTGGCTGCGTCTGCCAGCAGTGCATTTTTCCCCACGCCAGCGCCGACTGAACGATGGCCTGGCGGCGCAATGACTGACTTTCCATGCTCACGCGAGAGG > NC_000913/2962899‑2963053
|
cAGTAAACGCAAACAAACCTGGGCATCGGTTTCAGCGTACTGCGAGCACTGAACTGCTGGCTGCGTCTGCCAGCAGTGCAt < 2:484260/81‑1 (MQ=255)
gTAAACGCAAACAAACCTGGGCATCGGTTTCAGCGTACTGCGAGCACTGAACTGCTGGCTGCGTCTGCCAGCAGTGCAttt < 1:484261/81‑1 (MQ=255)
gTAAACGCAAACAAACCTGGGCATCGGTTTCAGCGTACTGCGAGCACTGAACTGCTGGCTGCGTCTGCCAGCAGTGCAttt > 2:484302/1‑81 (MQ=255)
tAAACGCAAACAAACCTGGGCATCGGTTTCAGCGTACTGCGAGCACTGAACTGCTGGCTGCGTCTGCCAGCAGTGCAtttt < 2:484262/81‑1 (MQ=255)
aaaCGCAAACAAACCTGGGCATCGGTTTCAGCGTACTGCGAGCACTGAACTGCTGGCTGCGTCTGCCAGCAGTGCAttttc > 1:484306/1‑80 (MQ=255)
cGCAAACAAACCTGGGCATCGGTTTCAGCGTACTGCGAGCACTGAACTGCTGGCTGCGTCTGCCAGCAGTGCATTTTcccc < 1:484263/81‑1 (MQ=255)
gCAAACAAACCTGGGCATCGGTTTCAGCGTACTGCGAGCACTGAACTGCTGGCTGCGTCTGCCAGCAGTGCATTTTcccca > 1:484305/1‑80 (MQ=255)
aaacaaacCTGGGCATCGGTTTCAGCGTACTGCGAGCACTGAACTGCTGGCTGCGTCTGCCAGCAGTGCA‑TTTTCCCCACg > 2:484299/1‑81 (MQ=255)
aacCTGGGCATCGGTTTCAGCGTACTGCGAGCACTGAACTGCTGGCTGCGTCTGCCAGCAGTGCA‑TTTTCCCCACGCCAgc > 1:484313/1‑81 (MQ=255)
ccTGGGCATCGGTTTCAGCGTACTGCGAGCACTGAACTGCTGGCTGCGTCTGCCAGCAGTGCA‑TTTTCCCCACGCCAgcgc > 2:484324/1‑81 (MQ=255)
cTGGGCATCGGTTTCAGCGTACTGCGAGCACTGAACTGCTGGCTGCGTCTGCCAGCAGTGCA‑TTTTCCCCACGCCAGCGcc < 2:484264/81‑1 (MQ=255)
ggTTTCAGCGTACTGCGAGCACTGAACTGCAGGCTGCGTCTGCCAGCAGTGCA‑TTTTCCCCACGCCAGCGCCGACTGAAc < 2:484265/80‑1 (MQ=255)
ttaGCGTACTGCGAGCACTGAACTGCTGGCTGCGTCTGCCAGCAGTGCA‑TTTTCCCCACGCCAGCGCCGACTGAACGATg < 2:484266/78‑1 (MQ=255)
tCAGCGTACTGCGAGCACTGAACTGCTGGCTGCGTCTGCCAGCAGTGCA‑TTTTCCCCACGCCAGCGCCGACTGAACGATgg > 1:484307/1‑81 (MQ=255)
gTACTGCGAGCACTGAACTGCTGGCTGCGTCTGCCAGCAGTGCA‑TTTTCCCCACGCCAGCGCCGACTGAACGATGGCCTgg < 1:484267/81‑1 (MQ=255)
ctggctgCGTCTGCCAGCAGTGCA‑TTTTCCCCACGCCAGCGCCGACTGAACGATGGCCTGGCGGCGCAATGACTGACttt < 1:484268/80‑1 (MQ=255)
ctgCGTCTGCCAGCAGTGCA‑TTTTCCCCACGCCAGCGCCGACTGAACGATGGCCTGGCGGCGCAATGACTGACTTTCCATg < 1:484269/81‑1 (MQ=255)
cTGCCAGCAGTGCA‑TTTTCCCCACGCCAGCGCCGACTGAACGATGGCCTGGCGGCGCAATGACTGACTTTCCATGCTCAcg > 2:484308/1‑81 (MQ=255)
cTGCCAGCAGTGCA‑TTTTCCCCACGCCAGCGCCGACTGAACGATGGCCTGGCGGCGCAATGACTGACTTTCCATGCTCAcg > 2:484316/1‑81 (MQ=255)
gCCAGCAGTGCA‑TTTTCCCCACGCCAGCGCCGACCGAACGATGGCCTGGCGGCCCAATGACTGACTTTCCATGCTCAcgc > 1:484325/1‑80 (MQ=255)
ccAGCAGTGCA‑TTTTCCCCACGCCAGCGCCGACTGAACGATGGCCTGGCGGCGCAATGACTGACTTTCCATGCTCACGCga < 1:484270/81‑1 (MQ=255)
cagcagTGCA‑TTTTCCCCACGCCAGCGCCGACTGAACGATGGCCTGGCGGCGCAATGACTGACTTTCCATGCTCAcgc > 2:484309/1‑78 (MQ=255)
agcagTGCA‑TTTTCCCCACGCCAGCGCCGACTGAACGATGGCCTGGCGGCGCAATGACTGACTTTCCATGCTCACGCgaga < 2:484271/81‑1 (MQ=255)
gcagTGCA‑TTTTCCCCACGCCAGCGCCGACTGAACGATGGCCTGGCGGCGCAATGACTGACTTTCCATGCTCACGCGagag < 2:484272/81‑1 (MQ=255)
cagTGCA‑TTTTCCCCACGCCAGCGCCGACTGAACGATGGCCTGGCGGCGCAATGACTGACTTTCCATGCTCACGCGAGAgg > 2:484318/1‑81 (MQ=255)
agTGCA‑TTTTCCCCACGCCAGCGCCGACTGAACGATGGCCTGGCGGCGCAATGACTGACTTTCCATGCTCACGCGAGAgg > 1:484320/1‑80 (MQ=255)
|
CAGTAAACGCAAACAAACCTGGGCATCGGTTTCAGCGTACTGCGAGCACTGAACTGCTGGCTGCGTCTGCCAGCAGTGCATTTTTCCCCACGCCAGCGCCGACTGAACGATGGCCTGGCGGCGCAATGACTGACTTTCCATGCTCACGCGAGAGG > NC_000913/2962899‑2963053
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
