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 |
3,314,620 |
T→C |
V465V (GTA→GTG) |
infB ← |
translation initiation factor IF‑2 |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,314,620 | 0 | T | C | 97.6%
| 144.1
/ NA
| 42 | V465V (GTA→GTG) | infB | translation initiation factor IF‑2 |
| Reads supporting (aligned to +/- strand): ref base T (0/0); major base C (25/16); minor base A (0/1); total (25/17) |
| Fisher's exact test for biased strand distribution p-value = 4.05e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TACCTGCGCCGCTTTCGCGTGCTGGATTGCTTCGATGGTCTGCGGCATCACACCGTCGTCGGCAGCAACAACCAGGACTACGATGTCCGTTGCCTGCGCACCACGAGCACGCATTGAAGTAAACGCGGCGTGCCCCGGGGTGTCCAGGAAGGTG > NC_000913/3314542‑3314695
|
tACCTGCGCCGCTTTCGCGTGCTGGATTGCTTCGATGGTCTGCGGCATCACACCGTCGTCGGCAGCAACAACCAGGACCAc > 2:559988/1‑81 (MQ=255)
cgccgcTTTCGCGTGCTGGATTGCTTCGATGGTCTGCGGCATCACACCGTCGTCGGCAGCAACAACCAGGACCACGATg < 2:559945/79‑1 (MQ=255)
gccgcTTTCGCGTGCTGGATTGCTTCGATGGTCTGCGGCATCACACCGTCGTCGGCAGCAACAACCAGGACCACGATGTcc < 1:559947/81‑1 (MQ=255)
gccgcTTTCGCGTGCTGGATTGCTTCGATGGTCTGCGGCATCACACCGTCGTCGGCAGCAACAACCAGGACCACGATGTcc > 2:560017/1‑81 (MQ=255)
gccgcTTTCGCGTGCTGGATTGCTTCGATGGTCTGCGGCATCACACCGTCGTCGGCAGCAACAACCAGGACCACGATGTcc < 2:559947/81‑1 (MQ=255)
cgcTTTCGCGTGCTGGATTGCTTCGATGGTCTGCGGCATCACACCGTCGTCGGCAGCAACAACCAGGACCACGATGTCCGt > 2:559981/1‑81 (MQ=255)
cTTTCGCGTGCTGGATTGCTTCGATGGTCTGCGGCATCACACCGTCGTCGGCAGCAACAACCAGGACCACGATGTCCGTTg < 2:559948/81‑1 (MQ=255)
cgcgTGCTGGATTGCTTCGATGGTCTGCGGGATCACACCGTCGTAGGCAGCAACAACCAGGACCACGATGTCCGTTGCCt < 2:559949/80‑1 (MQ=255)
cgcgTGCTGGATTGCTTCGATGGTCTGCGGCATCACACCGTCGTCGGCAGCAACAACCAGGACCACGATGTCCGTTGCCt < 1:559951/80‑1 (MQ=255)
gcgTGCTGGATTGCTTCGATGGTCTGCGGCATCACACCGTCGTCGGCAGCAACAACCAGGACCACGATGTCCGTTGCCTgc > 2:559996/1‑81 (MQ=255)
gcgTGCTGGATTGCTTCGATGGTCTGCGGCATCACACCGTCGTCGGCAGCAACAACCAGGACCACGATGTCCGTTGCCTgc > 1:560021/1‑81 (MQ=255)
gTGCTGGATTGCTTCGATGGTCTGCGGCATCACTCCGTCGTCGGCAGCAACAACCAGGACCACGATGTCCGTTGCCTgcg > 2:560015/1‑80 (MQ=255)
cTGGATTGCTTCGATGGTCTGCGGCATCACACCGTCGTCGGCAGCAACAACCAGGACCACGATGTCCGTTGCCTGCGcac > 2:559994/1‑80 (MQ=255)
tGGATTGCTTCGATGGTCTGCGGCATCACACCGTCGTCGGCAGCAACAACCAGGACCACGATGTCCGTTGCCTGCGcacca > 1:560009/1‑81 (MQ=255)
gATTGCTTCGATGGTCTGCGGCATCACACCGTCGTCGGCAGCAACAACCAGGACCACGATGTCCGTTGCCTGCGCACCACg < 2:559951/81‑1 (MQ=255)
tGCTTCGATGGTCTGCGGCATCACACCGTCGTCGGCAGCAACAACCAGGACCACGATGTCCGTTGCCTGCGCACCACGAg > 1:559990/1‑80 (MQ=255)
gATGGTCTGCGGCATCACACCGTCGTCGGCAGCAACAACCAGGACCACGATGTCCGTTGCCTGCGCACCACGAGCACGCAt > 1:560020/1‑81 (MQ=255)
gATGGTCTGCGGCATCACACCGTCGTCGGCAGCAACAACCAGGACCACGATGTCCGTTGCCTGCGCACCACGAGCACGCAt < 2:559952/81‑1 (MQ=255)
tGGTCTGCGGCATCACACCGTCGTCGGCAGCAACAACCAGGACCACGATGTCCGTTGCCTGCGCACCACGAGCACGCAtt > 1:559994/1‑80 (MQ=255)
ggTCTGCGGCATCACACCGTCGTCGGCAGCAACAACCAGGACCACGATGTCCGTTGCCTGCGCACCACGAGCACGCATTg > 1:559992/1‑80 (MQ=255)
gCGGCATCACACCGTCGTCGGCAGCAACAACCAGGACCACGATGTCCGTTGCCTGCGCACCACGAGCACGCATTGAAGTa > 2:560005/1‑80 (MQ=255)
cGGCATCACACCGTCGTCGGCAGCAACAACCAGGACCACGATGTCCGTTGCCTGCGCACCACGAGCACGCATTGAAGt < 1:559956/78‑1 (MQ=255)
cGGCATCACACCGTCGTCGGCAGCAACAACCAGGACCACGATGTCCGTTGCCTGCGCACCACGAGCACGCATTGAAGTaa < 1:559954/80‑1 (MQ=255)
cGGCATCACACCGTCGTCGGCAGCAACAACCAGGACCACGATGTCCGTTGCCTGCGCACCACGAGCACGCATTGAAGTaa < 1:559955/80‑1 (MQ=255)
ggCATCACACCGTCGTCGGCAGCAACAACCAGGACCACGATGTCCGTTGCCTGCGCACCACGAGCACGCATTGAAGTAAAc < 2:559956/81‑1 (MQ=255)
cATCACACCGTCGTCGGCAGCAACAACCAGGACCACGATGTCCGTTGCCTGCGCACCACGAGCACGCATTGAAGTAAAcgc > 2:560002/1‑81 (MQ=255)
acacCGTCGTCGGCAGCAACAACCAGGACCACGATGTCCGTTGCCTGCGCACCACGAGCACGCATTGAAGTAAACgcggcg > 1:560008/1‑81 (MQ=255)
ccGTCGTCGGCAGCAACAACCAGGACCACGATGTCCGTTGCCTGCGCACCACGAGCACGCATTGAAGTAAACGCGGCGTGc > 2:560010/1‑81 (MQ=255)
cgtcgGCAGCAACAACCAGGACCACGATGTCCGTTGCCTGCGCACCACGAGCACGCATTGAAGTAAACGCGGCGTGCCCCg > 2:560016/1‑81 (MQ=255)
cgtcgGCAGCAACAACCAGGACCACGATGTCCGTTGCCTGCGCACCACGAGCACGCATTGAAGTAAACGCGGCGTGCCCCg > 1:560031/1‑81 (MQ=255)
cgGCAGCAACAACCAGGACCACGATGTCCGTTGCCTGCGCACCACGAGCACGCATTGAAGTAAACGCGGCGTGCCCCgggg > 1:560010/1‑81 (MQ=255)
cgGCAGCAACAACCAGGACCACGATGTCCGTTGCCTGCGCACCACGAGCACGCATTGAAGTAAACGCGGCGTGCCCCgggg > 2:560025/1‑81 (MQ=255)
ggCAGCAACAACCAGGACCACGATGTCCGTTGCCTGCGCACCACGAGCACGCATTGAAGTAAACGCGGCGTGCCCCGGGgt > 1:560000/1‑81 (MQ=255)
gcagaaACAACAAGGACAACGATGTCCGTTGGCTGAGAAGAACGAGAACGCATTGAAGTAAACGCGGCGTGCCCCGGGgtg < 1:897230/81‑1 (MQ=255)
agcaACAACCAGGACCACGATGTCCGTTGCCTGCGCACCACGAGCACGCATTGAAGTAAACGCGGCGTGCCCCGGGGTGTc > 1:560005/1‑81 (MQ=255)
gcaACAACCAGGACCACGATGTCCGTTGCCTGCGCACCACGAGCACGCATTGAAGTAAACGCGGCGTGCCCCGGGGTGTc > 2:560024/1‑80 (MQ=255)
aacaacCAGGACCACGATGTCCGTTGCCTGCGCACCACGAGCACGCATTGAAGTAAACGCGGCGTGCCCCGGGGTGTCCAg > 2:560027/1‑81 (MQ=255)
aacCAGGACCACGATGTCCGTTGCCTGCGCACCACGAGCACGCATTGAAGTAAACGCGGCGTGCCCCGGGGTGTCCAgg > 1:560013/1‑79 (MQ=255)
aacCAGGACCACGATGTCCGTTGCCTGCGCACCACGAGCACGCATTGAAGTAAACGCGGCGTGCCCCGGGGTGTCCAGGaa < 2:559958/81‑1 (MQ=255)
aacCAGGACCACGATGTCCGTTGCCTGCGCACCACGAGCACGCATTGAAGTAAACGCGGCGTGCCCCGGGGTGTCCAGGaa < 1:559958/81‑1 (MQ=255)
cAGGACCACGATGTCCGTTGCCTGCGCACCACGAGCACGCATTGAAGTAAACGCGGCGTGCCCCGGGGTGTCCAGGAAGGt < 1:559960/81‑1 (MQ=255)
aGGACCACGATGTCCGTTGCCTGCGCACCACGAGCACGCATTGAAGTAAACGCGGCGTGCCCCGGGGTGTCCAGGAAGGTg < 2:559960/81‑1 (MQ=255)
|
TACCTGCGCCGCTTTCGCGTGCTGGATTGCTTCGATGGTCTGCGGCATCACACCGTCGTCGGCAGCAACAACCAGGACTACGATGTCCGTTGCCTGCGCACCACGAGCACGCATTGAAGTAAACGCGGCGTGCCCCGGGGTGTCCAGGAAGGTG > NC_000913/3314542‑3314695
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
