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 |
|
A4 F28 I1 R1
|
147 |
24.9 |
839862 |
99.2% |
833143 |
138.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
2,999,680 |
(G)7→8 |
coding (212/756 nt) |
ygeR ← |
LysM domain‑containing putative peptidase lipoprotein YgeR |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 2,999,673 | 1 | . | G | 94.7%
| 62.4
/ ‑2.7
| 19 | coding (219/756 nt) | ygeR | LysM domain‑containing putative peptidase lipoprotein YgeR |
| Reads supporting (aligned to +/- strand): ref base . (1/0); new base G (7/11); total (8/11) |
| Fisher's exact test for biased strand distribution p-value = 4.21e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.68e-01 |
GCCAGGATGATTTCGGTACCGCTGATGACGGTGTAACCGATGCGGTTTTGGTCGTTGATTTGGCGGTTGATTTACGTGTAATACTGCTACTTTTCGCCCCACCCAGTTTTAGTTTCTGACCAACTTCAATGGTGTAA‑GGGGGGGAAATGCCGTTCAGTCGCGCCAGTTCTTTTACGCTGGTTCCCGTGGTGCGCGAAATACGATATAGCGTATCCCCCCGTTTCACGGTGTAAACGGAGCCGGAATACGTT > NC_000913/2999537‑2999787
|
gcCAGGATGATTTCGGTACCGCTGATGACGGTGTAACCGATGCGGTTTTGGTCGTTGATTTGGCGGTTGATTTACGTGTAATACTGCTACTTTTCGCCCCACCCAGTTTTAGTTTCTGACCAACTTCAATGGTGTAA‑ggg < 2:105820/140‑1 (MQ=255)
gatgatTTCGGTACCGCTGATGACGGTGTAACCGACGCGGTTTTGGTCGTTGATTTGGCGGTTGATTTACGTGTAATACTGCTACTTTTCGCCCCACCCAGTTTTAGTTTCTGACCAACTTCAATGGTGTAA‑gggggggg < 1:277493/140‑2 (MQ=255)
atgaCGGTGTAACCGATGCGGTTTTGGTCGTTGATTTGGCGGTTGATTTACGTGTAATACTGCTACTTTTCGCCCCACCCAGTTTTAGTTTCTGACCAACTTCAATGGTGTAAGGGGGGGGAAATGCCGTTCAGTCgcgc > 1:202990/1‑140 (MQ=255)
atgaCGGTGTAACCGATGCGGTTTTGGTCGTTGATTTGGCGGTTGATTTACGTGTAATACTGCTACTTTTCGCCCCACCCAGTTTTAGTTTATGACCAACTTCAATGGTGTAAGGGGGGGGAAATGCCGTTCAGTCgcgc < 1:89410/140‑1 (MQ=255)
cGATGCGGTTTTGGTCGTTGATTTGGCGGTTGATTTACGTGTAATACTGCTACTTTTCGCCCCACCCAGTTTTAGTTTCTGACCAACTTCAATGGTGTAAGGGGGGGGAAATGCCGTTCAGTCGCGCCAGTTCTTTTACg < 2:202990/140‑1 (MQ=255)
aTGCGGTTTTGGTCGTTGATTTGGCGGTTGATTTACGTGTAATACTGCTACTTTTCGCCCCACCCAGTTTTAGTTTCTGACCAACTTCAATGGTGTAAGGGGGGGGAAATGCCGTTCAGTCGCGCCAGTTCTTTTACGCt < 2:265279/140‑1 (MQ=255)
gTTGATTTGGCGGTTGATTTACGTGTAATACTGCTACTTTTCGCCCCACCCAGTTTTAGTTTCTGACCAACTTCAATGGTGTAAGGGGGGGGAAATGCCGTTCAGTCGCGCCAGTTCTTTTACGCTGGTTCCCGTGGTgc > 1:272336/1‑140 (MQ=255)
ttGATTTGGCGGTTGATTTACGTGTAATACTGCTACTTTTCGCCCCACCCAGTTTTAGTTTCTGACCAACTTCAATGGTGTAAGGGGGGGGAAATGCCGTTCAGTCGCGCCAGTTCTTTTACGCTGGTTCCCGTGGTgcg > 2:115136/1‑140 (MQ=255)
ttGATTTGGCGGTTGATTTACGTGTAATACTGCTACTTTTCGCCCCACCCAGTTTTAGTTTCTGACCAACTTCAATGGTGTAAGGGGGGGGAAATGCCGTTCAGTCGCGCCAGTTCTTTTACGCTGGTTCCCGTGGTgcg < 2:73463/140‑1 (MQ=255)
ttGATTTGGCGGTTGATTTACGTGTAATACTGCTACTTTTCGCCCCACCCAGTTTTAGTTTCTGACCAACTTCAATGGTGTAAGGGGGGGGAAATGCCGTTCAGTCGCGCCAGTTCTTTTACGCTGGTTCCCGTGGTgcg < 2:272336/140‑1 (MQ=255)
ttGATTTGGCGGTTGATTTACGTGTAATACTGCTACTTTTCGCCCCACCCAGTTTTAGTTTCTGACCAACTTCAATGGTGTAAGGGGGGGGAAATGCCGTTCAGTCGCGCCAGTTCTTTTACGCTGGTTCCCGTGGTgcg < 1:115136/140‑1 (MQ=255)
ttGATTTGGCGGTTGATTTACGTGTAATACTGCTACTTTTCGCCCCACCCAGTTTTAGTTTCTGACCAACTTCAATGGTGTAAGGGGGGGGAAATGCCGTTCAGTCGCGCCAGTTCTTTTACGCTGGTTCCCGTGGTgcg < 1:396385/140‑1 (MQ=255)
cGGTTGATTTACGTGTAATACTGCTACTTTTCGCCCCACCCAGTTTTAGTTTCTGACCAACTTCAATGGTGTAAGGGGGGGGAAATGCCGTTCAGTCGCGCCAGTTCTTTTACGCTGGTTCCCGTGGTGCGCGAAATACg < 1:171743/140‑1 (MQ=255)
aaTACTGCTACTTTTCGCCCCACCCAGTTTTAGTTTCTGACCAACTTCAATGGTGTAAGGGGGGGGAAATGCCGTTCAGTCGCGCCAGTTCTTTTACGCTGGTTCCCGTGGTGCGCGAAATACGa > 2:124645/1‑125 (MQ=255)
aaTACTGCTACTTTTCGCCCCACCCAGTTTTAGTTTCTGACCAACTTCAATGGTGTAAGGGGGGGGAAATGCCGTTCAGTCGCGCCAGTTCTTTTACGCTGGTTCCCGTGGTGCGCGAAATACGa < 1:124645/125‑1 (MQ=255)
gCTACTTTTCGCCCCACCCAGTTTTAGTTTCTGACCAACTTCAATGGTGTAAGGGGGGGGAAATGCCGTTCAGTCGCGCCAGTTCTTTTACGCTGGTTCCCGTGGTGCGCGAAATACGATATAGCGTAT‑CCCCCGTTTCa > 1:354913/1‑140 (MQ=255)
tcTTTTCGCCCCACCCAGTTTTAGTTTCTGACCAACTTCAATGGTGTAAGGGGGGGGAAATGCCGTTCAGTCGCGCCAGTTCTTTTACGCTGGTTCCCGTGGTGCGCGAAATACGATATAGCGTATCCCCCCGTTTCACg < 2:413274/139‑1 (MQ=255)
acccaGTTTTAGTTTCTGACCAACTTCAATGGTGTAAGGGGGGGGAAATGCCGTTCAGTCGCGCCAGTTCTTTTACGCTGGTTCCCGTGGTGCGCGAAATACGATATAGCGTATCCCCCCGTTTCACGGTGTAAACGGAg < 2:396560/140‑1 (MQ=255)
ttttAGTTTCTGACCAACTTCAATGGTGTAAGGGGGGGGAAATGCCGTTCAGTCGCGCCAGTTCTTTTACGCTGGTTCCCGTGGTGCGCGAAATACGATATAGCGTAT‑CCCCCGTTTCCCGGGGTAAACGGAGCCGGaaa > 2:50589/1‑139 (MQ=255)
gTTTCTGACCAACTTCAATGGTGTAAGGGGGGGGAAATGCCGTTCAGTCGCGCCAGTTCTTTTACGCTGGTTCCCGTGGTGCGCGAAATACGATATAGCGTATCCCCCCGTTTCACGGTGTAAACGGAGCCGGAATACGt > 2:293069/1‑140 (MQ=255)
gTTTCTGACCAACTTCAATGGTGTAA‑GGGGGGGAAATGCCGTTCAGTCGCGCCAGTTCTTTTACGCTGGTTCCCGTGGTGCGCGAAATACGATATAGCGTATCCCCCCGTTTCACGGTGTAAACGGAGCCGGAATACGtt > 2:17131/1‑140 (MQ=255)
|
GCCAGGATGATTTCGGTACCGCTGATGACGGTGTAACCGATGCGGTTTTGGTCGTTGATTTGGCGGTTGATTTACGTGTAATACTGCTACTTTTCGCCCCACCCAGTTTTAGTTTCTGACCAACTTCAATGGTGTAA‑GGGGGGGAAATGCCGTTCAGTCGCGCCAGTTCTTTTACGCTGGTTCCCGTGGTGCGCGAAATACGATATAGCGTATCCCCCCGTTTCACGGTGTAAACGGAGCCGGAATACGTT > NC_000913/2999537‑2999787
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
