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 |
|
A8 F1 I2 R1
|
765 |
53.2 |
2691310 |
93.4% |
2513683 |
103.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,101,039 |
(C)7→8 |
coding (585/720 nt) |
yggN ← |
DUF2884 family putative periplasmic protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,101,032 | 1 | . | C | 97.0%
| 105.4
/ ‑6.3
| 34 | L198V (CTG→GTG) | yggN | DUF2884 family putative periplasmic protein |
| Reads supporting (aligned to +/- strand): ref base . (0/1); major base C (16/16); minor base T (1/0); total (17/17) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.98e-01 |
AGGATTATTTTAAATTCCCGACCAGGGCTTTGCGGCTATCTTCCAGAGTCACAACGCGGCTACAAACATCTTTGCCAAACTGCTGGAAATCTTTTTCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAG‑CCCC‑CCCAGGCTTCCCAGCACATTCTGTAATGGGTTACCGCCGCTTTTCAGCACCGCTTTCGCGCCCATTTCATTAATGCTGTCCTGTAAAATTCCACCCATTGCCTGATTCACTAATTGCTGGCCTTCGGCG > NC_000913/3100900‑3101165
|
agGATTATTTTAAATTCCCGACCAGGGCTTTGCGGCTATCTTCC‑‑AGTCACAACGCGGCTACAAACATCTTTGCCAAACTGCTGGAAATCTTTTTCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAG‑cccc‑cccc > 1:756837/1‑138 (MQ=255)
ggATTATTTTAAATTCCCGACCAGGGCTTTGCGGCTATCTTCCAGAGTCACAACGCGGCTACAAACATCTTTGCCAAACTGCTGGAAATCTTTTTCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAG‑cccc‑ccc > 2:1281208/1‑139 (MQ=255)
gATTATTTTAAATTCCCGACCAGGGCTTTGCGGCTATCTTCCAGAGTCACAACGCGGCTACAAACATCTTTGCCAAACTGCTGGAAATCTTTTTCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAG‑cccc‑cccc > 1:983086/1‑138 (MQ=255)
tattTTAAATTCCCGACCAGGGCTTTGCGGCTATCTTCCAGAGTCACAACGCGGCTACAAACATCTTTGCCAAACTGCTGGAAATCTTTTTCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAG‑cccc‑ccccagg < 1:1281208/139‑5 (MQ=255)
aaTTCCCGACCAGGGCTTTGCGGCTATCTTCC‑‑AGTCACAACGCGGCTACAAACATCTTTGCCAAACTGCTGGAAATCTTTTTCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAGCCCCC‑CCCAGGCTTCCCAGc < 2:756837/139‑1 (MQ=255)
ttCCAGAGTCACAACGCGGCTACAAACATCTTTGCCAAACTGCTGGAAATCTTTTTCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAGCCCCC‑CCCAGGCTTCCCAGCACATTCTGTAATGGGTTAc < 1:65695/132‑1 (MQ=255)
ttCCAGAGTCACAACGCGGCTACAAACATCCTTGCCAAACTGCTGGAAATCTTTTTCCTGCTTTTTCCACTCGGGTTGGATTGAGGATTGCAGTCCCC‑CCCAGGCTTCCCAGCACATTCTGTAATGGGTTAc > 2:65695/1‑132 (MQ=255)
tCACAACGCGGCTACAAACATCTTTGCCAAACTGCTGGAAATCTTTTTCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAGCCCCC‑CCCAGGCTTCCCAGCACATTCTGTAATGGGTTACCGCCGCTTTTCAGCa > 1:276772/1‑139 (MQ=255)
acaACGCGGCTACAAACATCTTTGCCAAACTGCTGGAAATCTTTTTCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAGCCCCC‑CCCAGGCTTCCCAGc < 2:381773/103‑1 (MQ=255)
acaACGCGGCTACAAACATCTTTGCCAAACTGCTGGAAATCTTTTTCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAGCCCCC‑CCCAGGCTTCCCAGc > 1:381773/1‑103 (MQ=255)
aCAAACATCTTTGCCAAACTGCTGGAAATCTTTTTCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAGCCCCC‑CCCAGGCTTCCCAGCACATTCTGTAATGGGTTACCGCCGCTTTTCAGCACCGCTTTCGCGcc < 1:846356/139‑1 (MQ=255)
ccAAACTGCTGGAAATCTTTTTCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAGCCCCC‑CCCAGGCTTCCCAGCACATTCTGTAATGGGTTACCGCCGCTTTTCAGCACCGCTTTCGCGCCCATTTCATTAATg < 2:983086/139‑1 (MQ=255)
ccAAACTGCTGGAAATCTTTTTCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAGCCCCC‑CCCAGGCTTCCCAGCACATTCTGTAATGGGTTACCGCCGCTTTTCAGCACCGCTTTCGCGCCCATTTCATTAATg < 1:711671/139‑1 (MQ=255)
ctgGGAATCTTTTTCCTGGTTTTTCCACTCGGTTTGGATTTAGGATTGCAGCCCCC‑CCCAGGCTTCCCAGCACAtt < 1:109419/76‑1 (MQ=255)
ctgGAAATCTTTTTCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAGCCCCC‑CCCAGGCTTCCCAGCACAtt > 2:109419/1‑76 (MQ=255)
ctgGAAATCTTTTTCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAGCCCCC‑CCCAGGCTTCCCAGCACATTCTGTAATGGGTTACCGCCGCTTTTCAGCACCGCTTTCGCGCCCATTTCATTAATGCTGTc > 1:1291668/1‑136 (MQ=255)
ctgGAAATCTTTTTCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAGCCCCC‑CCCAGGCTTCCCAGCACATTCTGTAATGGGTTACCGCCGCTTTTCAGCACCGCTTTCGCGCCCATTTCATTAATGCTGTc < 2:1291668/136‑1 (MQ=255)
cTTTTTCCACTCGGTTTGGATTGAGGATTGCAGCCCCC‑CCCAGGCTTCCCAGCACATTCTGTAATGGGTTACCGCCGCTTTTCAGCACCGCTTTCGCGCCCATTTCATTAATGCTGTCCTGTAAAATTCCACCCATTGc > 1:188056/1‑139 (MQ=255)
tttCCACTCGGTTTGGATTGAGGATTGCAG‑cccc‑ccccagg > 1:681446/1‑37 (MQ=255)
tttCCACTCGGTTTGGATTGAGGATTGCAG‑cccc‑ccccagg < 2:681446/41‑5 (MQ=255)
ttCCACTCGGTTTGGATTGAGGATTGCAG‑CCCCGCCCAGGCTTCCCAGCACATTCTGTAATGGGTTACCGCCGCTTTTCAGCACCGCTTTCGCGCCCATTTCATTAATGCTGTCCTGTAAAATTCCACCCATTGCCTGa < 2:276772/139‑1 (MQ=255)
tCGGTTTGGATTGAGGATTGCAGCCCCC‑CCCAGGCTTCCCAGCACATTCTGTAATGGGTTACCGCCGCTTTTCAGCACCGCTTTCGCGCCCATTTCATTAATg > 1:643646/1‑103 (MQ=255)
tCGGTTTGGATTGAGGATTGCAGCCCCC‑CCCAGGCTTCCCAGCACATTCTGTAATGGGTTACCGCCGCTTTTCAGCACCGCTTTCGCGCCCATTTCATTAATg < 2:643646/103‑1 (MQ=255)
tttGGATTGAGGATTGCAGCCCCC‑CCCAGGCTTCCCAGCACATTCTGTAATGGGTTACCGCCGCTTTTCAGCACCGCTTTCGCGCCCATTTCATTAATGCTGTCCTGTAAAATTCCACCCATTGCCTGATTCACTAAtt > 1:214139/1‑139 (MQ=255)
gAGGATTGCAGCCCCC‑CCCAGGCTTCCCAGCACAtt < 1:636375/36‑1 (MQ=255)
gAGGATTGCAGCCCCC‑CCCAGGCTTCCCAGCACAtt > 2:636375/1‑36 (MQ=255)
aGGATTGCAGCCCCC‑CCCAGGCTTCCCAGCACATTCTGTAATGGGTTAccgccg > 1:1112915/1‑54 (MQ=255)
aGGATTGCAGCCCCC‑CCCAGGCTTCCCAGCACATTCTGTAATGGGTTAccgccg < 2:1112915/54‑1 (MQ=255)
aGGATTGCAGCCCCC‑CCCAGGCTTCCCAGCACATTCTGTAATGGGTTAccgc < 2:1221997/52‑1 (MQ=255)
aGGATTGCAGCCCCC‑CCCAGGCTTCCCAGCACATTCTGTAATGGGTTAccgc > 1:1221997/1‑52 (MQ=255)
aGGATTGCAGCCCCC‑CCCAGGCTTCCCAGCACATTCTGTAATGGGTTACCGCCGCTTTTCAGCACCGCTTTCGCGCCCATTTCATTAATGCTGTCCTGTAAAATTCCACCCATTGCCTGATTCACTAATTGCTGGCCtt > 2:537356/1‑139 (MQ=255)
aGGATTGCAGCCCCC‑CCCAGGCTTCCCAGCACATTCTGTAATGGGTTACCGCCGCTTTTCAGCACCGCTTTCGCGCCCATTTCATTAATGCTGTCCTGTAAAATTCCACCCATTGCCTGATTCACTAATTGCTGGCCtt < 1:537356/139‑1 (MQ=255)
ggATTGCAGCCCCC‑CCCAGGCTTCCCAGCACATTCTGTAATGGGTTACCGCCGCTTTTCAGCACCGCTTTCGCGCCCATTTCATTAATGCTGTCCTGTAAAATTCCAcc < 2:782700/109‑1 (MQ=255)
ggATTGCAGCCCCC‑CCCAGGCTTCCCAGCACATTCTGTAATGGGTTACCGCCGCTTTTCAGCACCGCTTTCGCGCCCATTTCATTAATGCTGTCCTGTAAAATTCCAcc > 1:782700/1‑109 (MQ=255)
ggATTGCAGCCCCC‑CCCAGGCTTCCCAGCACATTCTGTAATGGGTTACCGCCGCTTTTCAGCACCGCTTTCGCGCCCATTTCATTAATGCTGTCCTGTAAAATTCCACCCATTGCCTGATTCACTAATTGCTGGCCTTc > 2:1108211/1‑139 (MQ=255)
tGCAGCCCCC‑CCCAGGCTTCCCAGCACATTCTGTAATGGGTTACCGCCGCTTTTCAGCACCGCTTTCGCGCCCAt < 2:452782/75‑1 (MQ=255)
tGCAGCCCCC‑CCCAGGCTTCCCAGCACATTCTGTAATGGGTTACCGCCGCTTTTCAGCACCGCTTTCGCGCCCAt > 1:452782/1‑75 (MQ=255)
tGCAGCCCCC‑CCCAGGCTTCCCAGCACATTCTGTAATGGGTTACCGCCGCTTTTCAGCACCGCTTTCGCGCCCATTTCATTAATGCTGTCCTGTAAAATTCCACCCATTGCCTGATTCACTAATTGCTGGCCTTCGgcg < 2:188056/139‑1 (MQ=255)
tGCAGCCCCC‑CCCAGGCTTCCCAGCACATTCTGTAATGGGTTACCGCCGCTTTTCAGCACCGCTTTCGCGCCCATTTCATTAATGCTGTCCTGTAAAATTCCACCCATTGCCTGATTCACTAATTGCTGGCCTTCGgcg > 2:1324885/1‑139 (MQ=255)
tGCAGCCCCC‑CCCAGGCTTCCCAGCACATTCTGTAATGGGTTACCGCCGCTTTTCAGCACCGCTTTCGCGCCCATTTCATTAATGCTGTCCTGTAAAATTCCACCCATTGCCTGATTCACTAATTGCTGGCCTTCGgcg > 2:924435/1‑139 (MQ=255)
|
AGGATTATTTTAAATTCCCGACCAGGGCTTTGCGGCTATCTTCCAGAGTCACAACGCGGCTACAAACATCTTTGCCAAACTGCTGGAAATCTTTTTCCTGCTTTTTCCACTCGGTTTGGATTGAGGATTGCAG‑CCCC‑CCCAGGCTTCCCAGCACATTCTGTAATGGGTTACCGCCGCTTTTCAGCACCGCTTTCGCGCCCATTTCATTAATGCTGTCCTGTAAAATTCCACCCATTGCCTGATTCACTAATTGCTGGCCTTCGGCG > NC_000913/3100900‑3101165
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
