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 F13 I0 R1
|
140 |
52.5 |
2164708 |
98.8% |
2138731 |
146.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_002947_CJ‑RC |
4,001,773 |
T→G |
36.8% |
intergenic (+90/‑44) |
dmoA‑II → / → allE |
dimethyl‑sulfide monooxygenase/S‑ureidoglycine aminohydrolase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_002947_CJ‑RC | 4,001,773 | 0 | T | G | 36.8%
| 19.9
/ 5.3
| 24 | intergenic (+90/‑44) | dmoA‑II/allE | dimethyl‑sulfide monooxygenase/S‑ureidoglycine aminohydrolase |
| Reads supporting (aligned to +/- strand): ref base T (4/11); new base G (5/4); total (9/15) |
| Fisher's exact test for biased strand distribution p-value = 2.12e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GCCGCGGCGGCCAGCTGCCCGAACGGCACGTTGGACGTCAGGTCAGCATTCAGTGATCAAATACCGGGTATTCCAACATTTAATTTGTGGATGCCACGCACTCGACCCTATTCTGTGGCCACATCCCCTGCG‑CCGCACCGGCCGGTGCGGTTCAAGGCATGGGGAGAGAACAACAAGTCGAGATCGTCCATGTCGAACCATTCATACTTCGCCCCCCACGGTGGGCACCCGGCTCAAACCGAGCTGCTGACTGACCGTGCCATGTTCACCGAAGCCTATGC > NC_002947_CJ‑RC/4001628‑4001908
|
gCCGCGGCGGCCAGCTGCCCGAACGGCACGTTGGACGTCAGGTCAGCATTCAGTGATCAAATACCGGGTATTCCAACATTTAATTTGTGGATGCCACGCACTCGACCCTATTCTGTGGCCACATCCCCTGCG‑CCGCACCGGCCGGt < 5:95598/146‑1 (MQ=255)
cggcCAGCTGCCCGAACGGCACGTTGGACGTCAGGTCAGCATTCAGTGATCAAATACCGGGTATTCCAACATTTAATTTGTGGATGCCACGCACTCGACCCTATTCTGTGGCCACATCCCCTGCG‑CCGCACCGGCCGGTGCGGTTCa < 4:116051/147‑1 (MQ=255)
aGCTGCCCGAACGGCACGTTGGACGGCAGGTCAGCATTCAGTGATCAAATACCGGGTATTCCAACATTTAATTTGTGGATGCCACGCACTCGACCCTATTCTGGGGCCACATCCCCTGCG‑CCGCACCGGCCGGGGCGGTTCAAGGCa < 6:218961/147‑1 (MQ=255)
cTGCCCGAACGGCACGTTGGACTTCAGGTCAGCATTCAGTGATCAAATACCGGGTATTCCAACATTTAATTTGTGGATGCCACGCTCTCGACCCTATTCTGTGGCCACATCCCCTGCG‑CCGCACCGGCCGGTGCGGTTCAAGGCATg < 6:141180/147‑1 (MQ=255)
cTGCCCGAACGGCACGTTGGACGTCAGGTCAGCATTCAGTGATCAAATACCGGGTATTCCAACATTTAATTTGTGGATGCCACGCACTCGACCCTATTCTGTGGCCACATCCCCTGCG‑CCGCCCCGGCCCGGGGGGTTGAAGGCATg > 6:200059/1‑147 (MQ=255)
tGCCCGAACGGCACGTTGGACGTCAGGTCAGCATTCAGTGATCAAATACCGGGTATTCCAACATTTAATTTGTGGATGCCACGCACTCGACCCTATTCTGTGGCCACATCCCCTGCG‑CCGCACCGGCCGGTGCGGTTCAAGGCATgg < 3:84629/147‑1 (MQ=255)
cccGAACGGCACGTTGGACGTCAGGTCAGCATTCAGTGATCAAATACCGGGTATTCCAACATTTAATTTGTGGATGCCACGCACTCGACCCTATTCTGTGGCCACATCCCCTGCG‑CCCCCCCGGCCGGTGCGGTTAAAGGCAAgg > 8:25904/1‑145 (MQ=255)
ccGAACGGCACGTTGGACGTCAGGTCAGCATTCAGTGATCAAATACCGGGTATTCCAACATTTAATTTGTGGATGCCACGCACTCGACCCTATTCTGTGGCCACATCCCCTGCG‑CCGCACCGGCCGGTGCGGTTCAAGGCATggg < 1:221527/145‑1 (MQ=255)
cGAACGGCACGTTGGACGTCAGGTCAGCATTCAGTGATCAAATACCGGGTATTCCAACATTTAATTTGTGGATGCCACGCACTCGACCCTATTCTGTGGCCACATCCCCTGCG‑CCGCACCGGCCGGTGCGGTTCAAGGCATGGGgag < 1:57399/147‑1 (MQ=255)
gAACGGCACGTTGGACGTCAGGTCAGCATTCAGTGATCAAATACCGGGTATTCCAACATTTAATTTGTGGATGCCACGCACTCGACCCTATTCTGTGGCCACATCCCCTGCGCCCCCCCCGCCCGGGGCGG‑TCAAGGCCAgggggg > 6:128055/1‑144 (MQ=255)
cACGTTGGACGTCAGGTCAGCATTCAGTGATCAAATACCGGGTATTCCAACATTTAATTTGTGGATGCCACGCACTCGACCCTATTCTGTGGCCACATCCCCTGCG‑CCGCACCGGCCGGGGCGGTTCAAGGCATGGGGAGAGaacaa < 3:227764/147‑1 (MQ=255)
cGTTGGACGTCAGGTCAGCATTCAGTGATCAAATACCGGGTATTCCAACATTTAATTTGTGGATGCCACGCACTCGACCCTATTCTGTGGCCACATCCCCTGCG‑CCGCACCGGCCGGTGCAGTTCAAGGCATGGGGAGAGAacaaca < 4:129364/147‑1 (MQ=255)
gTTGGACGTCAGGTCAGCATTCAGTGATCAAATACCGGGTATTCCAACATTTAATTTGTGGATGCCACGCACTCGACCCTATTCTGTGGCCACATCCCCTGCG‑CCGCACCCGCCCGGGCGGGTGAAGGCAAGGGGTGAGGAcaacaa > 8:225009/1‑147 (MQ=255)
cATTCAGTGATCAAATACCGGGTATTCCAACATTTAATTTGTGGATGCCACGCACTCGACCCTATTCTGTGGCCACATCCCCTGCG‑CCGCCCCGGCCCCGGCGGTTAAAGGAAATGGGACTCAAAAAAAAGTCGAGATCGTcactgt > 6:208955/1‑142 (MQ=255)
tCAGAGATCAAATACCGGTTATTCCAACATTTATTTTGTGGATGCCACGCACTCGACCCTATTGTGTGCCCACAACCCCTGCG‑CCGCACCGGCGGGTGCGGTTCAAGGCATGGGGAGAGAACAACAAGTCGAGATCGTCCATGTCGa < 7:254340/147‑1 (MQ=255)
gggTATTCCAACATTTAATTTGTGGATGCCACGCACTCGACCCTATTCTGTGGCCACATCCCCTGCG‑CCGCACCGGCCGGGGCGGTTCAAGGCATGGGGAGAGAACAACAAGTCGAGATCGTCCATGTCGAACCATTCATACTTCGc < 3:215035/147‑1 (MQ=255)
aaCATTTAATTTGTGGATGCCACGCACTCGACCCTATTCTGTGGCCACATCCCCTGCG‑CCGCACCGGCCGGTGCGGTTCAAGGCATGGGGAGAGAACAACAAGTCGAGATCGTCCATGTCGAACCATTCATACTTCGCCCCCCACg < 8:187780/146‑1 (MQ=255)
aaCATTTAATTTGTGGATGCCACGCACTCGACCCTATTCTGTGGCCACATCCCCTGCG‑CCGCACCCGCCCGGGCGGTTAAATGGAAGGGGTGAGAAAAAAAAATAGAGATAGTCAAATTTGAACCATTAATAAATAGCCCCCCACgc > 8:137023/1‑146 (MQ=255)
aCATTTAATTTGTGGATGCCACGCACTCGACCCTATTCTGTGGCCACATCCCCTGCG‑CCGCACCGGCCCGTGCGGGTGAAGGCAAGGGGTGAGAACAACAATAGGACAACGTACATTTTGAACCATTAAAACATAAcccccccccct > 8:70088/1‑142 (MQ=255)
cATTTAATTTGTGGAGGCCCCGCACTCGACCCTATTCTGGGGCCACAGCCCCTGCG‑CCGCACCGGCCGGGGCGGTTCAAGGCATGGGGAGAGAACAACAAGTCGAGATCGTCCATGTCGAACCATTCATACTTCGCCCCCCACGGTg < 1:31716/147‑1 (MQ=255)
aTTTAATTTGTGGAGGCCACGCACTCGACCCTATTCTGTGGCCACATCCCCTGCG‑CCGCACCGGCCGGTGCGGTTCAAGGCATGGGGAGAGAACAACAAGTCGAGATCGTCCATGTCGAACCATTCATACTTCGCCCCCCACGGTgg < 5:80209/147‑1 (MQ=255)
cTCGACCCTATTCTGTGGCCACATCCCCTGCG‑CCGCACCGGCCGGTGCGGTGAAAGGCATGGGGGGAGAACAACAAGTCGAGATCGTCCAGGTCGAACCATTAATACTTCGCCCCCCCCGGTGGGCCCCCGGCGCAAACCgcgcgcc > 8:149354/1‑144 (MQ=255)
aCCCTATTCTGTGGCCACATCCCCTGCG‑CCGCACCGGCCGGTGCGGTTCAAGGCATGGGGAGAGAACAACAAGTCGAGATCGTCCATGTCGAACCATTCATACTTCGCCCCCCACGGTGGGCACCCGGCTCAAACCGAGctgctg < 2:19898/145‑1 (MQ=255)
cTGCG‑CCGCACCGGCCGGTGCGGTTCAAGGCATGGGGAGAGAACAACAAGTCGAGATCGTCCATGTCGAACCATTCATACTTCGCCCCCCACGGTGGGCACCCGGCTCAAACCGAGCTGCTGACTGACCGTGCCATGTTCACCGAAg < 3:226274/147‑1 (MQ=255)
gcACCGGCCGGTGCGGTTCAAGGCATGGGGAGAGAACAACAAGTCGAGATCTTCCATGTCGCACCATTCATACTTCGCCCCCCACAGTGGGCACCCGGCTCAAACCGAGCTGCTGACTGACCGTGCCATGTTCACCGAAGCCTATGc > 5:172787/1‑147 (MQ=255)
|
GCCGCGGCGGCCAGCTGCCCGAACGGCACGTTGGACGTCAGGTCAGCATTCAGTGATCAAATACCGGGTATTCCAACATTTAATTTGTGGATGCCACGCACTCGACCCTATTCTGTGGCCACATCCCCTGCG‑CCGCACCGGCCGGTGCGGTTCAAGGCATGGGGAGAGAACAACAAGTCGAGATCGTCCATGTCGAACCATTCATACTTCGCCCCCCACGGTGGGCACCCGGCTCAAACCGAGCTGCTGACTGACCGTGCCATGTTCACCGAAGCCTATGC > NC_002947_CJ‑RC/4001628‑4001908
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
