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 F2 I228 R1
|
214 |
26.5 |
1448192 |
97.1% |
1406194 |
86.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
2,995,567 |
A→G |
T635A (ACC→GCC) |
xdhA → |
xanthine dehydrogenase molybdenum‑binding subunit XdhA |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 2,995,567 | 0 | A | G | 100.0%
| 98.9
/ NA
| 30 | T635A (ACC→GCC) | xdhA | xanthine dehydrogenase molybdenum‑binding subunit XdhA |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (17/13); total (17/13) |
AAAGCTCCATCAAAACCACCACTAACCCACCGGCGTTTGGCTGTACCTTTGTTGATCTGACGGTCGATATTGCGCTGTGCAAAGTCACCATCAACCGCATCCTCAACGTTCATGATTCAGGGCATATTCTTAATCCACTGCTGGCAGAAGGTCAGGTACACGGCGGAATG > NZ_CP009273/2995481‑2995650
|
aaaGCTCCATCAAAACCACCACTAACCCACCGGCGTTTGGCTGTACCTTTGTTGATCTGACGGTCGATATTGCGCTGTGCAAAGTCGCCa < 1:110704/90‑1 (MQ=255)
cTCCATCAAAACCACCACTAACCCACCGGCGTTTGGCTGTACCTTTGTTGATCTGACGGTCGATATTGCGCTGTGCAAAGTCGCCATCaa < 2:151136/90‑1 (MQ=255)
cTCCATCAAAACCACCACTAACCCACCGGCGTTTGGCTGTACCTTTGTTGATCTGACGGTCGATATTGCGCTGTGCAAAGTCGCCATCaa > 1:709852/1‑90 (MQ=255)
ccATCAAAACCACCACTAACCCACCGGCGTTTGGCTGTACCTTTGTTGATCTGACGGTCGATATTGCGCTGTGCAAAGTCGCCATCAAcc > 2:117289/1‑90 (MQ=255)
accaccACTAACCCACCGGCGTTTGGCTGTACCTTTGTTGATCTGACGGTCGATATTGCGCTGTGCAAAGTCGCCATCAACCGCATCCTc < 1:325145/90‑1 (MQ=255)
ccaccaCTAACCCACCGGCGTTTGGCTGTACCTTTGTTGATCTGACGGTCGATATTGCGCTGTGCAAAGTCGCCATCAACCGCATCCTCa < 2:639089/90‑1 (MQ=255)
caccacTAACCCACCGGCGTTTGGCTGTACCTTTGTTGATCTGACGGTCGATATTGCGCTGTGCAAAGTCGCCATCAACCGCATCCTCaa < 1:266194/90‑1 (MQ=255)
accacTAACCCACCGGCGTTTGGCTGTACCTTTGTTGATCTGACGGTCGATATTGCGCTGTGCAAAGTCGCCATCAACCGCATCCTCAAc > 1:163081/1‑90 (MQ=255)
ccacTAACCCACCGGCGTTTGGCTGTACCTTTGTTGATCTGACGGTCGATATTGCGCTGTGCAAAGTCGCCATCAACCGCATCCTCAACg > 1:543522/1‑90 (MQ=255)
ccacTAACCCACCGGCGTTTGGCTGTACCTTTGTTGATCTGACGGTCGATATTGCGCTGTGCAAAGTCGCCATCAACCGCATCCTCAACg < 2:543522/90‑1 (MQ=255)
aaCCCACCGGCGTTTGGCTGTACCTTTGTTGATCTGACGGTCGATATTGCGCTGTGCAAAGTCGCCATCAACCGCATCCTCAACGTTCAt < 1:589006/90‑1 (MQ=255)
aCCGGCGTTTGGCTGTACCTTTGTTGATCTGACGGTCGATATTGCGCTGTGCAAAGTCGCCATCAACCGCATCCTCAACGTTCATGATTc > 1:460049/1‑90 (MQ=255)
gTACCTTTGTTGATCTGACGGTCGATATTGCGCTGTGCAAAGTCGCCATCAACCGCATCCTCAACGTTCATGATTCAGGGCATATTCTTa > 2:251137/1‑90 (MQ=255)
gTACCTTTGTTGATCTGACGGTCGATATTGCGCTGTGCAAAGTCGCCATCAACCGCATCCTCAACGTTCATGATTCAGGGCATATTCTTa > 2:610481/1‑90 (MQ=255)
tACCTTTGTTGATCTGACGGTCGATATTGCGCTGTGCAAAGTCGCCATCAACCGCATCCTCAACGTTCATGATTCAGGGCATATTCTTaa > 1:213710/1‑90 (MQ=255)
ttgttgATCTGACGGTCGATATTGCGCTGTGCAAAGTCGCCATCAACCGCATCCTCAACGTTCATGATTCAGGGCATATTCTTAATCCAc < 2:527043/90‑1 (MQ=255)
gACGGTCGATATTGCGCTGTGCAAAGTCGCCATCAACCGCATCCTCAACGTTCATGATTCAGGGCATATTCTTAATCCACTGCTGGCAGa > 2:190096/1‑90 (MQ=255)
gACGGTCGATATTGCGCTGTGCAAAGTCGCCATCAACCGCATCCTCAACGTTCATGATTCAGGGCATATTCTTAATCCACTGCTGGCAGa < 2:639095/90‑1 (MQ=255)
gACGGTCGATATTGCGCTGTGCAAAGTCGCCATCAACCGCATCCTCAACGTTCATGATTCAGGGCATATTCTTAATCCACTGCTGGCAGa > 1:135937/1‑90 (MQ=255)
aCGGTCGATATTGCGCTGTGCAAAGTCGCCATCAACCGCATCCTCAACGTTCATGATTCAGGGCATATTCTTAATCCACTGCTGGCAGaa < 1:303817/90‑1 (MQ=255)
tCGATATTGCGCTGTGCAAAGTCGCCATCAACCGCATCCTCAACGTTCATGATTCAGGGCATATTCTTAATCCACTGCTGGCAGAAGGTc > 2:74826/1‑90 (MQ=255)
tCGATATTGCGCTGTGCAAAGTCGCCATCAACCGCATCCTCAACGTTCATGATTCAGGGCATATTCTTAATCCACCGCTGGCAGAAGGTc > 2:543239/1‑90 (MQ=255)
cGATATTGCGCTGTGCAAAGTCGCCATCAACCGCATCCTCAACGTTCATGATTCAGGGCata > 1:617916/1‑62 (MQ=255)
cGATATTGCGCTGTGCAAAGTCGCCATCAACCGCATCCTCAACGTTCATGATTCAGGGCata < 2:617916/62‑1 (MQ=255)
cTGTGCAAAGTCGCCATCAACCGCATCCTCAACGTTCATGATTCAGGGCATATTCTTAATCCACTGCTGGCAGAAGGTCAGGTACAcggc < 1:74826/90‑1 (MQ=255)
gtgCAAAGTCGCCATCAACCGCATCCTCAACGTTCATGATTCAGGGCATATTCTTAATCCACTGCTGGCAGAAGGTCAGGTACAcggcgg > 1:701275/1‑90 (MQ=255)
gtgCAAAGTCGCCATCAACCGCATCCTCAACGTTCATGATTCAGGGCATATTCTTAATCCACTGCTGGCAGAAGGTCAGGTACAcggcgg > 1:489665/1‑90 (MQ=255)
gtgCAAAGTCGCCATCAACCGCATCCTCAACGTTCATGATTCAGGGCATATTCTTAATCCACTGCTGGCAGAAGGTCAGGTACAcggcgg > 1:406119/1‑90 (MQ=255)
gtgCAAAGTCGCCATCAACCGCATCCTCAACGTTCATGATTCAGGGCATATTCTTAATCCACTGCTGGCAGAAGGTCAGGTACAcggcgg > 1:374195/1‑90 (MQ=255)
aaaGTCGCCATCAACCGCATCCTCAACGTTCATGATTCAGGGCATATTCTTAATCCACTGCTGGCAGAAGGTCAGGTACACGGCggaatg < 1:195228/90‑1 (MQ=255)
|
AAAGCTCCATCAAAACCACCACTAACCCACCGGCGTTTGGCTGTACCTTTGTTGATCTGACGGTCGATATTGCGCTGTGCAAAGTCACCATCAACCGCATCCTCAACGTTCATGATTCAGGGCATATTCTTAATCCACTGCTGGCAGAAGGTCAGGTACACGGCGGAATG > NZ_CP009273/2995481‑2995650
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
CTGCTGAAAGCTCCATCAAAACCACCACTAACCCACCGGCGTTTGGCTGTACCTTTGTTGATCTGACGGTCGATATTGCGCTGTGCAAAGTCACCATCAACCGCATCCTCAACGTTCATGATTCAGGGCATATTCTTAATCCACTGCTGGCAGAAGGTCAGGTACACGGCGGAATGGGAATGGGCATTGGC > NZ_CP009273/2995475‑2995665
|
CTGCTGAAAGCTCCATCAAAACCACCACTAACCCACCGGCGTTTGGCTGTACCTTTGTTGATCTGACGGTCGATATTGCGCTGTGCAAAGTCGCCATCAA > SRR3722112.720955/1‑100 (MQ=60)
AAAGCTCCATCAAAACCACCACTAACCCACCGGCGTTTGGCTGTACCTTTGTTGATCTGACGGTCGATATTGCGCTGTGCAAAGTCGCCATCAACCGCAT < SRR3722112.112083/100‑1 (MQ=60)
CATCAAAACCACCACTAACCCACCGGCGTTTGGCTGTACCTTTGTTGATCTGACGGTCGATATTGCGCTGTGCAAAGTCGCCATCAACCGCATCCTCAAC > SRR3722112.165088/1‑100 (MQ=60)
ATCAAAACCACCACTAACCCACCGGCGTTTGGCTGTACCTTTGTTGATCTGACGGTCGATATTGCGCTGTGCAAAGTCGCCATCAACCGCATCCTCAACG > SRR3722112.551677/1‑100 (MQ=60)
ACCACCACTAACCCACCGGCGTTTGGCTGTACCTTTGTTGATCTGACGGTCGATATTGCGCTGTGCAAAGTCGCCATCAACCGCATCCTCAACGTTCATG < SRR3722112.329001/100‑1 (MQ=60)
CACCACTAACCCACCGGCGTTTGGCTGTACCTTTGTTGATCTGACGGTCGATATTGCGCTGTGCAAAGTCGCCATCAACCGCATCCTCAACGTTCATGAT < SRR3722112.269315/100‑1 (MQ=60)
CCACTAACCCACCGGCGTTTGGCTGTACCTTTGTTGATCTGACGGTCGATATTGCGCTGTGCAAAGTCGCCATCAACCGCATCCTCAACGTTCATGATTC > SRR3722112.466549/1‑100 (MQ=60)
AACCCACCGGCGTTTGGCTGTACCTTTGTTGATCTGACGGTCGATATTGCGCTGTGCAAAGTCGCCATCAACCGCATCCTCAACGTTCATGATTCAGGGC < SRR3722112.597999/100‑1 (MQ=60)
CGTTTGGCTGTACCTTTGTTGATCTGACGGTCGATATTGCGCTGTGCAAAGTCGCCATCAACCGCATCCTCAACGTTCATGATTCAGGGCATATTCTTAA > SRR3722112.216287/1‑100 (MQ=60)
TTGTTGATCTGACGGTCGATATTGCGCTGTGCAAAGTCGCCATCAACCGCATCCTCAACGTTCATGATTCAGGGCATATTCTTAATCCACTGCTGGCAGA > SRR3722112.137631/1‑100 (MQ=60)
ATCTGACGGTCGATATTGCGCTGTGCAAAGTCGCCATCAACCGCATCCTCAACGTTCATGATTCAGGGCATATTCTTAATCCctgtctcttatacacatc > SRR3722112.627451/1‑82 (MQ=60)
ACGGTCGATATTGCGCTGTGCAAAGTCGCCATCAACCGCATCCTCAACGTTCATGATTCAGGGCATATTCTTAATCCACTGCTGGCAGAAGGTCAGGTAC < SRR3722112.307310/100‑1 (MQ=60)
ATATTGCGCTGTGCAAAGTCGCCATCAACCGCATCCTCAACGTTCATGATTCAGGGCATATTCTTAATCCACTGCTGGCAGAAGGTCAGGTACACGGCGG > SRR3722112.411485/1‑100 (MQ=60)
ATATTGCGCTGTGCAAAGTCGCCATCAACCGCATCCTCAACGTTCATGATTCAGGGCATATTCTTAATCCACTGCTGGCAGAAGGTCAGGTACACGGCGG > SRR3722112.496740/1‑100 (MQ=60)
ATATTGCGCTGTGCAAAGTCGCCATCAACCGCATCCTCAACGTTCATGATTCAGGGCATATTCTTAATCCACTGCTGGCAGAAGGTCAGGTACACGGCGG > SRR3722112.379035/1‑100 (MQ=60)
ATATTGCGCTGTGCAAAGTCGCCATCAACCGCATCCTCAACGTTCATGATTCAGGGCATATTCTTAATCCACTGCTGGCAGAAGGTCAGGTACACGGCGG > SRR3722112.712228/1‑100 (MQ=60)
CTGTGCAAAGTCGCCATCAACCGCATCCTCAACGTTCATGATTCAGGGCATATTCTTAATCCACTGCTGGCAGAAGGTCAGGTACACGGCGGAATGGGAA < SRR3722112.75741/100‑1 (MQ=60)
GTGCAAAGTCGCCATCAACCGCATCCTCAACGTTCATGATTCAGGGCATATTCTTAATCCACTGCTGGCAGAAGGTCAGGTACACGGCGGAATGGGAATG > SRR3722112.86441/1‑100 (MQ=60)
AAAGTCGCCATCAACCGCATCCTCAACGTTCATGATTCAGGGCATATTCTTAATCCACTGCTGGCAGAAGGTCAGGTACACGGCGGAATGGGAATGGGCA < SRR3722112.197613/100‑1 (MQ=60)
CGCCATCAACCGCATCCTCAACGTTCATGATTCAGGGCATATTCTTAATCCACCGCTGGCAGAAGGTCAGGTACACGGCGGAATGGGAATGGGCATTGGC < SRR3722112.551387/100‑1 (MQ=60)
|
CTGCTGAAAGCTCCATCAAAACCACCACTAACCCACCGGCGTTTGGCTGTACCTTTGTTGATCTGACGGTCGATATTGCGCTGTGCAAAGTCACCATCAACCGCATCCTCAACGTTCATGATTCAGGGCATATTCTTAATCCACTGCTGGCAGAAGGTCAGGTACACGGCGGAATGGGAATGGGCATTGGC > NZ_CP009273/2995475‑2995665
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
