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 I229 R1
|
214 |
17.4 |
943020 |
97.5% |
919444 |
87.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
1,840,928 |
T→C |
E97G (GAA→GGA) |
topB ← |
DNA topoisomerase III |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 1,840,928 | 0 | T | C | 100.0%
| 59.2
/ NA
| 20 | E97G (GAA→GGA) | topB | DNA topoisomerase III |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (11/9); total (11/9) |
TTTCCGGTGCCAGTTGCAGATAGTCCAGCACTTCATCCACCAGCAATTGCCCTTCACGATCCGGGTCCCCGGCGTGAACGATTTCGCTGGCTTCATGCAGGAACCGTTTGATGACGTTAAGTTGTTTGGTCACGGAGGGTCGGGGCTGTAATTGCCACTTTTCCGGGAC > NZ_CP009273/1840845‑1841013
|
tttCCGGTGCCAGTTGCAGATAGTCCAGCACTTCATCCACCAGCAATTGCCCTTCACGATCCGGGTCCCCGGCGTGAACGATTCCGCTgg < 1:291210/90‑1 (MQ=255)
cGGTGCCAGTTGCAGATAGTCCAGCACTTCATCCACCAGCAATTGCCCTTCACGATCCGGGTCCCCGGCGTGAACGATTCCGCTGGCTTc < 2:76222/90‑1 (MQ=255)
cGGTGCCAGTTGCAGATAGTCCAGCACTTCATCCACCAGCAATTGCCCTTCACGATCCGGGTCCCCGGCGTGAACGATTCCGCTGGCTTc < 2:21514/90‑1 (MQ=255)
gCCAGTTGCAGATAGTCCAGCACTTCATCCACCAGCAATTGCCCTTCACGATCCGGGTCCCCGGCGTGAACGATTCCGCTGGCTTCATGc > 1:66739/1‑90 (MQ=255)
ttGCAGATAGTCCAGCACTTCATCCACCAGCAATTGCCCTTCACGATCCGGGTCCCCGGCGTGAACGATTCCGCTGGCTTCATGCAGGaa < 2:224342/90‑1 (MQ=255)
gTCCAGCACTTCATCCACCAGCAATTGCCCTTCACGATCCGGGTCCCCGGCGTGAACGATTCCGCTGGCTTCATGCAGGAACCGTTtgat > 1:250148/1‑90 (MQ=255)
cTTCATCCACCAGCAATTGCCCTTCACGATCCGGGTCCCCGGCGTGAACGATTCCGCTGGCTTCATGCAGGAACCGTTTGATGACGTTaa > 2:136669/1‑90 (MQ=255)
tCATCCACCAGCAATTGCCCTTCACGATCCGGGTCCCCGGCGTGAACGATTCCGCTGGCTTCATGCAGGAACCGTTTGATGACGTTAAgt > 1:272769/1‑90 (MQ=255)
tCATCCACCAGCAATTGCCCTTCACGATCCGGGTCCCCGGCGTGAACGATTCCGCTGGCTTCATGCAGGAACCGTTTGATGACGTTAAgt > 2:214354/1‑90 (MQ=255)
tCATCCACCAGCAATTGCCCTTCACGATCCGGGTCCCCGGCGTGAACGATTCCGCTGGCTTCATGCAGGAACCGTTTGATGACGTTAAgt > 1:52965/1‑90 (MQ=255)
caccaGCAATTGCCCTTCACGATCCGGGTCCCCGGCGTGAACGATTCCGCTGGCTTCATGCAGGAACCGTTTGATGACGTTAAGTTGttt < 1:111443/90‑1 (MQ=255)
ttGCCCTTCACGATCCGGGTCCCCGGCGTGAACGATTCCGCTGGCTTCATGCAGGAACCGTTTGATGACGTTAAGTTGTTTGGTCACGGa < 2:93766/90‑1 (MQ=255)
gCCCTTCACGATCCGGGTCCCCGGCGTGAACGATTCCGCTGGCTTCATGCAGGAACCGTTTGATGACGTTAAGTTGTTTGGTCACGGAgg < 2:51144/90‑1 (MQ=255)
ggTCCCCGGCGTGAACGATTCCGCTGGCTTCATGCAGGAACCGTTTGATGACGTTAAGTTGTTTGGTCACGGAGGGTCGGGGCTGTAAtt > 2:50929/1‑90 (MQ=255)
ccGGCGTGAACGATTCCGCTGGCTTCATGCAGGAACCGTTTGATGACGTTAAGTTGTTTGGTCACGGAGGGTCGGGGCTGTAATTGCCAc > 1:462766/1‑90 (MQ=255)
ccGGCGTGAACGATTCCGCTGGCTTCATGCAGGAACCGTTTGATGACGTTAAGTTGTTTGGTCACGGAGGGTCGGGGCTGTAATTGCCAc > 2:410871/1‑90 (MQ=255)
ccGGCGTGAACGATTCCGCTGGCTTCATGCAGGAACCGTTTGATGACGTTAAGTTGTTTGGTCACGGAGGGTCGGGGCTGTAATTGCCAc > 1:17718/1‑90 (MQ=255)
cGGCGTGAACGATTCCGCTGGCTTCATGCAGGAACCGTTTGATGACGTTAAGTTGTTTGGTCACGGAGGGTCGGGGCTGTAATTGCCACt > 1:193929/1‑90 (MQ=255)
aCGATTCCGCTGGCTTCATGCAGGAACCGTTTGATGACGTTAAGTTGTTTGGTCACGGAGGGTCGGGGCTGTAATTGCCACTTTTCCggg < 1:4999/90‑1 (MQ=255)
gATTCCGCTGGCTTCATGCAGGAACCGTTTGATGACGTTAAGTTGTTTGGTCACGGAGGGTCGGGGCTGTAATTGCCACTTTTCCGGGAc < 1:214354/90‑1 (MQ=255)
|
TTTCCGGTGCCAGTTGCAGATAGTCCAGCACTTCATCCACCAGCAATTGCCCTTCACGATCCGGGTCCCCGGCGTGAACGATTTCGCTGGCTTCATGCAGGAACCGTTTGATGACGTTAAGTTGTTTGGTCACGGAGGGTCGGGGCTGTAATTGCCACTTTTCCGGGAC > NZ_CP009273/1840845‑1841013
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
CTTTTCCGGTGCCAGTTGCAGATAGTCCAGCACTTCATCCACCAGCAATTGCCCTTCACGATCCGGGTCCCCGGCGTGAACGATTTCGCTGGCTTCATGCAGGAACCGTTTGATGACGTTAAGTTGTTTGGTCACGGAGGGTCGGGGCTGTAATTGCCACTTTTCCGGGACAATCGGCAAA > NZ_CP009273/1840843‑1841023
|
CTTTTCCGGTGCCAGTTGCAGATAGTCCAGCACTTCATCCACCAGCAATTGCCCTTCACGATCCGGGTCCCCGGCGTGAACGATTCCGCTGGCTTCATGC > SRR3722113.67325/1‑100 (MQ=60)
TTTCCGGTGCCAGTTGCAGATAGTCCAGCACTTCATCCACCAGCAATTGCCCTTCACGATCCGGGTCCCCGGCGTGAACGATTCCGCTGGCTTCATGCAG < SRR3722113.293910/100‑1 (MQ=60)
GTTGCAGATAGTCCAGCACTTCATCCACCAGCAATTGCCCTTCACGATCCGGGTCCCCGGCGTGAACGATTCCGCTGGCTTCATGCAGGAACCGTTTGAT > SRR3722113.252317/1‑100 (MQ=60)
GTCCAGCACTTCATCCACCAGCAATTGCCCTTCACGATCCGGGTCCCCGGCGTGAACGATTCCGCTGGCTTCATGCAGGAACCGTTTGATGACGTTAAGT > SRR3722113.275171/1‑100 (MQ=60)
GTCCAGCACTTCATCCACCAGCAATTGCCCTTCACGATCCGGGTCCCCGGCGTGAACGATTCCGCTGGCTTCATGCAGGAACCGTTTGATGACGTTAAGT > SRR3722113.53414/1‑100 (MQ=60)
CACCAGCAATTGCCCTTCACGATCCGGGTCCCCGGCGTGAACGATTCCGCTGGCTTCATGCAGGAACCGTTTGATGACGTTAAGTTGTTTGGTCACGGAG < SRR3722113.112415/100‑1 (MQ=60)
ATCCGGGTCCCCGGCGTGAACGATTCCGCTGGCTTCATGCAGGAACCGTTTGATGACGTTAAGTTGTTTGGTCACGGAGGGTCGGGGCTGTAATTGCCAC > SRR3722113.17877/1‑100 (MQ=60)
ATCCGGGTCCCCGGCGTGAACGATTCCGCTGGCTTCATGCAGGAACCGTTTGATGACGTTAAGTTGTTTGGTCACGGAGGGTCGGGGCTGTAATTGCCAC > SRR3722113.467656/1‑100 (MQ=60)
TCCGGGTCCCCGGCGTGAACGATTCCGCTGGCTTCATGCAGGAACCGTTTGATGACGTTAAGTTGTTTGGTCACGGAGGGTCGGGGCTGTAATTGCCACT > SRR3722113.195438/1‑100 (MQ=60)
ACGATTCCGCTGGCTTCATGCAGGAACCGTTTGATGACGTTAAGTTGTTTGGTCACGGAGGGTCGGGGCTGTAATTGCCACTTTTCCGGGACAATCGGCA < SRR3722113.5056/100‑1 (MQ=60)
GATTCCGCTGGCTTCATGCAGGAACCGTTTGATGACGTTAAGTTGTTTGGTCACGGAGGGTCGGGGCTGTAATTGCCACTTTTCCGGGACAATCGGCAAA < SRR3722113.216035/100‑1 (MQ=60)
|
CTTTTCCGGTGCCAGTTGCAGATAGTCCAGCACTTCATCCACCAGCAATTGCCCTTCACGATCCGGGTCCCCGGCGTGAACGATTTCGCTGGCTTCATGCAGGAACCGTTTGATGACGTTAAGTTGTTTGGTCACGGAGGGTCGGGGCTGTAATTGCCACTTTTCCGGGACAATCGGCAAA > NZ_CP009273/1840843‑1841023
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
