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 |
|
A2 F5 I184 R1
|
278 |
29.6 |
1166432 |
97.3% |
1134938 |
124.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
803,907 |
A→G |
I269I (ATT→ATC) |
bioA ← |
adenosylmethionine‑‑8‑amino‑7‑oxononanoate transaminase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 803,907 | 0 | A | G | 100.0%
| 38.1
/ NA
| 11 | I269I (ATT→ATC) | bioA | adenosylmethionine‑‑8‑amino‑7‑oxononanoate transaminase |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (6/5); total (6/5) |
TGCCCATAAAAGTTGGCCCATGCATAAAGCAACCGGCTTCACCGTTACTGATGGTTTCTGCAACCTCGCGCGTGGTGAGTGTGGCGGAAAGGGTCATTGTGCCGCCGGTTAAGGCTTTACCGAGGCACAAAATGTCCGGCGCGATTTCTGCATGTTCACAGGCAAACAGTTTCCCGGTACGACCAAATCCAGTGGCGATCTCGTCGGCAATCAGCAAGATACCTTCGCGATCGCATATTTTGCGGATTCGTTTTAACCATTCCGGA > NZ_CP009273/803777‑804042
|
tGCCCATAAAAGTTGGCCCATGCATAAAGCAACCGGCTTCACCGTTACTGATGGTTTCTGCAACCTCGCGCGTGGTGAGTGTGGCGGAAAGGGTCATTGTGCCGCCGGTTAAGGCTTTACCGAGGCACAAGATGTCCgg > 1:50400/1‑139 (MQ=255)
aCCGTTACTGATGGTTTCTGCAACCTCGCGCGTGGTGAGTGTGGCGGAAAGGGTCATTGTGCCGCCGGTTAAGGCTTTACCGAGGCACAAGATGTCCGGCGCGATTTCTGCATGTTCACAGGCAAACAGTTTCCCGGTa < 2:50400/139‑1 (MQ=255)
aTGGTTTCTGCAACCTCGCGCGTGGTGAGTGTGGCGGAAAGGGTCATTGTGCCGCCGGTTAAGGCTTTACCGAGGCACAAGATGTCCGGCGCGATTTCTGCATGTTCACAGGCAAACAGTTTCCCGGTACGACCAAATc > 1:13465/1‑139 (MQ=255)
ggTTTCTGCAACCTCGCGCGTGGTGAGTGTGGCGGAAAGGGTCATTGTGCCGCCGGTTAAGGCTTTACCGAGGCACAAGATGTCCGGCGCGATTTCTGCATGTTCACAGGCAAACAGTTTCCCGGTACGACCAAATc > 1:456959/1‑137 (MQ=255)
cgcgTGGTGAGTGTGGCGGAAAGGGTCATTGTGCCGCCGGTTAAGGCTTTACCGAGGCACAAGATGTCCGGCGCGATTTCTGCATGTTCACAGGCAAACAGTTTCCCGGTACGACCAAATCCAGTGGCGATCTCGTCgg > 2:147527/1‑139 (MQ=255)
cgTGGTGAGTGTGGCGGAAAGGGTCATTGTGCCGCCGGTTAAGGCTTTACCGAGGCACAAGATGTCCGGCGCGATTTCTGCATGTTCACAGGCAAACAGTTTCCCGGTACGACCAAATCCAGTGGCGATCTCGTCGGCa < 2:135185/139‑1 (MQ=255)
tgtgCCGCCGGTTAAGGCTTTACCGAGGCACAAGATGTCCGGCGCGATTTCTGCATGTTCACAGGCAAACAGTTTCCCGGTACGACCAAATCCAGTGGCGAt > 1:70946/1‑102 (MQ=255)
tgtgCCGCCGGTTAAGGCTTTACCGAGGCACAAGATGTCCGGCGCGATTTCTGCATGTTCACAGGCAAACAGTTTCCCGGTACGACCAAATCCAGTGGCGAt < 2:70946/102‑1 (MQ=255)
gccgGTTAAGGCTTTACCGAGGCACAAGATGTCCGGCGCGATTTCTGCATGTTCACAGGCAAACAGTTTCCCGGTACGACCAAATCCAGTGGCGATCTCGTCGGCAATCAGCAAGATACCTTCGCGATCGCATATTTTg > 2:471066/1‑139 (MQ=255)
aCCGAGGCACAAGATGTCCGGCGCGATTTCTGCATGTTCACAGGCAAACAGTTTCCCGGTACGACCAAATCCAGTGGCGATCTCGTCGGCAATCAGCAAGATACCTTCGCGATCGCATATTTTGCGGATTCGTTTTaa < 1:383490/138‑1 (MQ=255)
caAGATGTCCGGCGCGATTTCTGCATGTTCACAGGCAAACAGTTTCCCGGTACGACCAAATCCAGTGGCGATCTCGTCGGCAATCAGCAAGATACCTTCGCGATCGCATATTTTGCGGATTCGTTTTAACCATTCCGGa < 2:480556/139‑1 (MQ=255)
|
TGCCCATAAAAGTTGGCCCATGCATAAAGCAACCGGCTTCACCGTTACTGATGGTTTCTGCAACCTCGCGCGTGGTGAGTGTGGCGGAAAGGGTCATTGTGCCGCCGGTTAAGGCTTTACCGAGGCACAAAATGTCCGGCGCGATTTCTGCATGTTCACAGGCAAACAGTTTCCCGGTACGACCAAATCCAGTGGCGATCTCGTCGGCAATCAGCAAGATACCTTCGCGATCGCATATTTTGCGGATTCGTTTTAACCATTCCGGA > NZ_CP009273/803777‑804042
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GCCGCGCAGGCCAGCGGATTGCCCATAAAAGTTGGCCCATGCATAAAGCAACCGGCTTCACCGTTACTGATGGTTTCTGCAACCTCGCGCGTGGTGAGTGTGGCGGAAAGGGTCATTGTGCCGCCGGTTAAGGCTTTACCGAGGCACAAAATGTCCGGCGCGATTTCTGCATGTTCACAGGCAAACAGTTTCCCGGTACGACCAAATCCAGTGGCGATCTCGTCGGCAATCAGCAAGATACCTTCGCGATCGCATATTTTGCGGATTCGTTTTAACCATTCCGGATGGTACATG > NZ_CP009273/803758‑804051
|
GCCGCGCAGGCCAGCGGATTGCCCATAAAAGTTGGCCCATGCATAAAGCAACCGGCTTCACCGTTACTGATGGTTTCTGCAACCTCGCGCGTGGTGAGTGTGGCGGAAAGGGTCATTGTGCCGCCGGTTAAGGCTTTACCGAGGCACAAG < SRR3722139.263064/150‑1 (MQ=60)
GGCCAGCGGATTGCCCATAAAAGTTGGCCCATGCATAAAGCAACCGGCTTCACCGTTACTGATGGTTTCTGCAACCTCGCGCGTGGTGAGTGTGGCGGAAAGGGTCATTGTGCCGCCGGTTAAGGCTTTACCGAGGCACAAGATGTCCGGC > SRR3722139.50980/1‑151 (MQ=60)
CACCGTTACTGATGGTTTCTGCAACCTCGCGCGTGGTGAGTGTGGCGGAAAGGGTCATTGTGCCGCCGGTTAAGGCTTTACCGAGGCACAAGATGTCCGGCGCGATTTCTGCATGTTCACAGGCAAACAGTTTCCCGGTACGACCAAATCC > SRR3722139.13601/1‑151 (MQ=60)
CCGTTACTGATGGTTTCTGCAACCTCGCGCGTGGTGAGTGTGGCGGAAAGGGTCATTGTGCCGCCGGTTAAGGCTTTACCGAGGCACAAGATGTCCGGCGCGATTTCTGCATGTTCACAGGCAAACAGTTTCCCGGTACGACCAAATCC > SRR3722139.462321/1‑149 (MQ=60)
GAAAGGGTCATTGTGCCGCCGGTTAAGGCTTTACCGAGGCACAAGATGTCCGGCGCGATTTCTGCATGTTCACAGGCAAACAGTTTCCCGGTACGACCAAATCCAGTGGCGATCTCGTCGGCAActgtctcttatacacatctccgagccc > SRR3722139.71779/1‑124 (MQ=60)
TACCGAGGCACAAGATGTCCGGCGCGATTTCTGCATGTTCACAGGCAAACAGTTTCCCGGTACGACCAAATCCAGTGGCGATCTCGTCGGCAATCAGCAAGATACCTTCGCGATCGCATATTTTGCGGATTCGTTTTAACCATTCCGGAT < SRR3722139.388059/150‑1 (MQ=60)
CCGAGGCACAAGATGTCCGGCGCGATTTCTGCATGTTCACAGGCAAACAGTTTCCCGGTACGACCAAATCCAGTGGCGATCTCGTCGGCAATCAGCAAGATACCTTCGCGATCGCATATTTTGCGGATTCGTTTTAACCATTCCGGATGGT > SRR3722139.442644/1‑151 (MQ=60)
GCACAAGATGTCCGGCGCGATTTCTGCATGTTCACAGGCAAACAGTTTCCCGGTACGACCAAATCCAGTGGCGATCTCGTCGGCAATCAGCAAGATACCTTCGCGATCGCATATTTTGCGGATTCGTTTTAACCATTCCGGATGGTACATG > SRR3722139.382015/1‑151 (MQ=60)
|
GCCGCGCAGGCCAGCGGATTGCCCATAAAAGTTGGCCCATGCATAAAGCAACCGGCTTCACCGTTACTGATGGTTTCTGCAACCTCGCGCGTGGTGAGTGTGGCGGAAAGGGTCATTGTGCCGCCGGTTAAGGCTTTACCGAGGCACAAAATGTCCGGCGCGATTTCTGCATGTTCACAGGCAAACAGTTTCCCGGTACGACCAAATCCAGTGGCGATCTCGTCGGCAATCAGCAAGATACCTTCGCGATCGCATATTTTGCGGATTCGTTTTAACCATTCCGGATGGTACATG > NZ_CP009273/803758‑804051
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
