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 F4 I88 R1
|
217 |
30.5 |
1742422 |
95.9% |
1670982 |
87.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
668,149 |
A→G |
N697N (AAT→AAC) |
leuS ← |
leucine‑‑tRNA ligase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 668,149 | 0 | A | G | 100.0%
| 114.4
/ NA
| 31 | N697N (AAT→AAC) | leuS | leucine‑‑tRNA ligase |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (17/14); total (17/14) |
GGTGTTGAAGGTCTGACGACGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGATTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTCCAGACACGTTTCAGGAAG > NZ_CP009273/668068‑668236
|
ggTGTTGAAGGTCTGACGACGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTtcagtc < 2:826868/91‑1 (MQ=255)
tgtTGAAGGTCTGACGACGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTtcagtcag < 2:117327/91‑1 (MQ=255)
tGAAGGTCTGACGACGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAgcgc > 1:517507/1‑91 (MQ=255)
tCTGACGACGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAAc > 1:182243/1‑91 (MQ=255)
tCTGACGACGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAAc > 1:580183/1‑91 (MQ=255)
tGACGACGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGt > 2:322023/1‑91 (MQ=255)
tGACGACGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGt > 2:151620/1‑91 (MQ=255)
acgacgGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTc < 1:579424/91‑1 (MQ=255)
cgGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTg > 1:612027/1‑91 (MQ=255)
gCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGcc < 1:275604/91‑1 (MQ=255)
gCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGcc < 2:182243/91‑1 (MQ=255)
tcatcGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACAt < 1:229475/91‑1 (MQ=255)
tcatcGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACAt < 1:51296/91‑1 (MQ=255)
tCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCttt > 2:12531/1‑91 (MQ=255)
tCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTc > 2:189009/1‑91 (MQ=255)
cGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTtcagtc < 2:844477/43‑1 (MQ=255)
cGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTtcagtc > 1:844477/1‑43 (MQ=255)
cGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTTAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCg > 2:457568/1‑91 (MQ=255)
gCACATCGCGGCGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAg > 1:531916/1‑91 (MQ=255)
gCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAg < 1:189009/91‑1 (MQ=255)
caTCGCGACGCAGCGCTTTCTGGTTTTCAGTCAgcgc > 1:534112/1‑37 (MQ=38)
caTCGCGACGCAGCGCTTTCTGGTTTTCAGTCAgcgc < 2:534112/37‑1 (MQ=38)
tCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTcc > 1:715864/1‑91 (MQ=255)
gACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTCCAGac < 2:185800/91‑1 (MQ=255)
gACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTCCAGac < 2:197158/91‑1 (MQ=255)
cAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTCCAGACACGt > 2:321187/1‑91 (MQ=255)
cAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTCCAGACACGt > 2:66839/1‑91 (MQ=255)
gcgcTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTCCAGACACGttt > 1:225823/1‑91 (MQ=255)
cgcTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTCCAGACACGTTTc < 1:486190/91‑1 (MQ=255)
ttCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTCCAGACACGTTTCAGGa > 2:232013/1‑91 (MQ=255)
cTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTCCAGACACGTTTCAGGAAg < 1:151255/91‑1 (MQ=255)
|
GGTGTTGAAGGTCTGACGACGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGATTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTCCAGACACGTTTCAGGAAG > NZ_CP009273/668068‑668236
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ 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
CCATAATCGCCGCAATTGCGGTGTTGAAGGTCTGACGACGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGATTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTCCAGACACGTTTCAGGAAGCGGTTAGCCC > NZ_CP009273/668049‑668246
|
CCATAATCGCCGCAATTGCGGTGTTGAAGGTCTGACGACGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGG > SRR3722118.203577/1‑101 (MQ=60)
CCGCAATTGCGGTGTTGAAGGTCTGACGACGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTC < SRR3722118.527692/101‑1 (MQ=60)
ATTGCGGTGTTGAAGGTCTGACGACGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGC > SRR3722118.528491/1‑101 (MQ=60)
GTGTTGAAGGTCTGACGACGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAAC > SRR3722118.185841/1‑101 (MQ=60)
GTGTTGAAGGTCTGACGACGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAAC > SRR3722118.592476/1‑101 (MQ=60)
GGTCTGACGACGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTG > SRR3722118.625121/1‑101 (MQ=60)
ACGACGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAA < SRR3722118.591699/101‑1 (MQ=60)
GCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCAC < SRR3722118.281260/101‑1 (MQ=60)
TCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGC < SRR3722118.52244/101‑1 (MQ=60)
TCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGC < SRR3722118.234122/101‑1 (MQ=60)
CTTTAGCGATCGTTTTATGCACAACGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACtgtctcttatacacatctccgagcccacgagacggac > SRR3722118.863144/1‑64 (MQ=60)
ATCGTTTTATGCACATCGCGGCGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAG > SRR3722118.543196/1‑101 (MQ=60)
GTTTTATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCctgtctcttatacacatctccgagcccacgagacggactcctat > SRR3722118.545444/1‑57 (MQ=60)
GTTTTATGCACATCGCGACGCAGCGCTTTCTGGTNTTCAGTCANCNCNNNNACGTTCAGTGNNNNNNNNNNNNNTTTTGCTGTGTGCTCGTAAACCAGTTT > SRR3722118.340531/1‑101 (MQ=60)
TTCATGCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTCC > SRR3722118.731565/1‑101 (MQ=60)
GCACATCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTCCAGACA < SRR3722118.192751/101‑1 (MQ=60)
TCGCGACGCAGCGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTCCAGACACGTTT > SRR3722118.230393/1‑101 (MQ=60)
CGCTTTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTCCAGACACGTTTCAGGAAGCGGT < SRR3722118.496473/101‑1 (MQ=60)
TTCTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTCCAGACACGTTTCAGGAAGCGGTTAGC > SRR3722118.401003/1‑101 (MQ=60)
CTGGTTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTCCAGACACGTTTCAGGAAGCGGTTAGCCC < SRR3722118.154166/101‑1 (MQ=60)
|
CCATAATCGCCGCAATTGCGGTGTTGAAGGTCTGACGACGGCCGATATCATCGGTCACTTTAGCGATCGTTTTATGCACATCGCGACGCAGCGCTTTCTGATTTTCAGTCAGCGCATCAACGTTCAGTGCCGCAACATCACCTTTTGCTGTGTGCTCGTAAACCAGTTTCCAGACACGTTTCAGGAAGCGGTTAGCCC > NZ_CP009273/668049‑668246
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
