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 F1 I1 R1
|
150 |
26.0 |
2053212 |
90.0% |
1847890 |
107.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
AM260479 |
3,720,402 |
G→T |
D170Y (GAC→TAC) |
h16_A3441 → |
periplasmic multimodular transpeptidase/transglycosylase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 3,720,402 | 0 | G | T | 100.0%
| 85.2
/ NA
| 23 | D170Y (GAC→TAC) | h16_A3441 | periplasmic multimodular transpeptidase/transglycosylase |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base T (13/10); total (13/10) |
CTACACGCGCAAGATCTACGAGATGCTGCTGGCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCGACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGCGTACAACCCGGTGGTCAACCCGC > AM260479/3720290‑3720528
|
cTACACGCGCAAGATCTACGAGATGCTGCTGGCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAgcgc > 1:566072/1‑129 (MQ=255)
cTACACGCGCAAGATCTACGAGATGCTGCTGGCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAgcgc < 2:566072/129‑1 (MQ=255)
cTACACGCGCAAGATCTACGAGATGCTGCTGGCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCcgcgc > 1:584227/1‑134 (MQ=255)
cTACACGCGCAAGATCTACGAGATGCTGCTGGCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCcgcgc > 2:557425/1‑134 (MQ=255)
cgcgCAAGATCTACGAGATGCTGCTGGCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCACGCGCgtg > 1:665069/1‑134 (MQ=255)
aGATCTACGAGATGCTGCTGGCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTc < 2:584227/134‑1 (MQ=255)
cGAGATGCTGCTGGCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCaa < 1:566651/132‑1 (MQ=255)
tgctgGCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTCCGGCAAGTCGGTgcgc > 2:855024/1‑134 (MQ=255)
ctgGCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAgcgc > 1:92996/1‑101 (MQ=255)
ctgGCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAgcgc < 2:92996/101‑1 (MQ=255)
ctgGCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCgg > 1:968398/1‑127 (MQ=255)
ctgGCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCgg < 2:968398/127‑1 (MQ=255)
ctgGCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGa > 2:629965/1‑134 (MQ=255)
ggCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAgcgc < 1:577024/99‑1 (MQ=255)
ggCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAgcgc > 2:577024/1‑99 (MQ=255)
gATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACgccgg < 2:665069/134‑1 (MQ=255)
ccAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGgcc < 1:557425/134‑1 (MQ=255)
ctatctGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCgg > 2:791247/1‑122 (MQ=255)
ctatctGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCgg < 1:791247/122‑1 (MQ=255)
ctatctGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGCGTACAACCCgg > 2:354056/1‑134 (MQ=255)
gcgcgcCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTggccggcgtca < 2:552995/95‑5 (MQ=255)
gcgcgcCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTggccggcgtca > 1:552995/1‑91 (MQ=255)
gcgcgcCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGCGTACAACCCGGTGGTCAACccgc > 2:523699/1‑134 (MQ=255)
|
CTACACGCGCAAGATCTACGAGATGCTGCTGGCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCGACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGCGTACAACCCGGTGGTCAACCCGC > AM260479/3720290‑3720528
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GTCCAGCGAAAAGACCTACACGCGCAAGATCTACGAGATGCTGCTGGCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCGACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGCGTACAACCCGGTGGTCAACCCGCGCCGCGCCA > AM260479/3720275‑3720537
|
GTCCAGCGAAAAGACCTACACGCGCAAGATCTACGAGATGCTGCTGGCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACctgtctcttat > GWNJ‑0478:712:GW2002102894th:2:2114:13714:77786/1‑139 (MQ=60)
GTCCAGCGAAAAGACCTACACGCGCAAGATCTACGAGATGCTGCTGGCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCG > GWNJ‑0478:712:GW2002102894th:2:2105:14610:65630/1‑150 (MQ=60)
GTCCAGCGAAAAGACCTACACGCGCAAGATCTACGAGATGCTGCTGGCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCG > GWNJ‑0478:712:GW2002102894th:2:2104:20206:86262/1‑150 (MQ=60)
GCGAAAAGACCTACACGCGCAAGATCTACGAGATGCTGCTGGCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCACGCGCGTGT > GWNJ‑0478:712:GW2002102894th:2:2111:3460:95428/1‑150 (MQ=60)
tttccttttttttttttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTAT < GWNJ‑0478:712:GW2002102894th:2:1108:2381:16421/64‑1 (MQ=60)
ggagatgtgtataagagacagCTACGAGATGCTGCTGGCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTT < GWNJ‑0478:712:GW2002102894th:2:2104:9457:39384/129‑1 (MQ=60)
ATCTACGAGATGCTGCTGGCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCtgtctcttatacacatct > GWNJ‑0478:712:GW2002102894th:2:1106:13206:25959/1‑132 (MQ=60)
ATCTACGAGATGCTGCTGGCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGAC > GWNJ‑0478:712:GW2002102894th:2:2213:9926:69667/1‑150 (MQ=60)
ACGAGATGCTGCTGGCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGT < GWNJ‑0478:712:GW2002102894th:2:2105:3476:69516/148‑1 (MQ=60)
ttttttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGC < GWNJ‑0478:712:GW2002102894th:2:1101:6788:97374/75‑1 (MQ=60)
GTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCctgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgtcttctgctt > GWNJ‑0478:712:GW2002102894th:2:1111:15437:52370/1‑85 (MQ=60)
gacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGC < GWNJ‑0478:712:GW2002102894th:2:2202:9346:69630/93‑1 (MQ=60)
GCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGC < GWNJ‑0478:712:GW2002102894th:2:2105:8519:8550/150‑1 (MQ=60)
ACATGAACCAGATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGCGTACAACCCGGTGG < GWNJ‑0478:712:GW2002102894th:2:2203:6996:72387/150‑1 (MQ=60)
GATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCtgtctcttatacacatctccgagcccacgagacggagctacatctcgtatgccgtcttctgcttgaaaaaaaaaaaaaaaaaaatcagaaatcac > GWNJ‑0478:712:GW2002102894th:2:2116:5783:23830/1‑55 (MQ=60)
GATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCgtcacgtcgcgcaccgactctgtctcttatacacatctccgagc > GWNJ‑0478:712:GW2002102894th:2:2102:10673:76072/1‑106 (MQ=60)
GATCTATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGC > GWNJ‑0478:712:GW2002102894th:2:1207:7157:59939/1‑70 (MQ=60)
ATCTGGGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGCGTACAACCCGGTGGctgtctcttatacac > GWNJ‑0478:712:GW2002102894th:2:2216:3869:19090/1‑135 (MQ=60)
GGGCAGCGCGCCTACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGCGTACAACCCGGTGGTCAACCCGCGCCGCGCCA > GWNJ‑0478:712:GW2002102894th:2:1104:5934:67567/1‑148 (MQ=60)
|
GTCCAGCGAAAAGACCTACACGCGCAAGATCTACGAGATGCTGCTGGCGTACAAGATCGAGGCCAACCTGAACAAGGACCAGATCCTCGAGCTGTACATGAACCAGATCTATCTGGGGCAGCGCGCCGACGGCTTCGACAGCGCCGCGCGCGTGTATTTCGGCAAGTCGGTGCGCGACGTGACGCCGGCCGAGGCCGCCATGCTGGCCGGCCTGCCCAAGGCGCCGTCGGCGTACAACCCGGTGGTCAACCCGCGCCGCGCCA > AM260479/3720275‑3720537
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
