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 |
|
A0 F0 I1 R1
|
146 |
27.9 |
2327082 |
89.7% |
2087392 |
107.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
AM260479 |
2,955,197 |
Δ1 bp |
coding (1034/1071 nt) |
h16_A2735 → |
phenylpropionate dioxygenase or related ring‑hydroxylating dioxygenase, large terminal subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 2,955,195 | 0 | C | . | 100.0%
| 91.8
/ NA
| 21 | coding (1032/1071 nt) | h16_A2735 | phenylpropionate dioxygenase or related ring‑hydroxylating dioxygenase, large terminal subunit |
| Reads supporting (aligned to +/- strand): ref base C (0/0); new base . (10/11); total (10/11) |
GAGCGCGAGTTCGTCGAGGCCGAGCGCGCCGCCTACATGGAAACCTGCATCGAGGACGACGAGATCGCCGAACGCATGGATGCCGGCCGGCTGGCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTACCCAGTCGCCGATGGAAGACGGCATGCAGCATTTCCATGAGTGGTATCGCCGCGCCATGGCTTACGCCGGCTAGTCCGGCGGACTAGTGCGATAACCGCACAACGCACGC > AM260479/2955064‑2955304
|
gAGCGCGAGTTCGTCGAGGCCGAGCGCGCCGCCTACATGGAAACCTGCATCGAGGACGACGAGATCGCCGAACGCATGGATGCCGGCCGGCTGGCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTAcc < 1:24419/133‑1 (MQ=255)
cgtcgAGGCCGAGCGCGCCGCCTACATGGAAACCTGCATCGAGGACGACGAGATCGCCGAACGCATGGATGCCGGCCGGCTGGCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTA‑CCAGTCGCCGATg > 2:807260/1‑133 (MQ=255)
cgtcgAGGCCGAGCGCGCCGCCTACATGGAAACCTGCATCGAGGACGACGAGATCGCCGAACGCATGGATGCCGGCCGGCTGGCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTA‑CCAGTCGCCGATg > 1:1090595/1‑133 (MQ=255)
cgtcgAGGCCGAGCGCGCCGCCTACATGGAAACCTGCATCGAGGACGACGAGATCGCCGAACGCATGGATGCCGGCCGGCTGGCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTA‑CCAGTCGCCGATg > 2:733766/1‑133 (MQ=255)
gCCGAGCGCGCCGCCTACATGGAAACCTGCATCGAGGACGACGAGATCGCCGAACGCATGGATGCCGGCCGGCTGGCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTA‑CCAGTCGCCGATGGAAGACgg < 2:75608/134‑1 (MQ=255)
ccGAGCGCGCCGCCTACATGGAAACCTGCATCGAGGACGACGAGATCG‑CGAACGCATGGATGCCGGCCGGCTGGCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTA‑CCAGTCGCCGATGGAAGACGGCa < 1:908205/134‑1 (MQ=255)
aGCGCGCCGCCTACATGGAAACCTGCATCGAGGACGACGAGATCGCCGAACGCATGGATGCCGGCCGGCTGGCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTA‑CCAGTCGCCGATGGAAGACGGCATg < 2:792753/134‑1 (MQ=255)
ccgccTACATGGAAACCTGCATCGAGGACGACGAGATCGCCGAACGCATGGATGCCGGCCGGCTGGCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTA‑CCAGTCGCCGATGGAAGACGGCATGCAGCAt < 1:807260/134‑1 (MQ=255)
ccgccTACATGGAAACCTGCATCGAGGACGACGAGATCGCCGAACGCATGGATGCCGGCCGGCTGGCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTA‑CCAGTCGCCGATGGAAGACGGCATGCAGCAt < 1:791739/134‑1 (MQ=255)
ccTACATGGAAACCTGCATCGAGGACGACGAGATCGCCGAACGCATGGATGCCGGCCGGCTGGCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTAccag < 1:1038453/104‑3 (MQ=255)
ccTACATGGAAACCTGCATCGAGGACGACGAGATCGCCGAACGCATGGATGCCGGCCGGCTGGCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTAccag > 2:1038453/1‑102 (MQ=255)
aTCGAGGACGACGAGATCGCCGAACGCATGGATGCCGGCCGGCTGGCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTA‑CCAGTCGCCGATGGAAGACGGCATGCAGCATTTCCATGAGTGGTATcgccg < 1:701665/134‑1 (MQ=255)
aTCGAGGACGACGAGATCGCCGAACGCATGGATGCCGGCCGGCTGGCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTA‑CCAGTCGCCGATGGAAGACGGCATGCAGCATTTCCATGAGTGGTATcgccg < 1:733766/134‑1 (MQ=255)
tCGAGGACGACGAGATCGCCGAACGCATGGATGCCGGCCGGCTGGCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTAccagtc > 1:1123494/1‑84 (MQ=255)
tCGAGGACGACGAGATCGCCGAACGCATGGATGCCGGCCGGCTGGCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTAccagtc < 2:1123494/88‑5 (MQ=255)
cGAGGACGACGAGATCGCCGAACGCATGGATGCCGGCCGGCTGGCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTA‑CCAGTCGCCGATGGAAGACGGCATGCAGCATTTCCATGAGTGGTATCGCcgcg > 1:25038/1‑134 (MQ=255)
cGCATGGATGCCGGCCGGCTGGCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTA‑CCAGTCGCCGATGGAAGACGGCATGCAGCATTTCCATGAGTGGTATCGCCGCGCCATGGCTTACGCCGGCTAGTc > 2:31833/1‑134 (MQ=255)
gcTGGCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTA‑CCAGTCGCCGATGGAAGACGGCATGCAGCATTTCCATGAGTGGTATCGCCGCGCCATGGCTTACGCCGGCTAGTCCGGCGGACTAGTGCGa > 2:1037742/1‑133 (MQ=255)
aaGCGCGGCACCAGCGAAGTCGGGCCGTA‑CCAGTCGCCGATGGAAGACGGCATGCAGCATTTCCATGAGTGGTATCGCCGCGCCATGGCTTACGCCGGCTAGTCCGGCGGACTAGTGCGATAACCGCACAacgc < 1:31833/134‑1 (MQ=255)
aGCGCGGCACCAGCGAAGTCGGGCCGTA‑CCAGTCGCCGATGGAAGACGGCATGCAGCATTTCCATGAGTGGTATCGCCGCGCCATGGCTTACGCCGGCTAGTCCGGCGGACTAGTGCGATAAc > 1:1052626/1‑123 (MQ=255)
aGCGCGGCACCAGCGAAGTCGGGCCGTA‑CCAGTCGCCGATGGAAGACGGCATGCAGCATTTCCATGAGTGGTATCGCCGCGCCATGGCTTACGCCGGCTAGTCCGGCGGACTAGTGCGATAAc < 2:1052626/123‑1 (MQ=255)
ggCACCAGCGAAGTCGGGCCGTA‑CCAGTCGCCGATGGAAGACGGCATGCAGCATTTCCATGAGTGGTATCGCCGCGCCATGGCTTACGCCGGCTAGTCCGGCGGACTAGTGCGATAACCGCACAacgcacgc > 1:599740/1‑132 (MQ=255)
cAGCGAAGTCGGGCCGTA‑CCAGTCGCCGATGGAAGACGGCATGCAGCATTTCCATGAGTGGTATCGCCGCGCCATGGCt > 2:68011/1‑79 (MQ=255)
cAGCGAAGTCGGGCCGTA‑CCAGTCGCCGATGGAAGACGGCATGCAGCATTTCCATGAGTGGTATCGCCGCGCCATGGCt < 1:68011/79‑1 (MQ=255)
ggCCGTA‑CCAGTCGCCGATGGAAGACGGCATGCAGCATTTCCATGAGTGGTATCGCCGCGCCATGGCTTACGCCgg > 2:349203/1‑76 (MQ=255)
ggCCGTA‑CCAGTCGCCGATGGAAGACGGCATGCAGCATTTCCATGAGTGGTATCGCCGCGCCATGGCTTACGCCga < 1:349203/76‑2 (MQ=255)
|
GAGCGCGAGTTCGTCGAGGCCGAGCGCGCCGCCTACATGGAAACCTGCATCGAGGACGACGAGATCGCCGAACGCATGGATGCCGGCCGGCTGGCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTACCCAGTCGCCGATGGAAGACGGCATGCAGCATTTCCATGAGTGGTATCGCCGCGCCATGGCTTACGCCGGCTAGTCCGGCGGACTAGTGCGATAACCGCACAACGCACGC > AM260479/2955064‑2955304
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ 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
GTTCGAGCGCGAGTTCGTCGAGGCCGAGCGCGCCGCCTACATGGAAACCTGCATCGAGGACGACGAGATCGCCGAACGCATGGATGCCGGCCGGCTGGCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTACCCAGTCGCCGATGGAAGACGGCATGCAGCATTTCCATGAGTGGTATCGCCGCGCCATGGCTTACGCCGGCTAGTCCGGCGGACTAGTGCGATAACCGCACAACGCACGCAAGAACGGACCGCCCCTGGCGGTCCGTTTTCCTTT > AM260479/2955060‑2955339
|
GTTCGAGCGCGAGTTCGTCGAGGCCGAGCGCGCCGCCTACATGGAAACCTGCATCGAGGACGACGAGATCGCCGAACGCATGGATGCCGGCCGGCTGGCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTA‑CCAGTCGCCGATGG > GWNJ‑0478:712:GW2002102894th:2:2213:16706:54240/1‑149 (MQ=60)
CGAGCGCGAGTTCGTCGAGGCCGAGCGCGCCGCCTACATGGAAACCTGCATCGAGGACGACGAGATCGCCGAACGCATGGATGCCGGCCGGCTGGCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTA‑CCAGTCGCCGATGGAAG < GWNJ‑0478:712:GW2002102894th:2:1103:14665:56687/149‑1 (MQ=60)
gtgtataagagacaGAGGCCGAGCGCGCCGCCTACATGGAAACCTGCATCGAGGACGACGAGATCGCCGAACGCATGGATGCCGGCCGGCTGGCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTA‑CCAGTCGCCGATGGAAGAC < GWNJ‑0478:712:GW2002102894th:2:2211:7815:85265/135‑1 (MQ=60)
GCCGAGCGCGCCGCCTACATGGAAACCTGCATCGAGGACGACGAGATCG‑CGAACGCATGGATGCCGGCCGGCTGGCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTA‑CCAGTCGCCGATGGAAGACGGCATGCAGCATTTCCATG < GWNJ‑0478:712:GW2002102894th:2:2202:7475:42941/150‑1 (MQ=60)
GCCGCCTACATGGAAACCTGCATCGAGGACGACGAGATCGCCGAACGCATGGATGCCGGCCGGCTGGCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTA‑CCAGTCGCCGATGGAAGACGGCATGCAGCATTTCCATGAGTGGTAT < GWNJ‑0478:712:GW2002102894th:2:2112:8648:9534/150‑1 (MQ=60)
GCCGCCTACATGGAAACCTGCATCGAGGACGACGAGATCGCCGAACGCATGGATGCCGGCCGGCTGGCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTA‑CCAGTCGCCGATGGAAGACGGCATGCAGCATTTCCATGAGTGGTAT < GWNJ‑0478:712:GW2002102894th:2:2112:15532:90468/150‑1 (MQ=60)
ACATGGAAACCTGCATCGAGGACGACGAGATCGCCGAACGCATGGATGCCGGCCGGCTGGCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTA‑CCAGTCGCCGATGGAAGACGGCtgtctcttatacacatctccgagcccacg > GWNJ‑0478:712:GW2002102894th:2:2215:19164:14292/1‑119 (MQ=60)
CATGGAAACCTGCATCGAGGACGACGAGATCGCCGAACGCATGGATGCCGGCCGGCTGGCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTA‑CCAGTCGCCGATGGAAGACGGCATGCAGCATTTCCATGAGTGGTATCGCCGCGC > GWNJ‑0478:712:GW2002102894th:2:1103:10569:60469/1‑150 (MQ=60)
CATCGAGGACGACGAGATCGCCGAACGCATGGATGCCGGCCGGCTGGCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTA‑CCAGTCGCCGATGGAAGACGGCATGCAGCATTTCCATGAGTGGTATCGCCGCGCCATGGCTTACGC < GWNJ‑0478:712:GW2002102894th:2:2108:15205:29066/150‑1 (MQ=60)
CATCGAGGACGACGAGATCGCCGAACGCATGGATGCCGGCCGGCTGGCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTA‑CCAGTCGCCGATGGAAGACGGCATGCAGCATTTCCATGAGTGGTATCGCCGCGCCATGGCTTACGC < GWNJ‑0478:712:GW2002102894th:2:2111:20610:6497/150‑1 (MQ=60)
agcgagtgtctcgtgggctcggagatgtgtataagagacagGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTA‑CCAGTCGCCGATGGAAGACGGCATGCAGCATTTCCATGAGTGGTATCGCCGCGCCATGGCTTACGCCGGCTAGTCC < GWNJ‑0478:712:GW2002102894th:2:1104:11938:24692/109‑1 (MQ=60)
attagcgagtgtctggtgggctcggagatgtgtataagagacaGGCACCAGCGAAGTCGGGCCGTA‑CCAGTCGCCGATGGAAGACGGCATGCAGCATTTCCATGAGTGGTATCGCCGCGCCATGGCTTACGCCGACTAGTCCGCCGGACT < GWNJ‑0478:712:GW2002102894th:2:1205:7148:85573/107‑1 (MQ=60)
cgagattagcgagtgtctcgtgggctcggagatgtgtataagagacaGGGCCGTA‑CCAGTCGCCGATGGAAGACGGCATGCAGCATTTCCATGAGTGGTATCGCCGCGCCATGGCTTACGCCGGCTAGTCCGGCGGACTAGTGCGATAAC < GWNJ‑0478:712:GW2002102894th:2:2211:3835:79090/103‑1 (MQ=60)
attagcgagtgtctcgtgggctcggagatgtgtataagagacagGTCGGGCCGTA‑CCAGTCGCCGATGGAAGACGGCATGCAGCATTTCCATGAGTGGTATCGCCGCGCCATGGCTTACGCCGGCTAGTCCGGCGGACTAGTGCGATAAC < GWNJ‑0478:712:GW2002102894th:2:2212:7183:77585/106‑1 (MQ=60)
gagtgtctcgtgggctcggagatgtgtataagagacaGGGCCGTA‑CCAGTCGCCGATGGAAGACGGCATGCAGCATTTCCATGAGTGGTATCGCCGCGCCATGGCTTACGCCGGCTAGTCCGGCGGACTAGTGCGATAACCGCACAACGC < GWNJ‑0478:712:GW2002102894th:2:1208:11330:74448/113‑1 (MQ=60)
GGCTGGCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTA‑CCAGTCGCCGATGGAAGACGGCATGCAGCATTTCCATGAGTGGTATCGCCGCGCCATGGCTTACGCCGGCTAGTCCGGCGGACTAGTGCGATAACCGCACAACGCAC > GWNJ‑0478:712:GW2002102894th:2:2210:6490:60695/1‑150 (MQ=60)
GCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTA‑CCAGTCGCCGATGGAAGACGGCATGCAGCATTTCCATGAGTGGTATCGCCGCGCCATGGCTTACGCCGGCTAGTCCGGCGGACTAGTGCGATAACCGCACAACGCACGCA > GWNJ‑0478:712:GW2002102894th:2:2103:20399:8325/1‑148 (MQ=60)
CAAGCGCGGCACCAGCGAAGTCGGGCCGTA‑CCAGTCGCCGATGGAAGACGGCATGCAGCATTTCCATGAGTGGTATCGCCGCGCCATGGCTTACGCCGGCTAGTCCGGCGGACTAGTGCGATAACCGCACAACGCACGCAAGAACGGACC < GWNJ‑0478:712:GW2002102894th:2:1105:18707:2737/150‑1 (MQ=60)
GGCCGTA‑CCAGTCGCCGATGGAAGACGGCATGCAGCATTTCCATGAGTGGTATCGCCGCGCCATGGCTTACGCCGGCTAGTCCGGCGGACTAGTGCGATAACCGCACAACGCACGCAAGAACGGACCGCCCCTGGCGGTCCGTTTTCCTT > GWNJ‑0478:712:GW2002102894th:2:2106:2827:27241/1‑150 (MQ=60)
CCGTA‑CCAGTCGCCGATGGAAGACGGCATGCAGCATTTCCATGAGTGGTATCGCCGCGCCATGGCTTACGCCtgtctcttatacacatctccgcgcccacgagacactcgctaatctcgtatgccgtcttctgcttgaaaaaaaaaaaa > GWNJ‑0478:712:GW2002102894th:2:2111:12780:86972/1‑72 (MQ=60)
|
GTTCGAGCGCGAGTTCGTCGAGGCCGAGCGCGCCGCCTACATGGAAACCTGCATCGAGGACGACGAGATCGCCGAACGCATGGATGCCGGCCGGCTGGCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTACCCAGTCGCCGATGGAAGACGGCATGCAGCATTTCCATGAGTGGTATCGCCGCGCCATGGCTTACGCCGGCTAGTCCGGCGGACTAGTGCGATAACCGCACAACGCACGCAAGAACGGACCGCCCCTGGCGGTCCGTTTTCCTTT > AM260479/2955060‑2955339
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
