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
|
149 |
26.7 |
2337422 |
87.5% |
2045244 |
105.0 |
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%
| 49.2
/ NA
| 12 | 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 . (5/7); total (5/7) |
CGTCGAGGCCGAGCGCGCCGCCTACATGGAAACCTGCATCGAGGACGACGAGATCGCCGAACGCATGGATGCCGGCCGGCTGGCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTACCCAGTCGCCGATGGAAGACGGCATGCAGCATTTCCATGAGTGGTATCGCCGCGCCATGGCTTACGCCGGCTAGTCCGGCGGACTAGTGCGATAACC > AM260479/2955075‑2955291
|
cgtcgAGGCCGAGCGCGCCGCCTACATGGAAACCTGCATCGAGGACGACGAGATCGCCGAACGCATGGATGCCGGCCGGCTGGCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTA‑CCAGTCGCCGATg > 2:515709/1‑133 (MQ=255)
gCCGAGCGCGCCGCCTACATGGAAACCTGCATCGAGGACGACGAGATCGCCGAACGCATGGATGCCGGCCGGCTGGCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTA‑CCAGTCGCCGATGGAAGACgg < 1:515709/134‑1 (MQ=255)
aGCGCGCCGCCTACATGGAAACCTGCATCGAGGACGACGAGATCGCCGAACGCATGGATGCCGGCCGGCTGGCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTA‑CCAGTCGCCGATGGAAGACGGCATg < 1:406443/134‑1 (MQ=255)
aGCGCGCCGCCTACATGGAAACCTGCATCGAGGACGACGAGATCGCCGAACGCATGGATGCCGGCCGGCTGGCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTA‑CCAGTCGCCGATGGAAGACGGCATg < 1:735154/134‑1 (MQ=255)
gcgcCGCCTACATGGAAACCTGCATCGAGGACGACGAGATCGCCGAACGCATGGATGCCGGCCGGCTGGCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTA‑CCAGTCGCCGATGGAAGACGGCATgcag < 2:135043/134‑1 (MQ=255)
tGCATCGAGGACGACGAGATCGCCGAACGCATGGATGCCGGCCGGCTGGCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTA‑CCAGTCGcc < 1:14105/95‑1 (MQ=255)
tGCATCGAGGACGACGAGATCGCCGAACGCATGGATGCCGGCCGGCTGGCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTA‑CCAGTCGcc > 2:14105/1‑95 (MQ=255)
tGCATCGAGGACGACGAGATCGCCGAACGCATGGATGCCGGCCGGCTGGCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTA‑CCAGTCGCCGATGGAAGACGGCATGCAGCATTTCCATGAGTGGTATc > 1:954003/1‑133 (MQ=255)
tGCATCGAGGACGACGAGATCGCCGAACGCATGGATGCCGGCCGGCTGGCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTA‑CCAGTCGCCGATGGAAGACGGCATGCAGCATTTCCATGAGTGGTATc < 2:954003/133‑1 (MQ=255)
gAGGACGACGAGATCGCCGAACGCATGGATGCCGGCCGGCTGGCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTA‑CCAGTCGCCGATGGAAGACGGCATGCAGCATTTCCATGAGTGGTATCGCCgcgc > 1:371159/1‑134 (MQ=255)
ccggccggCTGGCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTA‑CCAGTCGCCGATGGAAGACGGCATGCAGCATTTCCATGAGTGGTATCGCCGCGCCATGGCTTACGCCGGCTAGTCCGGCGGACTa < 1:613531/134‑1 (MQ=255)
gcgcTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTA‑CCAGTCGCCGATGGAAGACGGCATGCAGCATTTCCATGAGTGGTATCGCCGCGCCATGGCTTACGCCGGCTAGTCCGGCGGACTAGTGCGATAccc > 2:607882/1‑134 (MQ=255)
|
CGTCGAGGCCGAGCGCGCCGCCTACATGGAAACCTGCATCGAGGACGACGAGATCGCCGAACGCATGGATGCCGGCCGGCTGGCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTACCCAGTCGCCGATGGAAGACGGCATGCAGCATTTCCATGAGTGGTATCGCCGCGCCATGGCTTACGCCGGCTAGTCCGGCGGACTAGTGCGATAACC > AM260479/2955075‑2955291
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 35 ≤ 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
AATCGCGCTGTTCGAGCGCGAGTTCGTCGAGGCCGAGCGCGCCGCCTACATGGAAACCTGCATCGAGGACGACGAGATCGCCGAACGCATGGATGCCGGCCGGCTGGCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTACCCAGTCGCCGATGGAAGACGGCATGCAGCATTTCCATGAGTGGTATCGCCGCGCCATGGCTTACGCCGGCTAGTCCGGCGGACTAGTGCGATAACCGCACAACGCACGCAAGAACGGACCGCCCCTGGCGGTCCGTTTTCCTT > AM260479/2955051‑2955338
|
AATCGCGCTGTTCGAGCGCGAGTTCGTCGAGGCCGAGCGCGCCGCCTACATGGAAACCTGCATCGAGGACGACGAGATCGCCGAACGCATGGATGCCGGCCGGCTGGCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTA‑CCAGTC < GWNJ‑0478:712:GW2002102894th:2:1212:17019:72944/150‑1 (MQ=60)
AATCGCGCTGTTCGAGCGCGAGTTCGTCGAGGCCGAGCGCACCGCCTACATGGAAACCTGCATCGAGGACGACGAGATCGCCGAACGCATGGATGCCGGCCGGCTGGCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTA‑CCAGTC < GWNJ‑0478:712:GW2002102894th:2:2205:15283:10089/150‑1 (MQ=60)
gctcggagatgtgtataagagacagGCCTACATGGAAACCTGCATCGAGGACGACGAGATCGCCGAACGCATGGATGCCGGCCGGCTGGCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTA‑CCAGTCGCCGATGGAAGACGGCAT < GWNJ‑0478:712:GW2002102894th:2:1101:11297:92610/125‑1 (MQ=60)
GGCCGAGCGCGCCGCCTACATGGAAACCTGCATCGAGGACGACGAGATCGCCGAACGCATGGATGCCGGCCGGCTGGCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTA‑CCAGTCGCCGATGGAAGACGGCATGCAGCATTTCCA < GWNJ‑0478:712:GW2002102894th:2:1215:8607:25651/150‑1 (MQ=60)
GAGCGCGCCGCCTACATGGAAACCTGCATCGAGGACGACGAGATCGCCGAACGCATGGATGCCGGCCGGCTGGCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTA‑CCAGTCGCCGATGGAAGACGGCATGCAGCATTTCCATGAG < GWNJ‑0478:712:GW2002102894th:2:1208:11911:54012/150‑1 (MQ=60)
GAGCGCGCCGCCTACATGGAAACCTGCATCGAGGACGACGAGATCGCCGAACGCATGGATGCCGGCCGGCTGGCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTA‑CCAGTCGCCGATGGAAGACGGCATGCAGCATTTCCATGAG < GWNJ‑0478:712:GW2002102894th:2:2111:14852:46194/150‑1 (MQ=60)
GCCTACATGGAAACCTGCATCGAGGACGACGAGATCGCCGAACGCATGGATGCCGGCCGGCTGGCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTA‑CCAGTCGCCGATGGAAGACGGCATGCAGCATTTCCATGAGTGGTATCGC > GWNJ‑0478:712:GW2002102894th:2:2209:8835:18506/1‑150 (MQ=60)
ATGGAAACCTGCATCGAGGACGACGAGATCGCCGAACGCATGGATGCCGGCCGGCTGGCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTA‑CCAGTCGCCGATGGAAGACGGCATGCAGCATTTCCATGAGTGGTATCGCCGCGCC > GWNJ‑0478:712:GW2002102894th:2:1207:11077:47582/1‑150 (MQ=60)
CATGGATGCCGGCCGGCTGGCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTACCCtgtctcttatacacatctccgagcccacgagacactcgctaaactcgtatgccgtcttctgcttgaaaaaaaaaacaggataaaggga > GWNJ‑0478:712:GW2002102894th:2:2109:7798:32000/1‑60 (MQ=60)
GCCGGCCGGCTGGCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTA‑CCAGTCGCCGATGGAAGACGGCATGCAGCATTTCCATGAGTGGTATCGCCGCGCCATGGCTTACGCCGGCTAGTCCGGCGGACTAGTGCGATAACCGCAC < GWNJ‑0478:712:GW2002102894th:2:2102:9399:50165/150‑1 (MQ=60)
GGCCGTA‑CCAGTCGCCGATGGAAGACGGCATGCAGCATTTCCATGAGTGGTATCGCCGCGCCATGGCTTACGCCGGCTAGTCCGGCGGACTAGTGCGATAACCGCACAACGCACGCAAGAACGGACCGCCCCTGGCGGTCCGTTTTCCTT > GWNJ‑0478:712:GW2002102894th:2:2214:19968:10841/1‑150 (MQ=60)
|
AATCGCGCTGTTCGAGCGCGAGTTCGTCGAGGCCGAGCGCGCCGCCTACATGGAAACCTGCATCGAGGACGACGAGATCGCCGAACGCATGGATGCCGGCCGGCTGGCGCTGCTCAAGCGCGGCACCAGCGAAGTCGGGCCGTACCCAGTCGCCGATGGAAGACGGCATGCAGCATTTCCATGAGTGGTATCGCCGCGCCATGGCTTACGCCGGCTAGTCCGGCGGACTAGTGCGATAACCGCACAACGCACGCAAGAACGGACCGCCCCTGGCGGTCCGTTTTCCTT > AM260479/2955051‑2955338
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
