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 |
3,248,064 |
+A |
intergenic (+15/‑203) |
h16_A3001 → / → hemK1 |
transcriptional regulator, LysR‑family/methylase of polypeptide chain release factors |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 3,248,063 | 1 | . | A | 100.0%
| 81.9
/ NA
| 22 | intergenic (+14/‑204) | h16_A3001/hemK1 | transcriptional regulator, LysR‑family/methylase of polypeptide chain release factors |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base A (10/12); total (10/12) |
GGAGATCGGGCTGGGCGTGGGATTCGTCGCCGGCGTCGCCTATGATGCCCGAGCCGCGACCCGCAACCTTGCCCGGCATCTCGGCCGGCCACCTGTTTGGCAGCAACCGTGACGCACCTGGCCGTC‑AGCAGGGTGCCTACCTGCGCAGCTTTGTGTACACCTTCATCGAGCTGTTCTCGCCGACGCTCAACCGCAAGCTGGTTGAGCAGGCCATGTCCGGCGAACACGAAGCCTACGAACTCTGAGGACGG > AM260479/3247938‑3248188
|
ggAGATCGGGCTGGGCGTGGGCATCGTCGCCGGCGTCGCCTATGATG‑CCGAG‑CGCGA‑CCGCAACC‑TGCGCGGCATCTCGGCCGGCCACCTGTTTGGCAGCAA‑CGTGACGCACCTGGCCGTc‑a > 1:372742/1‑122 (MQ=255)
ggAGATCGGGCTGGGCGTGGGCATCGTCGCCGGCGTCGCCTATGATG‑CCGAG‑CGCGA‑CCGCAACC‑TGCGCGGCATCTCGGCCGGCCACCTGTTTGGCAGCAA‑CGTGACGCACCTGGCCGTc‑a < 2:372742/122‑1 (MQ=255)
gaTCGGGCTGGGCGTGGGCATCGTCGCCGGCGTCGCCTATGATG‑CCGAG‑CGCGA‑CCGCAACC‑TGCGCGGCATCTCGGCCGGCCACCTGTTTGGCAGCAA‑CGTGACGCACCTGGCCGTCAAGCAGGGTGCCTAcc < 2:668196/134‑1 (MQ=255)
gaTCGGGCTGGGCGTGGGCATCGTCGCCGGCGTCGCCTATGATG‑CCGAG‑CGCGA‑CCGCAACC‑TGCGCGGCATCTCGGCCGGCCACCTGTTTGGCAGCAA‑CGTGACGCACCTGGCCGTCAAGCAGGGTGCCTAcc < 2:609422/134‑1 (MQ=255)
tCGGGCTGGGCGTGGGCATCGTCGCCGGCGTCGCCTATGATG‑CCGAG‑CGCGA‑CCGCAACC‑TGCGCGGCATCTCGGCCGGCCACCTGTTTGGCAGCAA‑CGTGACGCACCTGGCTGTCAAGCAGGGTGCCTACCTg > 2:176019/1‑134 (MQ=255)
cGGGCTGGGCGTGGGCATCGTCGCCGGCGTCGCCTATGATG‑CCGAG‑CGCGA‑CCGCAACC‑TGCGCGGCATCTCGGCCGGCCACCTGTTTGGCAGCAA‑CGTGACGCACCTGGCCGTCAAGCAGGGTGCCTAc > 1:1065227/1‑130 (MQ=255)
cGGGCTGGGCGTGGGCATCGTCGCCGGCGTCGCCTATGATG‑CCGAG‑CGCGA‑CCGCAACC‑TGCGCGGCATCTCGGCCGGCCACCTGTTTGGCAGCAA‑CGTGACGCACCTGGCCGTCAAGCAGGGTGCCTAc < 2:1065227/130‑1 (MQ=255)
gCCGGCGTCGCCTATGATG‑CCGAG‑CGCGA‑CCGCAACC‑TGCGCGGCATCTCGGCCGGCCACCTGTTTGGCAGCAA‑CGTGACGCACCTGGCCGTCAAGCAGGGTGCCTACCTGCGCAGCTTTGTCTACACCTTCAt > 2:955808/1‑134 (MQ=255)
gCCGGCGTCGCCTATGATG‑CCGAG‑CGCGA‑CCGCAACC‑TGCGCGGCATCTCGGCCGGCCACCTGTTTGGCAGCAA‑CGTGACGCACCTGGCCGTCAAGCAGGGTGCCTACCTGCGCAGCTTTGTCTACACCTTCAt > 1:885104/1‑134 (MQ=255)
cgcgA‑CCGCAACC‑TGCGCGGCATCTCGGCCGGCCACCTGTTTGGCAGCAA‑CGTGACGCACCTGGCCGTCAAGCAGGGTGCCTACCTgcgc > 1:629905/1‑90 (MQ=255)
cgcgA‑CCGCAACC‑TGCGCGGCATCTCGGCCGGCCACCTGTTTGGCAGCAA‑CGTGACGCACCTGGCCGTCAAGCAGGGTGCCTACCTgcgc < 2:629905/90‑1 (MQ=255)
gcgaccGCAACC‑TGCGCGGCATCTCGGCCGGCCACCTGTTTGGCAGCAA‑CGTGACGCACCTGGCCGTCAAGCAGGGTGCCTACCTGCGCAGCTTTGTCTACACCTTCATCGAGCTGTTCTCGCCGACGCTCAAc > 1:958612/5‑134 (MQ=255)
cgaccGCAACC‑TGCGCGGCATCTCGGCCGGCCACCTGTTTGGCAGCAA‑CGTGACGCACCTGGCCGTc‑a < 2:871246/65‑1 (MQ=37)
cgaccGCAACC‑TGCGCGGCATCTCGGCCGGCCACCTGTTTGGCAGCAA‑CGTGACGCACCTGGCCGTc‑a > 1:871246/4‑68 (MQ=37)
cgaccGCAACC‑TGCGCGGCATCTCGGCCGGCCACCTGTTTGGCAGCAA‑CGTGACGCACCTGGCCGTCAAGCAGGGTGCCTACCTGCGCAGCTTTGTCTACACCTTCATCGAGCTGTtc > 2:99826/4‑118 (MQ=255)
cgaccGCAACC‑TGCGCGGCATCTCGGCCGGCCACCTGTTTGGCAGCAA‑CGTGACGCACCTGGCCGTCAAGCAGGGTGCCTACCTGCGCAGCTTTGTCTACACCTTCATCGAGCTGTtc < 1:99826/115‑1 (MQ=255)
cgaccGCAACC‑TGCGCGGCATCTCGGCCGGCCACCTGTTTGGCAGCAA‑CGTGACGCACCTGGCCGTCAAGCAGGGTGCCTACCTGCGCAGCTTTGTCTACACCTTCATCGAGCTGTTCTCGCCGACGCTCAAcc < 1:67979/131‑1 (MQ=255)
cgaccGCAACC‑TGCGCGGCATCTCGGCCGGCCACCTGTTTGGCAGCAA‑CGTGACGCACCTGGCCGTCAAGCAGGGTGCCTACCTGCGCAGCTTTGTCTACACCTTCATCGAGCTGTTCTCGCCGACGCTCAAcc > 2:67979/4‑134 (MQ=255)
ctgcgcGGCATCTCGGCCGGCCACCTGTTTGGCAGCAA‑CGTGACGCACCTGGCCGTCAAGCAGGGTGCCTACCTGCGCAGCTTTGTCTACACCTTCATCGAGCTGTTCTCGCCGACGCTCAACCGCAAGCTGGt < 2:291762/129‑1 (MQ=255)
ctGCGCGGCATCTCGGCCGGCCACCTGTTTGGCAGCAA‑CGTGACGCACCTGGCCGTc‑a < 1:638639/57‑1 (MQ=38)
cgcGGCATCTCGGCCGGCCACCTGTTTGGCAGCAA‑CGTGACGCACCTGGCCGTCAAGCAGGGTGCCTACCTGCGCAGCTTTGTCTACACCTTCATCGAGCTGTTCTCGCCGACGCTCAACCGCAAGCTGGtt < 2:958612/130‑1 (MQ=255)
gCATCTCGGCCGGCCACCTGTTTGGCAGCAA‑CGTGACGCACCTGGCCGTCAAGCAGGGTGCCTACCTgcgc < 1:709493/71‑1 (MQ=255)
gCATCTCGGCCGGCCACCTGTTTGGCAGCAA‑CGTGACGCACCTGGCCGTCAAGCAGGGTGCCTACCTgcgc > 2:709493/1‑71 (MQ=255)
gCATCTCGGCCGGCCACCTGTTTGGCAGCAA‑CGTGACGCACCTGGCCGTCAAGCAGGGTGCCTACCTGCGCAGCTTTGTCTACACCTTCATCGAGCTGTTCTCGcc > 2:158569/1‑106 (MQ=255)
gCATCTCGGCCGGCCACCTGTTTGGCAGCAA‑CGTGACGCACCTGGCCGTCAAGCAGGGTGCCTACCTGCGCAGCTTTGTCTACACCTTCATCGAGCTGTTCTCGcc < 1:158569/106‑1 (MQ=255)
ggccggccACCTGTTTGGCAGCAA‑CGTGACGCACCTGGCTGTCAAGCAGGGTGCCTACCTGCGCAGCTTTGTCTACACCTTCATCGAGCTGTTCTCGCCGACGCTCAACCGCAAGCTGGTTGAGCAGGCCATGt < 1:176019/134‑1 (MQ=255)
gCCGTCAAGCAGGGTGCCTACCTGCGCAGCTTTGTCTACACCTTCATCGAGCTGTTCTCGCCGACGCTCAACCGCAAGCTGGTTGAGCAGGCCATGTCCGGCGAACACGAAGCCTACGAACTCTGAGGACgg < 1:955808/132‑1 (MQ=255)
|
GGAGATCGGGCTGGGCGTGGGATTCGTCGCCGGCGTCGCCTATGATGCCCGAGCCGCGACCCGCAACCTTGCCCGGCATCTCGGCCGGCCACCTGTTTGGCAGCAACCGTGACGCACCTGGCCGTC‑AGCAGGGTGCCTACCTGCGCAGCTTTGTGTACACCTTCATCGAGCTGTTCTCGCCGACGCTCAACCGCAAGCTGGTTGAGCAGGCCATGTCCGGCGAACACGAAGCCTACGAACTCTGAGGACGG > AM260479/3247938‑3248188
|
| 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
GATCAAGACGTACGTGGAGATCGGGCTGGGCGTGGGATTCGTCGCCGGCGTCGCCTATGATGCCCGAGCCGCGACCCGCAACCTTGCCCGGCATCTCGGCCGGCCACCTGTTTGGCAGCAACCGTGACGCACCTGGCCGTC‑AGCAGGGTGCCTACCTGCGCAGCTTTGTGTACACCTTCATCGAGCTGTTCTCGCCGACGCTCAACCGCAAGCTGGTTGAGCAGGCCATGTCCGGCGAACACGAAGCCTACGAACTCTGAGGACGGCCCGCCGCCTCTCCCTATATAA > AM260479/3247923‑3248210
|
GATCAAGACGTACGTGGAGATCGGGCTGGGCGTGGGCATCGTCGCCGGCGTCGCCTATGATG‑CCGAG‑CGCGA‑CCGCAACC‑TGCGCGGCATCTCGGCCGGCCACCTGTTTGGCAGCAA‑CGTGACGCACCTGGCCGTCAAGCAGGGTGCCT > GWNJ‑0478:712:GW2002102894th:2:1207:19100:56550/1‑149 (MQ=60)
cagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacaggagcgcgaccgcaacctgcgCGGCATCTCGGCCGGCCACCTGTTTGGCAGCAA‑CGTGACGCACCTGGCCGTCAAGCAGGGTGCCTACC < GWNJ‑0478:712:GW2002102894th:2:2105:9507:99161/68‑1 (MQ=60)
GACGTACGTGGAGATCGGGCTGGGCGTGGGCATCGTCGCCGGCGTCGCCTATGATG‑CCGAG‑CGCGA‑CCGCAACC‑TGCGCGGCATCTCGGCCGGCCACCTGTTTGGCAGCAA‑CGTGACGCACCTGGCCGTCAAGCAGGGTGCCTACCTGCG > GWNJ‑0478:712:GW2002102894th:2:2212:13392:26062/1‑150 (MQ=60)
acgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagaccgcaacctgcgCGGCATCTCGGCCGGCCACCTGTTTGGCAGCAA‑CGTGACGCACCTGGCCGTCAAGCAGGGTGCCTACCTGCGCAGCTTTGTCTACACC < GWNJ‑0478:712:GW2002102894th:2:2109:3365:10015/88‑1 (MQ=60)
GGCGTGGGCATCGTCGCCGGCGTCGCCTATGATG‑CCGAG‑CGCGA‑CCGCAACC‑TGCGCGGCATCTCGGCCGGCCACCTGTTTGGCAGCAA‑CGTGACGCACCTGGCCGTCAAGCAGGGTGCCTACCTGCGCAGCTTTGTCTACACCTTCATC > GWNJ‑0478:712:GW2002102894th:2:2201:4352:100797/1‑150 (MQ=60)
GCCTATGATG‑CCGAG‑CGCGA‑CCGCAACC‑TGCGCGGCATCTCGGCCGGCCACCTGTTTGGCAGCAA‑CGTGACGCACCTGGCCGTCAAGCAGGGTGCCTACCTGCGCAGCTTTGTCTACACCctgtctcttatacacatctccgagcccacg > GWNJ‑0478:712:GW2002102894th:2:2105:6370:48885/1‑120 (MQ=60)
CCTATGATG‑CCGAG‑CGCGA‑CCGCAACC‑TGCGCGGCATCTCGGCCGGCCACCTGTTTGGCAGCAA‑CGTGACGCACCTGGCCGTCAAGCAGGGTGCCTACCTGCGCAGCTTTGTCTACACCTTCATCGAGCTGTTCTCGCCGACGCTCAACC > GWNJ‑0478:712:GW2002102894th:2:2209:20058:43488/1‑150 (MQ=60)
CTATGATG‑CCGAG‑CGCGA‑CCGCAACC‑TGCGCGGCATCTCGGCCGGCCACCTGTTTGGCAGCAA‑CGTGACGCACCTGGCCGTCAAGCAGGGTGCCTACCctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatg > GWNJ‑0478:712:GW2002102894th:2:2201:2842:11984/1‑98 (MQ=57)
agctatgatgccgagcgcgaccgcaacctgcgCGGCATCTCGGCCGGCCACCTGTTTGGCAGCAA‑CGTGACGCACCTGGCCGTCAAGCAGGGTGCCTACCTGCGCAGCTTTGTCTACACCTTCATCGAGCTGTTCTCGCCGACGCTCAAC < GWNJ‑0478:712:GW2002102894th:2:1106:10096:23413/118‑1 (MQ=60)
gtataagagacagaccgcaacctgcgCGGCATCTCGGCCGGCCACCTGTTTGGCAGCAA‑CGTGACGCACCTGGCCGTCAAGCAGGGTGCCTACCTGCGCAGCTTTGTCTACACCTTCATCGAGCTGTTCTCGCCGACGCTCAACCGCAA < GWNJ‑0478:712:GW2002102894th:2:1111:3516:56722/123‑1 (MQ=60)
GCGA‑CCGCAACC‑TGCGCGGCATCTCGGCCGGCCACCTGTTTGGCAGCAA‑CGTGACGCACCTGGCCGTCAAGCAGGGTGCCTACCTGCGCAGCTTTGTCTACACCTTCATCGAGCTGTTCTCGCCGACGCTCAACCGCAAGCTGGTTGAGC < GWNJ‑0478:712:GW2002102894th:2:1104:8907:34282/150‑1 (MQ=60)
CGGCCGGCCACCTGTTTGGCAGCAA‑CGTGACGCACCTGGCTGTCAAGCAGGGTGCCTACCTGCGCAGCTTTGTCTACACCTTCATCGAGCTGTTCTCGCCGACGCTCAACCGCAAGCTGGTTGAGCAGGCCATGTCCGGCGAACACGAAG < GWNJ‑0478:712:GW2002102894th:2:1110:2269:51037/150‑1 (MQ=60)
GTGACGCACCTGGCCGTCAAGCAGGGTGCCTACCTGCGCAGCTTTGTCTACACCctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaaaaaaaaaaacaaaacaaaataaaaaat > GWNJ‑0478:712:GW2002102894th:2:1102:7496:20375/1‑54 (MQ=60)
GTGACGCACCTGGCCGTCAAGCAGGGTGCCTACCTGCGCAGCTTTGTCTACACCctgtctcttatacacatctccgagcccacgagacactcgctaatctcgtatgccgtcttctgcttgaaaaaaaaaaaaaagaaacacacaaaacc > GWNJ‑0478:712:GW2002102894th:2:2205:14696:27717/1‑54 (MQ=60)
GGCCGTCAAGCAGGGTGCCTACCTGCGCAGCTTTGTCTACACCTTCATCGAGCTGTTCTCGCCGACGCTCAACCGCAAGCTGGTTGAGCAGGCCATGTCCGGCGAACACGAAGCCTACGAACTCTGAGGACGGCCCGCCGCCTCTCCC < GWNJ‑0478:712:GW2002102894th:2:2209:11462:28439/148‑1 (MQ=60)
caAGCAGGGTGCCTACCTGCGCAGCTTTGTCTACACCTTCATCGAGCTGTTCTCGCCGACGCTCAACCGCAAGCTGGTTGAGCAGGCCATGTCCGGCGAACACGAAGCCTACGAACTCTGAGGACGGCCCGCCGCCTCTCCCTATATAA < GWNJ‑0478:712:GW2002102894th:2:2110:15613:35305/147‑1 (MQ=60)
|
GATCAAGACGTACGTGGAGATCGGGCTGGGCGTGGGATTCGTCGCCGGCGTCGCCTATGATGCCCGAGCCGCGACCCGCAACCTTGCCCGGCATCTCGGCCGGCCACCTGTTTGGCAGCAACCGTGACGCACCTGGCCGTC‑AGCAGGGTGCCTACCTGCGCAGCTTTGTGTACACCTTCATCGAGCTGTTCTCGCCGACGCTCAACCGCAAGCTGGTTGAGCAGGCCATGTCCGGCGAACACGAAGCCTACGAACTCTGAGGACGGCCCGCCGCCTCTCCCTATATAA > AM260479/3247923‑3248210
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
