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 |
3,461,712 |
+G |
coding (823/969 nt) |
h16_A3204 ← |
transcriptional regulator, LysR‑family |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 3,461,710 | 1 | . | G | 100.0%
| 57.6
/ NA
| 16 | P275P (CCT→CCC) | h16_A3204 | transcriptional regulator, LysR‑family |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base G (8/8); total (8/8) |
TCCGCCGCGGGCTATCGCTAATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCA‑GGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGCCACCAGCGCAGCCATGCTGTCGAAACC > AM260479/3461580‑3461829
|
tCCGCCGCGGGCTATCGCTAATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCA‑ggg > 1:939792/1‑133 (MQ=255)
gccgcGGGCTATCGCTAATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCA‑gggcgc < 1:495262/134‑5 (MQ=255)
cgGGCTATCGCTAATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGcgccgc > 2:124616/1‑133 (MQ=255)
gggCTATCGCTAATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCaa < 1:845195/134‑1 (MQ=255)
ttCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGc < 1:124616/134‑1 (MQ=255)
ttCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGc < 2:740128/134‑1 (MQ=255)
tttCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTgccgg < 2:777572/134‑1 (MQ=255)
cgcgTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTgccggccg > 2:148943/1‑134 (MQ=255)
ttGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCt > 1:819586/1‑134 (MQ=255)
cAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTcgcgc < 2:939792/134‑1 (MQ=255)
cTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCAt > 2:551821/1‑134 (MQ=255)
gcgcCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCAcc > 1:679487/1‑134 (MQ=255)
gAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCTCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCgccgcc > 1:106495/1‑134 (MQ=255)
aGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGccc < 2:819586/134‑1 (MQ=255)
caAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGACCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGCCACCAGCGCAGCCATGCTGTc > 1:899765/1‑133 (MQ=255)
ccGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGCCACCAGCGCAGCCATGCTGTCGAAAcc < 1:551821/132‑1 (MQ=255)
gcgcCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGtt < 1:481310/94‑1 (MQ=255)
gcgcCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGtt > 2:481310/1‑94 (MQ=255)
|
TCCGCCGCGGGCTATCGCTAATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCA‑GGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGCCACCAGCGCAGCCATGCTGTCGAAACC > AM260479/3461580‑3461829
|
| 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
CATCATCCGCAATACATCCGCCGCGGGCTATCGCTAATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCA‑GGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGCCACCAGCGCAGCCATGCTGTCGAAACCGCCCACGCGCATGCG > AM260479/3461564‑3461844
|
ggtcggcgaacatgtcttttgtttttttgtttttttttttcaagcagaagacggcatacgagatgtagctccgtctcgtgggctcggagatgtgtataagagacagCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCA‑GGG < GWNJ‑0478:712:GW2002102894th:2:1103:9100:92021/44‑1 (MQ=60)
ATCATCCGCAATACATCCGCCGCGGGCTATCGCTAATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCA‑GGgc < GWNJ‑0478:712:GW2002102894th:2:2102:13716:63285/150‑3 (MQ=60)
ATCATCCGCAATACATCCGCCGCGGGCTATCGCTAATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCA‑GGgc > GWNJ‑0478:712:GW2002102894th:2:2212:19766:5154/1‑148 (MQ=60)
CGCCGCGGGCTATCGCTAATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCG < GWNJ‑0478:712:GW2002102894th:2:1214:10782:87989/150‑1 (MQ=60)
CGGGCTATCGCTAATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAA < GWNJ‑0478:712:GW2002102894th:2:2209:6029:26510/150‑1 (MQ=60)
ATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCT < GWNJ‑0478:712:GW2002102894th:2:1109:4773:25812/150‑1 (MQ=60)
TTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTC > GWNJ‑0478:712:GW2002102894th:2:2204:10662:60738/1‑150 (MQ=60)
CCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCC > GWNJ‑0478:712:GW2002102894th:2:2110:2403:82287/1‑150 (MQ=60)
ACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCTCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCC > GWNJ‑0478:712:GW2002102894th:2:1108:8094:12729/1‑150 (MQ=60)
gctcgggagatgtgtataagagacagGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGCCACCAGCGC < GWNJ‑0478:712:GW2002102894th:2:1214:16087:9969/124‑1 (MQ=60)
ccgtctcgtgggctcggagatgtgtataagagacaggcccagGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGCCACCAGCGCAGCCATG < GWNJ‑0478:712:GW2002102894th:2:1109:13203:19677/108‑1 (MQ=60)
gtataagagacagttgtgcggctgcccattgcggcgcccagGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGCCACCAGCGCAGCCATGC < GWNJ‑0478:712:GW2002102894th:2:2207:10724:16073/109‑1 (MQ=60)
GCCGATGACACAGCACAAACTGCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGACCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGCCACCAGCGCAGCCATGCTGTCG > GWNJ‑0478:712:GW2002102894th:2:2208:14983:65793/1‑149 (MQ=60)
GCCGCTGCGCCCAGGGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGCCACCAGCGCAGCCATGCTGTCGAAACCGCCCACGCGCATGCG < GWNJ‑0478:712:GW2002102894th:2:2102:2820:67724/148‑1 (MQ=60)
|
CATCATCCGCAATACATCCGCCGCGGGCTATCGCTAATTGGGGGATTCTGGTTTCGCGTTTTGCGCAAGCACCGCCAGCACGCTGAGCGCCGCCGAGGAAAGTGCCCCATGGGGCCGATGACACAGCACAAACTGCCGCTGCGCCCA‑GGCGCCGCAATGGGCAGCCGCACAAAGCGGCTGCCGGCCGCCACCTCGCGCGCGATCGCCTCCGGCATCACCCCGCCGCCCAGGTTCTGCGCCACCAGCGCAGCCATGCTGTCGAAACCGCCCACGCGCATGCG > AM260479/3461564‑3461844
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
