Locus 1116

Sequence ID 2L_DroMel_CAF1
Location 3,012,697 – 3,012,857
Length 160
Max. P 0.593947
window1818 window1819

overview

Window 8

Location 3,012,697 – 3,012,817
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 97.78
Mean single sequence MFE -35.67
Consensus MFE -32.55
Energy contribution -32.67
Covariance contribution 0.11
Combinations/Pair 1.03
Mean z-score -1.78
Structure conservation index 0.91
SVM decision value 0.12
SVM RNA-class probability 0.593947
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3012697 120 - 22407834
UAAUCACCAGAUGUGCGUCAACUAAACGGAGGCUUCCGCUUCUGGUUUGGAAACCGAAAGCCAGCCCGAUGCACUGAAUCAACACAUAUCACCGCAUUUGUAUCUGGAAAGUGAAAUUGU
......(((((((((((((..((((((((((((....)))))).))))))....(....).......)))))))...................((....))))))))............. ( -32.10)
>DroSec_CAF1 20060 120 - 1
UAAUCACCAGAUGUGCGUCGACUAAACGGAGGCUUCCGCUUCUGGUUUGGAAACCGAAAGCCAGACCGAUGCACUGAAUCACCGCAUAUCACCGCAUUUGUAUCUGGAAAGUGAAAUUGU
......((((((((((((((......(((((((....)))))))((((((....(....))))))))))))))).........((........))......))))))............. ( -38.90)
>DroEre_CAF1 20768 120 - 1
UAAUCACCAGAUGUGCGUCGACUAAACGGAGGCUUCCGCUUCUGGUUUGGAAACCGAAAGCCAGCCCGAUGCACUGAAUCACCGCAUAUCACCGCAUUUGUAUCUGGAAAGUGAAAUUGU
......((((((((((((((.((((((((((((....)))))).))))))....(....)......)))))))).........((........))......))))))............. ( -36.00)
>consensus
UAAUCACCAGAUGUGCGUCGACUAAACGGAGGCUUCCGCUUCUGGUUUGGAAACCGAAAGCCAGCCCGAUGCACUGAAUCACCGCAUAUCACCGCAUUUGUAUCUGGAAAGUGAAAUUGU
......((((((((((((((.((((((((((((....)))))).))))))....(....)......)))))))).........(((............)))))))))............. (-32.55 = -32.67 +   0.11) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 3,012,737 – 3,012,857
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 98.89
Mean single sequence MFE -45.77
Consensus MFE -43.69
Energy contribution -43.80
Covariance contribution 0.11
Combinations/Pair 1.03
Mean z-score -1.47
Structure conservation index 0.95
SVM decision value -0.05
SVM RNA-class probability 0.507089
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3012737 120 - 22407834
GCUUUCUGGCUGGGAUCGGAUGGGCUGGCGCUGAAGCGUCUAAUCACCAGAUGUGCGUCAACUAAACGGAGGCUUCCGCUUCUGGUUUGGAAACCGAAAGCCAGCCCGAUGCACUGAAUC
((..((.((((((..((((......((((((....((((((.......)))))))))))).((((((((((((....)))))).))))))...))))...)))))).)).))........ ( -46.50)
>DroSec_CAF1 20100 120 - 1
GCUUUCUGGCUGGGAUCGGAUGGGCUGGCGCUGAAGCGUCUAAUCACCAGAUGUGCGUCGACUAAACGGAGGCUUCCGCUUCUGGUUUGGAAACCGAAAGCCAGACCGAUGCACUGAAUC
....((((((((....))).(((...(((((....)))))...)))))))).((((((((......(((((((....)))))))((((((....(....)))))))))))))))...... ( -45.00)
>DroEre_CAF1 20808 120 - 1
GCUUUCUGGCUGGGAUCGGAUGGGCUGGCGCUGAAGCGUCUAAUCACCAGAUGUGCGUCGACUAAACGGAGGCUUCCGCUUCUGGUUUGGAAACCGAAAGCCAGCCCGAUGCACUGAAUC
((..((.((((((..((((......((((((....((((((.......)))))))))))).((((((((((((....)))))).))))))...))))...)))))).)).))........ ( -45.80)
>consensus
GCUUUCUGGCUGGGAUCGGAUGGGCUGGCGCUGAAGCGUCUAAUCACCAGAUGUGCGUCGACUAAACGGAGGCUUCCGCUUCUGGUUUGGAAACCGAAAGCCAGCCCGAUGCACUGAAUC
((..((.((((((..((((......((((((....((((((.......)))))))))))).((((((((((((....)))))).))))))...))))...)))))).)).))........ (-43.69 = -43.80 +   0.11) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:54:07 2006