Locus 8634

Sequence ID 3L_DroMel_CAF1
Location 22,434,147 – 22,434,250
Length 103
Max. P 0.834365
window14147 window14148

overview

Window 7

Location 22,434,147 – 22,434,250
Length 103
Sequences 3
Columns 115
Reading direction forward
Mean pairwise identity 82.89
Mean single sequence MFE -33.83
Consensus MFE -24.93
Energy contribution -24.60
Covariance contribution -0.33
Combinations/Pair 1.14
Mean z-score -1.59
Structure conservation index 0.74
SVM decision value -0.03
SVM RNA-class probability 0.518550
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22434147 103 + 23771897
GAAUGGAGGGGUGGUGG------------GUGCUGGCGCCUGGGGUGGUGCAGCUGUGGCGGGUUAUGUAUAAAUUCAUAAAGAGACCCACAGCAGCGAGAGCGAGAAGGGAAAA
..........((.((((------------((((((.((((......)))))))).....(...(((((........)))))...))))))).)).((....))............ ( -30.40)
>DroEre_CAF1 11910 113 + 1
GG-GGGUCGUGUGGCGGGUGGUGGUGCUGGUGCUGGUGCCCAGGGUGGCGCAGCUGUGGCGGGUUAUGUAUAAAUUCAUAAAGAGACCCACGGCAGCGAGAACGAGAAGGGA-AA
..-..(((((((.((((.((((..(.((((.((....)))))).)..)).)).)))).))(((((...(((......)))....))))))))))..................-.. ( -35.40)
>DroYak_CAF1 48344 109 + 1
GGAUGGUGGUGCGGUGGG------UGCUGGUGCUGGUGCCUGGGGUGGUGCAGCUGUGCCGGGUUAUGUAUAAAUUCAUAAAGAGACCCACAGCAGCGAGAACGAGAAGAGAAAA
......((.(((.(((((------(.((((..(..(..((......))..)....)..)))).(((((........)))))....)))))).))).))................. ( -35.70)
>consensus
GGAUGGUGGUGUGGUGGG______UGCUGGUGCUGGUGCCUGGGGUGGUGCAGCUGUGGCGGGUUAUGUAUAAAUUCAUAAAGAGACCCACAGCAGCGAGAACGAGAAGGGAAAA
..............................((((.(((((......))))).(((((((....(((((........)))))......)))))))))))................. (-24.93 = -24.60 +  -0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 22,434,147 – 22,434,250
Length 103
Sequences 3
Columns 115
Reading direction reverse
Mean pairwise identity 82.89
Mean single sequence MFE -23.57
Consensus MFE -15.91
Energy contribution -15.80
Covariance contribution -0.11
Combinations/Pair 1.10
Mean z-score -2.29
Structure conservation index 0.67
SVM decision value 0.73
SVM RNA-class probability 0.834365
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22434147 103 - 23771897
UUUUCCCUUCUCGCUCUCGCUGCUGUGGGUCUCUUUAUGAAUUUAUACAUAACCCGCCACAGCUGCACCACCCCAGGCGCCAGCAC------------CCACCACCCCUCCAUUC
............(((...((((..((((((.....((((........))))))))))..)))).((.((......)).)).)))..------------................. ( -22.40)
>DroEre_CAF1 11910 113 - 1
UU-UCCCUUCUCGUUCUCGCUGCCGUGGGUCUCUUUAUGAAUUUAUACAUAACCCGCCACAGCUGCGCCACCCUGGGCACCAGCACCAGCACCACCACCCGCCACACGACCC-CC
..-.......((((....((((..((((((.....((((........))))))))))..)))).(((((......)))....((....))..........))...))))...-.. ( -25.40)
>DroYak_CAF1 48344 109 - 1
UUUUCUCUUCUCGUUCUCGCUGCUGUGGGUCUCUUUAUGAAUUUAUACAUAACCCGGCACAGCUGCACCACCCCAGGCACCAGCACCAGCA------CCCACCGCACCACCAUCC
..................(.(((.((((((((..(((((........)))))...((....((((..((......))...)))).)))).)------))))).))).)....... ( -22.90)
>consensus
UUUUCCCUUCUCGUUCUCGCUGCUGUGGGUCUCUUUAUGAAUUUAUACAUAACCCGCCACAGCUGCACCACCCCAGGCACCAGCACCAGCA______CCCACCACACCACCAUCC
............(((...((((..((((((.....((((........))))))))))..))))(((.(.......))))..)))............................... (-15.91 = -15.80 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:20:56 2006