Locus 7634

Sequence ID 3L_DroMel_CAF1
Location 20,544,911 – 20,545,006
Length 95
Max. P 0.996821
window12402 window12403

overview

Window 2

Location 20,544,911 – 20,545,006
Length 95
Sequences 4
Columns 95
Reading direction forward
Mean pairwise identity 93.50
Mean single sequence MFE -28.80
Consensus MFE -24.73
Energy contribution -25.47
Covariance contribution 0.75
Combinations/Pair 1.00
Mean z-score -2.68
Structure conservation index 0.86
SVM decision value 1.61
SVM RNA-class probability 0.967581
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20544911 95 + 23771897
AGCUUUGACUCGGUGGAUUUUUUUUACCCCUUUUGAUUAUCCCCACACCAAUGUGGUUGUAUCCGUGGAUUUCGGGGGAGUCAAAAGUCAAUUAA
....(((((..((((((.....))))))..((((((((.((((((((((.....)).)))(((....)))...)))))))))))))))))).... ( -28.80)
>DroSec_CAF1 86832 94 + 1
AGCUUAGACUCAGUGGGUUU-UUUUACCCCCUUUGAUUAUCCCCACUCCAGUUUGGUUGUAUCCGUGGAUUUCGGGGGAGUCAAAAGUCAAUUAA
......((((..(.((((..-....)))).)(((((((.(((((..((((...(((......)))))))....))))))))))))))))...... ( -27.30)
>DroSim_CAF1 87770 95 + 1
AGCUUUGACUCAGUGGGUUUUUUUUACCCCCUUUGAUUAUCCCCACUCCAGUUUGGUUGUAUCCGUGGAUUUCGGGGGAGUCAAAAGUCAAUUAA
....((((((..(.((((.......)))).)(((((((.(((((..((((...(((......)))))))....)))))))))))))))))).... ( -28.20)
>DroEre_CAF1 89394 94 + 1
AGCUUUGACUCAGUGGGUUU-UUGUACCCUUUUUGAUUUUCCCCACUCCAAUGUGGUUGUAUCCGUGGAUUUCGGGGGAGUCAAAAGUCAAUUAA
....(((((.....((((..-....)))).((((((((..(((...((((...(((......)))))))....)))..))))))))))))).... ( -30.90)
>consensus
AGCUUUGACUCAGUGGGUUU_UUUUACCCCCUUUGAUUAUCCCCACUCCAAUGUGGUUGUAUCCGUGGAUUUCGGGGGAGUCAAAAGUCAAUUAA
....((((((....((((.......))))..(((((((.(((((..((((...(((......)))))))....)))))))))))))))))).... (-24.73 = -25.47 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 20,544,911 – 20,545,006
Length 95
Sequences 4
Columns 95
Reading direction reverse
Mean pairwise identity 93.50
Mean single sequence MFE -27.70
Consensus MFE -26.36
Energy contribution -26.67
Covariance contribution 0.31
Combinations/Pair 1.04
Mean z-score -3.54
Structure conservation index 0.95
SVM decision value 2.75
SVM RNA-class probability 0.996821
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20544911 95 - 23771897
UUAAUUGACUUUUGACUCCCCCGAAAUCCACGGAUACAACCACAUUGGUGUGGGGAUAAUCAAAAGGGGUAAAAAAAAUCCACCGAGUCAAAGCU
.........(((((((((((((...(((....)))(((.((.....)))))))))..........((((..........)).))))))))))).. ( -25.50)
>DroSec_CAF1 86832 94 - 1
UUAAUUGACUUUUGACUCCCCCGAAAUCCACGGAUACAACCAAACUGGAGUGGGGAUAAUCAAAGGGGGUAAAA-AAACCCACUGAGUCUAAGCU
........(((..((((((((((...((((.((......))....)))).)))))........((.((((....-..)))).))))))).))).. ( -26.90)
>DroSim_CAF1 87770 95 - 1
UUAAUUGACUUUUGACUCCCCCGAAAUCCACGGAUACAACCAAACUGGAGUGGGGAUAAUCAAAGGGGGUAAAAAAAACCCACUGAGUCAAAGCU
.........((((((((((((((...((((.((......))....)))).)))))........((.((((.......)))).))))))))))).. ( -29.10)
>DroEre_CAF1 89394 94 - 1
UUAAUUGACUUUUGACUCCCCCGAAAUCCACGGAUACAACCACAUUGGAGUGGGGAAAAUCAAAAAGGGUACAA-AAACCCACUGAGUCAAAGCU
.........((((((((((((((...((((.((......))....)))).)))))...........((((....-..))))...))))))))).. ( -29.30)
>consensus
UUAAUUGACUUUUGACUCCCCCGAAAUCCACGGAUACAACCAAACUGGAGUGGGGAUAAUCAAAAGGGGUAAAA_AAACCCACUGAGUCAAAGCU
.........((((((((((((((...((((.((......))....)))).)))))...........((((.......))))...))))))))).. (-26.36 = -26.67 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:52:11 2006