Locus 6608

Sequence ID 3L_DroMel_CAF1
Location 17,560,576 – 17,560,696
Length 120
Max. P 0.972741
window10755 window10756

overview

Window 5

Location 17,560,576 – 17,560,696
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 82.13
Mean single sequence MFE -20.53
Consensus MFE -14.25
Energy contribution -16.03
Covariance contribution 1.78
Combinations/Pair 1.04
Mean z-score -2.80
Structure conservation index 0.69
SVM decision value 1.70
SVM RNA-class probability 0.972741
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17560576 120 + 23771897
AACAUUAAUUAAAACAUUUUAAAAUCUUAAAUUAGCUUCAAAGAUCUUUGAGCCUCAAAGUAUGCAAUAAUAUACUUCCAAAUUAAAACCCUUUUGAACCGUGAGAUCUCACUGCUCACA
........((((((..((((((............(((.((((....)))))))....(((((((......))))))).....))))))...))))))...(((((.........))))). ( -16.30)
>DroSec_CAF1 46147 107 + 1
-------------ACAUUUUAAAAUUCUAAAUCAGCUUCAAAUAUCUUUGAGCCUCAAAGUAUGCAAUGAUUUAUUUUCAAAUGAAAAUCCUUUUGAACUGUGAGAUCUCACGGUUCAAA
-------------.(((((.((((...(((((((.......(((.(((((.....))))))))....))))))))))).)))))........((((((((((((....)))))))))))) ( -27.00)
>DroSim_CAF1 49669 107 + 1
-------------AAAUUGUAAAAUCUUAAAUCAGCUUCAAAUAUCUUUGAGCCCCAAAGUAUGCAAUGAUAUAUUUUCAAAUGAAAAUCCUUUUGAACUGUAAGAUCUCACGGUUCAAA
-------------..((((((....(((......(((.((((....)))))))....)))..)))))).....((((((....))))))...((((((((((........)))))))))) ( -18.30)
>consensus
_____________ACAUUUUAAAAUCUUAAAUCAGCUUCAAAUAUCUUUGAGCCUCAAAGUAUGCAAUGAUAUAUUUUCAAAUGAAAAUCCUUUUGAACUGUGAGAUCUCACGGUUCAAA
..................................(((.((((....)))))))...((((((((......))))))))..............((((((((((((....)))))))))))) (-14.25 = -16.03 +   1.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 17,560,576 – 17,560,696
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 82.13
Mean single sequence MFE -24.77
Consensus MFE -19.14
Energy contribution -17.93
Covariance contribution -1.21
Combinations/Pair 1.23
Mean z-score -1.99
Structure conservation index 0.77
SVM decision value 0.79
SVM RNA-class probability 0.851745
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17560576 120 - 23771897
UGUGAGCAGUGAGAUCUCACGGUUCAAAAGGGUUUUAAUUUGGAAGUAUAUUAUUGCAUACUUUGAGGCUCAAAGAUCUUUGAAGCUAAUUUAAGAUUUUAAAAUGUUUUAAUUAAUGUU
..(((((.((((....)))).)))))((((.(((((((..(.(((((((........))))))).)((((((((....)))).))))...........))))))).)))).......... ( -26.00)
>DroSec_CAF1 46147 107 - 1
UUUGAACCGUGAGAUCUCACAGUUCAAAAGGAUUUUCAUUUGAAAAUAAAUCAUUGCAUACUUUGAGGCUCAAAGAUAUUUGAAGCUGAUUUAGAAUUUUAAAAUGU-------------
(((((((.((((....)))).)))))))..........(((((((.((((((....((.....)).((((((((....)))).))))))))))...)))))))....------------- ( -23.80)
>DroSim_CAF1 49669 107 - 1
UUUGAACCGUGAGAUCUUACAGUUCAAAAGGAUUUUCAUUUGAAAAUAUAUCAUUGCAUACUUUGGGGCUCAAAGAUAUUUGAAGCUGAUUUAAGAUUUUACAAUUU-------------
........((((((((((((((((((((...((((((....)))))).............(((((.....)))))...)))).)))))...))))))))))).....------------- ( -24.50)
>consensus
UUUGAACCGUGAGAUCUCACAGUUCAAAAGGAUUUUCAUUUGAAAAUAUAUCAUUGCAUACUUUGAGGCUCAAAGAUAUUUGAAGCUGAUUUAAGAUUUUAAAAUGU_____________
(((((((.((((....)))).)))))))((((((((..............(((..(....)..)))((((((((....)))).)))).....)))))))).................... (-19.14 = -17.93 +  -1.21)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:25:34 2006