Locus 1660

Sequence ID 3R_DroMel_CAF1
Location 4,791,087 – 4,791,207
Length 120
Max. P 0.777190
window2739

overview

Window 9

Location 4,791,087 – 4,791,207
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 94.11
Mean single sequence MFE -30.10
Consensus MFE -27.65
Energy contribution -27.93
Covariance contribution 0.28
Combinations/Pair 1.10
Mean z-score -1.19
Structure conservation index 0.92
SVM decision value 0.55
SVM RNA-class probability 0.777190
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4791087 120 + 27905053
CAAGCCAUCAGUCAAAGCAUUUUGUUCCAGGCAAAUAAAGGCAAGCAAUCAAAUUCAGGCAAACGCCAAAGAGUUUGAAAAAACAUAGUGCGGCGGCCGGGGGGAGAGGUCAAUGGGGCA
...(((.((((((...(((((.((((....((........))......((((((((.(((....)))...))))))))...)))).))))))))((((.........))))..)))))). ( -32.90)
>DroSec_CAF1 26388 120 + 1
CAAGCCAUCAGUCAAAGCAUUUUGUUCCAGGCAAAUAAAGGCAAGCAAUCAAAUUCAGGCAAACGCCAAAGAGUUUGAAAAAACAUAGAGUGGCGGCCGGGGGGAGAGGUCAAUGGGGCA
...(((.(((((((..((..(((((.....))))).....))......((((((((.(((....)))...))))))))............))))((((.........))))..)))))). ( -30.80)
>DroSim_CAF1 21870 120 + 1
CAAGCCAUCAGUCAAAGCAUUUUGUUCCAGGCAAAUAAAGGCAAGCAAUCAAAUUCAGGCAAACGCCAAAGAGUUUGAAAAAACAUAGAGUGGCGGCCGGGGGGAGAGGUCAAUGGGGCA
...(((.(((((((..((..(((((.....))))).....))......((((((((.(((....)))...))))))))............))))((((.........))))..)))))). ( -30.80)
>DroEre_CAF1 26705 120 + 1
CAAGCCAUCAGUCAAAGCAUUUUGUUCCAGGCAAAUAAAGGCAAGCAAUCAAAUUCAGGCAAACGCCAAAGAGUUUGAAAACACAUAGAGGGACGGCCGGGGGGAGAGGUCAAUGGGGCA
...(((.(((.............(((((..((........))......((((((((.(((....)))...))))))))...........)))))((((.........))))..)))))). ( -31.00)
>DroYak_CAF1 27094 120 + 1
CAAGCCAUCAGUCAAAGCAUUUUGUUCCAGGCAAAUAAAGGCAAGCAAUCAAAUUCAGGCAAACGCCAAAGACUUUGAAAACACAUUGAGGGGCGGCCGGGGGGAGAGGUCAAUGGGGCA
...(((.(((.............(((((..((........))......(((((.((.(((....)))...)).)))))...........)))))((((.........))))..)))))). ( -26.80)
>DroAna_CAF1 25534 120 + 1
CAAGCCAUCAGUCAAAGCAUUUUGUUCCAAGCAAAUAAAGGCAAGCAAUCAAAUUCAGGCAAACGCCAGAAGAGUUGAAAAAUAAAAAUGUGGCGGCCGGGAGGAAAGUUCAAUGGGGCA
...(((.(((.....(((.((((.((((..((........))...............(((...(((((.(...(((....))).....).)))))))))))).)))))))...)))))). ( -28.30)
>consensus
CAAGCCAUCAGUCAAAGCAUUUUGUUCCAGGCAAAUAAAGGCAAGCAAUCAAAUUCAGGCAAACGCCAAAGAGUUUGAAAAAACAUAGAGUGGCGGCCGGGGGGAGAGGUCAAUGGGGCA
...(((.((((((...((..(((((.....))))).....))......((((((((.(((....)))...)))))))).............)))((((.........))))..)))))). (-27.65 = -27.93 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:16:10 2006