Locus 4643

Sequence ID 3R_DroMel_CAF1
Location 12,221,415 – 12,221,510
Length 95
Max. P 0.993622
window7632

overview

Window 2

Location 12,221,415 – 12,221,510
Length 95
Sequences 4
Columns 98
Reading direction forward
Mean pairwise identity 81.43
Mean single sequence MFE -31.41
Consensus MFE -21.55
Energy contribution -22.05
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -2.86
Structure conservation index 0.69
SVM decision value 2.41
SVM RNA-class probability 0.993622
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12221415 95 + 27905053
UACAAUAUA---CUUUUGUGCGAGCCGUGUCAUUUGUUUACAGUGCAUCUGAACGAAGGCUGCGACUAAGAAUCUCGGAAGAAUCGGUCGCAGGCUCA
(((((....---...))))).(((((..(((.((((((..(((.....))))))))))))(((((((..((...((....)).)))))))))))))). ( -30.90)
>DroSec_CAF1 35039 86 + 1
UACGUGUCAGA------------UCCAUCUCAUUUGUUUACAGUGUAUCUGAACGAAGCCUGCGACUGAGAAUCUCGGAAGAAUCGGUCGCAGGCUCA
..(((.(((((------------(.(((..............))).))))))))).(((((((((((((.....((....)).))))))))))))).. ( -36.04)
>DroSim_CAF1 34827 98 + 1
UACGUUUCAGAUCCUUUGUGCGAUCCAUCUCAUUUGUUUACAGUGUAUCUGAACGAAGACUGCGACUGAGAAUCUCGGAAGAAUCGGUCGCAGGCUCA
..((((.(((((.(.((((((((..........))))..)))).).)))))))))....((((((((((.....((....)).))))))))))..... ( -32.10)
>DroYak_CAF1 35649 93 + 1
UAC-----AGAUCUUUUGUGCUAGUAGUCUCAUUUCUUUCCAGUGUAUCUGAACGAAAGCUGCGACUGAGAAUCUCGGAAGAAUCGGUCGCAGGCUCA
...-----....(((((((.....(((...((((.......))))...))).)))))))((((((((((.....((....)).))))))))))..... ( -26.60)
>consensus
UACGUUUCAGA_CUUUUGUGCGAGCCAUCUCAUUUGUUUACAGUGUAUCUGAACGAAGGCUGCGACUGAGAAUCUCGGAAGAAUCGGUCGCAGGCUCA
................................((((((..(((.....)))))))))..((((((((((.....((....)).))))))))))..... (-21.55 = -22.05 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:35:26 2006