Locus 2287

Sequence ID 3R_DroMel_CAF1
Location 6,503,995 – 6,504,107
Length 112
Max. P 0.819043
window3698

overview

Window 8

Location 6,503,995 – 6,504,107
Length 112
Sequences 4
Columns 113
Reading direction forward
Mean pairwise identity 76.95
Mean single sequence MFE -26.58
Consensus MFE -17.21
Energy contribution -18.77
Covariance contribution 1.56
Combinations/Pair 1.04
Mean z-score -1.83
Structure conservation index 0.65
SVM decision value 0.67
SVM RNA-class probability 0.819043
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6503995 112 + 27905053
GUAGUGCUCUGCAGUACUUAGAAAGUGCUUCACCUACUUUGAAUUCAUGAUAAAUUAUCU-UCUAUCAACUUACCCUUGCUGACUUGCAUUGGCGUGAAGCUGGACUGCGGAU
.......(((((((((((.....)))(((((((..............(((((........-..))))).....((..(((......)))..)).)))))))...)))))))). ( -28.90)
>DroSec_CAF1 269074 113 + 1
CUAGUACUCUGCAGUACUUACAAAGUGCUUCACCUACUUUAAAUUCAUGAUAAAUAAUUUGUUUAUCAACUUACCCUUGCUGACUUGCAUUGGCGUGAAGCUGGACUGCGGAU
.......(((((((((((.....)))(((((((..............((((((((.....)))))))).....((..(((......)))..)).)))))))...)))))))). ( -33.00)
>DroEre_CAF1 282244 92 + 1
CUACUACUCUGCAGUACU--------------------UUAAAUUCAUGAUAAAUAGUAU-UUUAUGAACUCACCCUUGCUGACUUGCAUUGGCGUGAAGCUGGACUGCGGAU
.......((((((((...--------------------.....(((((((..........-.))))))).((((((.(((......)))..)).))))......)))))))). ( -25.50)
>DroYak_CAF1 278281 91 + 1
CUACUACUGUGCAGUACU---------------------UAGAUAAUUGAGAAAUGUUUU-UGUAAGAACUUACCCUUGCUGACUUGCAUCGGCGUGAAGCUGGACUGCGGAU
.......(.((((((.((---------------------(((....)))))....(((..-.(((((........))))).))).....(((((.....))))))))))).). ( -18.90)
>consensus
CUACUACUCUGCAGUACU____________________UUAAAUUCAUGAUAAAUAAUUU_UUUAUCAACUUACCCUUGCUGACUUGCAUUGGCGUGAAGCUGGACUGCGGAU
.......((((((((................................(((((((.......)))))))..((((((.(((......)))..)).))))......)))))))). (-17.21 = -18.77 +   1.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:31:39 2006