Locus 3656

Sequence ID 2R_DroMel_CAF1
Location 12,132,163 – 12,132,257
Length 94
Max. P 0.758022
window5951

overview

Window 1

Location 12,132,163 – 12,132,257
Length 94
Sequences 6
Columns 101
Reading direction forward
Mean pairwise identity 86.68
Mean single sequence MFE -12.12
Consensus MFE -10.50
Energy contribution -10.36
Covariance contribution -0.14
Combinations/Pair 1.06
Mean z-score -1.75
Structure conservation index 0.87
SVM decision value 0.49
SVM RNA-class probability 0.758022
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12132163 94 + 20766785
--CCAAUCAAUCUAGCCAGAUACAAAGAUACACACUCACACUCCCC-C-U---GCUUCCUGGUUAUGAUCAAUAUUUGGUCAACAAUAAAUUUGAAAUUCA
--....((((..(((((((......((...................-)-)---.....)))))))((((((.....)))))).........))))...... ( -12.31)
>DroSec_CAF1 19345 90 + 1
--CCAAUCAAUCUAGUCAGAUACAAAAAUACACACUCAC----UCC-C-C---GCUUCCUGGUUACGAUCAAUAUUUGGUCAACAAUAAAUUUGAAAUUCA
--.............((((((..................----...-(-(---(.....)))....(((((.....)))))........))))))...... (  -8.20)
>DroSim_CAF1 2788 90 + 1
--GCAAUCAAUCUAGCCAGAUACAAAAAUACACACUCAC----UCC-C-C---GCUUCCUGGUUACGAUCAAUAUUUGGUCAACAAUAAAUUUGAAAUUCA
--....((((..(((((((....................----...-.-.---.....))))))).(((((.....)))))..........))))...... ( -11.61)
>DroEre_CAF1 19438 87 + 1
--CCAAUCAAUCUAGCCAGA----AAGAUACACACUCAC----UCCCC-U---GCUUCCUGGUUACGAUCAAUAUUUGGUCAACAAUAAAUUUGAAAUUCA
--....((((..(((((((.----(((............----.....-.---.))).))))))).(((((.....)))))..........))))...... ( -13.81)
>DroYak_CAF1 19678 87 + 1
--CCAAUCAAUCUAGCCAGA----AAGAUACACACUCAC----UCCCC-U---GCUUCCUGGUUACGAUCAAUAUUUGGUCAACAAUAAAUUUGAAAUUCA
--....((((..(((((((.----(((............----.....-.---.))).))))))).(((((.....)))))..........))))...... ( -13.81)
>DroAna_CAF1 17873 91 + 1
AUCGAAUCAAUCUAGCCAGAUA----UAUACA--CACAU----UCCCCAUACGAUUUCCUGGUUACGAUCAAUAUUUGGUCAACAAUCAAUUUGAAUUUCA
.((((((.....(((((((...----......--.....----...............))))))).(((((.....)))))........))))))...... ( -12.95)
>consensus
__CCAAUCAAUCUAGCCAGAUA__AAGAUACACACUCAC____UCC_C_U___GCUUCCUGGUUACGAUCAAUAUUUGGUCAACAAUAAAUUUGAAAUUCA
......((((..(((((((.......................................))))))).(((((.....)))))..........))))...... (-10.50 = -10.36 +  -0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:01:02 2006