Locus 4856

Sequence ID 3R_DroMel_CAF1
Location 12,729,710 – 12,729,816
Length 106
Max. P 0.990028
window7952

overview

Window 2

Location 12,729,710 – 12,729,816
Length 106
Sequences 4
Columns 113
Reading direction reverse
Mean pairwise identity 80.79
Mean single sequence MFE -22.20
Consensus MFE -14.90
Energy contribution -16.65
Covariance contribution 1.75
Combinations/Pair 1.12
Mean z-score -2.69
Structure conservation index 0.67
SVM decision value 2.19
SVM RNA-class probability 0.990028
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12729710 106 - 27905053
AAAAUCAAAGUUGUUUAUUUUCUAUUUAAAGAUAAAUGAACAAG------AUUCUAAGAAUAGCUGGAGU-UGGGAAUUUACAAAAUGUAAAUUCUAAGCUCAGAAUGAAUGA
....(((...(((((((((((((......))).)))))))))).------(((((.((.....)).((((-(.(((((((((.....))))))))).))))))))))...))) ( -25.70)
>DroSec_CAF1 105238 106 - 1
AAAAUCAAAGUUGUUUAUUUUCUAUUUAAAGGUAAAUGAACAAG------AUUCUAACAAUAGCUGGGGUUUGAGAAAUUACAAAAUGUAAAUUCUAAGCUCAGAAUGACUA-
........(((((((((((((((......))).))))))))...------(((((..((.....))((((((.((((.((((.....)))).))))))))))))))))))).- ( -21.00)
>DroSim_CAF1 106665 106 - 1
AAAAUCAAAGUUGUUUAUUUUCUAUUUAAAGGUAAAUGAACAAG------AUUCUAACAAUAGCUGGGGU-UGGGAAUUUACAAAAUGUAAAUUCUAAGCUCAGAAUGACUAA
....(((...(((((((((((((......))).)))))))))).------.............(((((.(-(((.(((((((.....))))))))))).)))))..))).... ( -25.00)
>DroEre_CAF1 111150 97 - 1
GAAACCAAAGAUGUUUAUUUUCUAUUUUUAGGUAAAUGAACCAGCUAUUUAUUCCAACAAUGGCAGCAGU-UGGAACUUUACAAAGUGUAAAUUCUAA---------------
(((.((((....((((((((((((....)))).))))))))..((((((.........)))))).....)-)))...(((((.....))))))))...--------------- ( -17.10)
>consensus
AAAAUCAAAGUUGUUUAUUUUCUAUUUAAAGGUAAAUGAACAAG______AUUCUAACAAUAGCUGGAGU_UGGGAAUUUACAAAAUGUAAAUUCUAAGCUCAGAAUGACUA_
..........(((((((((((((......))).)))))))))).......................((((...(((((((((.....)))))))))..))))........... (-14.90 = -16.65 +   1.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:40:28 2006