Locus 4019

Sequence ID X_DroMel_CAF1
Location 10,633,164 – 10,633,271
Length 107
Max. P 0.546338
window6604

overview

Window 4

Location 10,633,164 – 10,633,271
Length 107
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 89.70
Mean single sequence MFE -23.78
Consensus MFE -20.87
Energy contribution -21.87
Covariance contribution 1.00
Combinations/Pair 1.10
Mean z-score -1.36
Structure conservation index 0.88
SVM decision value 0.03
SVM RNA-class probability 0.546338
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10633164 107 + 22224390
AAUAUUUUCCUUGGCCUUGGGAUACAAUU----UAGUAAGCUU-----UUGUGUCUUUUUAUUUGCUGUAUGUGGG----UCUUGUAUACGGUAAUUUCGUAUUGAGCGCUAGCAAUAUU
..........(((((((..((((((((..----.((....)).-----))))))).......((((((((((..(.----..)..)))))))))).......)..)).)))))....... ( -25.00)
>DroSec_CAF1 14920 107 + 1
AAUAUUUUCCUUGGCCUUGGGAUACAAUU----UAGUAAGCUU-----UUGUGUCUUUUUAUUUGCUGUAUGUGGG----UCUUUUAUACGGUAAUUUCGUAUUGAGCGCUAGCAAUAUU
..........(((((((..((((((((..----.((....)).-----))))))).......((((((((((....----.....)))))))))).......)..)).)))))....... ( -23.40)
>DroSim_CAF1 15486 107 + 1
AAUAUUUUCCUUGGCCUUGGGAUACAAUU----UAGUAAGCUU-----UUGUGUCUUUUUAUUUGCUGUAUGUGGG----UCUUGUAUACGGUAAUUUCGUAUUGAGCGCUAGCAAUAUU
..........(((((((..((((((((..----.((....)).-----))))))).......((((((((((..(.----..)..)))))))))).......)..)).)))))....... ( -25.00)
>DroEre_CAF1 15570 107 + 1
AAUAUUUUCCUUGGCUUUGGGAUACAAUU----UAGUAAGCUU-----UUGUGUCUUUUUAUUUGCUGUAUGUGGG----UCUUGUAUACGGUAAUUUCGUAUUGAGCGCUAGCAAUAUU
..........(((((...(((((((((..----.((....)).-----))))))))).....((((((((((..(.----..)..)))))))))).............)))))....... ( -22.60)
>DroYak_CAF1 15147 111 + 1
AAUAUUUUCCUUGGCCUUGGGAUACAAUU----UAGUAAGCUU-----UUGUGUCUUUUUAUUCGCUGAAUGUGGGGUUCUUUUGUAUACGGUAAUUUCGUAUUGAGCGCUAGCAAUAUU
..........(((((...(((((((((..----.((....)).-----))))))))).......(((.((((((..(((...(((....))).)))..)))))).))))))))....... ( -23.70)
>DroAna_CAF1 23055 110 + 1
UAUAUUUUCCUUGGCCUUGGGAUACAAUUAAUGUAUUAAGCUUCGUGUUUGUGUGUCCUU-CUCGCUGGAUGUGGG----UCUUGUAUU---GAAUUUUGUAUUGAGCGCUAGCAA--UU
..........(((((...((((((((....(((..........))).....)))))))).-...(((.((((..(.----((.......---))...)..)))).))))))))...--.. ( -23.00)
>consensus
AAUAUUUUCCUUGGCCUUGGGAUACAAUU____UAGUAAGCUU_____UUGUGUCUUUUUAUUUGCUGUAUGUGGG____UCUUGUAUACGGUAAUUUCGUAUUGAGCGCUAGCAAUAUU
..........(((((((..((((((((.......((....))......))))))).......((((((((((..((.....))..)))))))))).......)..)).)))))....... (-20.87 = -21.87 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:14:21 2006