Locus 1073

Sequence ID X_DroMel_CAF1
Location 3,155,891 – 3,156,004
Length 113
Max. P 0.507737
window1744

overview

Window 4

Location 3,155,891 – 3,156,004
Length 113
Sequences 4
Columns 114
Reading direction forward
Mean pairwise identity 82.88
Mean single sequence MFE -30.46
Consensus MFE -18.38
Energy contribution -20.75
Covariance contribution 2.38
Combinations/Pair 1.20
Mean z-score -1.79
Structure conservation index 0.60
SVM decision value -0.05
SVM RNA-class probability 0.507737
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3155891 113 + 22224390
GUGCGGUUCAAAGCAUGUGUGUGUGUGUGUGCGUGAACUCAUAAGCGUGGUAAAAUAAGUAGGCGUCCUGUCUA-UGUAAUCAUGGAACACACAUAAUUGAACCAAAUCAAAUU
....(((((((...((((((((.((((.((......)).))))..((((((...(((..((((...))))..))-)...))))))..))))))))..))))))).......... ( -33.40)
>DroSec_CAF1 113183 106 + 1
GUGGGGUUCAAACCAUGUGUG----UGCGUGCGUGAACUCAUAAGCGUGGUAAAAUAAGUAGGCGUC-UGCCUAAUG---CCAUGGAACACACAUAAUUCAAUCAAAUCAAAUU
((((((((((...(((((...----.)))))..))))))).....(((((((.......(((((...-.))))).))---)))))...)))....................... ( -29.90)
>DroEre_CAF1 119785 106 + 1
GUGCGGUUCAAACCAUGUGCG----UGUGUGUGUGAGUUCAUAAGCGGGGUAAAAUAGGUUGGCGUC-UGCCUAUUA---CCAUGCAACACACAUAAUUGAGCCAAAUCAAAUU
....(((((((....((((.(----(((...((((....)))).(((.((((..((((((.......-.))))))))---)).))).)))).)))).))))))).......... ( -32.00)
>DroYak_CAF1 121383 104 + 1
GUGGGGUUCCAACCAUGUG------UGUGUUUGUGAAUUCAUAAGCGGGGUAAAAUAAGUGGGCGUC-UGCCUAUUG---CCAUGCAGCACAAAUAAUUAAGCCUAAUCAAAUC
...(((((.........((------((((((((((....)))))))..((((......((((((...-.))))))))---)).....)))))........)))))......... ( -26.53)
>consensus
GUGCGGUUCAAACCAUGUGUG____UGUGUGCGUGAACUCAUAAGCGGGGUAAAAUAAGUAGGCGUC_UGCCUAUUG___CCAUGCAACACACAUAAUUGAACCAAAUCAAAUU
....(((((((...(((((((...........(((....)))..((((((.......(((((((.....)))))))....))))))..)))))))..))))))).......... (-18.38 = -20.75 +   2.38) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:00:57 2006