Locus 1290

Sequence ID 3R_DroMel_CAF1
Location 3,814,987 – 3,815,084
Length 97
Max. P 0.824111
window2106

overview

Window 6

Location 3,814,987 – 3,815,084
Length 97
Sequences 5
Columns 99
Reading direction forward
Mean pairwise identity 87.45
Mean single sequence MFE -34.24
Consensus MFE -20.90
Energy contribution -21.46
Covariance contribution 0.56
Combinations/Pair 1.12
Mean z-score -3.44
Structure conservation index 0.61
SVM decision value 0.69
SVM RNA-class probability 0.824111
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3814987 97 + 27905053
GCAGCAGCGGCAGCAGCGGCA--AGUGUAAAGCGGCAUUUGUAAUUGUUGUUUGUGGCCAAGGCGCUGCUGUUGUGCGUUACAUUUUAACGCUUCAUUA
(((((((((((((((((((((--(((((......))))))))...)))))))....((....)))))))))))))((((((.....))))))....... ( -40.90)
>DroSec_CAF1 42975 88 + 1
GCAG---------CAGCGGCA--AGUGUAAAGCGGCAUUUGUAAUUGUUGUUUCUGGCCGGGGCGCUGCUGUUGUGCGUUACAUUUUAACGCUUCAUUA
((((---------(((((((.--......((((((((........))))))))...((....)))))))))))))((((((.....))))))....... ( -34.10)
>DroSim_CAF1 47547 88 + 1
CCAG---------CAGCGGCA--AGUGUAAAGCGGCAUUUGUAAUUGUUGUUUGUGGCCGGGGCGCUGCCGUUGUGCGUUACAUUUUAACGCUUCAUUA
...(---------((((((((--.((((....((((......(((....)))....))))..)))))))))))))((((((.....))))))....... ( -31.70)
>DroEre_CAF1 34434 90 + 1
GCGG---------UAGCGGCAGCAGUCUAAAGCAGCAUUUGUAAUUGUUGUUUGUGGCCUGGCCGCUGCUGUUGUGCGUUACAUUUUAACGCUUCAUUA
((((---------(((((((..(((.(((((((((((........)))))))).))).))))))))))))))...((((((.....))))))....... ( -37.70)
>DroYak_CAF1 47112 82 + 1
GCGG---------CA--------AGUGUAAAGCGGCAUUUGUAAUUGUUGUUUGUGGCCUGGCCGCUGCUGUUGUGCGUUACAUUUUAACGCUUCAUUA
((((---------(.--------((.((.((((((((........))))))))...)))).))))).........((((((.....))))))....... ( -26.80)
>consensus
GCAG_________CAGCGGCA__AGUGUAAAGCGGCAUUUGUAAUUGUUGUUUGUGGCCGGGGCGCUGCUGUUGUGCGUUACAUUUUAACGCUUCAUUA
.............(((((((.........((((((((........))))))))..(((......)))))))))).((((((.....))))))....... (-20.90 = -21.46 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:05:47 2006