Locus 3504

Sequence ID 3R_DroMel_CAF1
Location 9,455,231 – 9,455,341
Length 110
Max. P 0.867617
window5628

overview

Window 8

Location 9,455,231 – 9,455,341
Length 110
Sequences 6
Columns 118
Reading direction forward
Mean pairwise identity 80.50
Mean single sequence MFE -31.90
Consensus MFE -22.19
Energy contribution -21.97
Covariance contribution -0.22
Combinations/Pair 1.10
Mean z-score -2.01
Structure conservation index 0.70
SVM decision value 0.86
SVM RNA-class probability 0.867617
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9455231 110 + 27905053
GCGCCGCCUUUCGCGCAUUUGCAUGCAAUAAAGAUGGCGGGGCGAUAACUAGGUUGCCUGCCAUUGUUUGCCUUUU-CCCCAUAUUUCU--CUUU-----GGGCAUAUGUAUACGUGU
((((........))))...(((((((((....(((((((((.((((......)))))))))))))..)))).....-.((((.......--...)-----)))...)))))....... ( -34.50)
>DroPse_CAF1 86739 97 + 1
GCGCCGUCUCUCGCACAUUUGCAUGCAAUAAAGAUGGCG-GGCGAUAACUAGGUUGCCUGCCAUUGUUUGCCUUUU-UCCCAUAUUUCU--GCUU-----AA------------CUCU
((..........(((....)))..((((....(((((((-((((((......)))))))))))))..)))).....-............--))..-----..------------.... ( -29.10)
>DroSec_CAF1 84820 110 + 1
GCGCCGCCUUUCGCGCAUUUGCAUGCAAUAAAGAUGGCGGGGCGAUAACUAGGUUGCCUGCCAUUGUUUGCCUUUU-CCCCAUAUUUCU--CUUU-----GGGCAUAUGUGUUUGUGA
....(((.....((((((.(((..((((....(((((((((.((((......)))))))))))))..)))).....-..(((.......--...)-----))))).))))))..))). ( -34.70)
>DroWil_CAF1 93120 108 + 1
--------UUUCGCACAUUUGCAUGCAAUAAAGAUGGCGGAGCGAUAACUAGGUUGCCUGCUAUUGUUUGCCUUUUUACCCAUAUUUCU--GUUCUCCAAGUGCAUGAGUGUGUGUUU
--------...(((((((((((((((((....((((((((.(((((......)))))))))))))..)))).........((......)--)........)))))..))))))))... ( -31.20)
>DroAna_CAF1 79678 112 + 1
GCGCCGCCUUUCGCGCAUUUGCAUGCAAUAAAGAUGGCGGGGCGAUAACUAGGUUGCCUGCCAUUGUUUGCCUUUU-CCCCAUAUUUCUGACUGU-----GCGCGUUAAUAUAUGUGU
((((.......(((((((...((.((((....(((((((((.((((......)))))))))))))..)))).....-...........))...))-----))))).........)))) ( -32.82)
>DroPer_CAF1 88463 97 + 1
GCGCCGUCUCUCGCACAUUUGCAUGCAAUAAAGAUGGCG-GGCGAUAACUAGGUUGCCUGCCAUUGUUUGCCUUUU-UCCCAUAUUUCU--GCUU-----AA------------CUCU
((..........(((....)))..((((....(((((((-((((((......)))))))))))))..)))).....-............--))..-----..------------.... ( -29.10)
>consensus
GCGCCGCCUUUCGCACAUUUGCAUGCAAUAAAGAUGGCGGGGCGAUAACUAGGUUGCCUGCCAUUGUUUGCCUUUU_CCCCAUAUUUCU__CUUU_____GAGCAU__GU_U_UGUGU
............(((....)))..((((....(((((((.((((((......)))))))))))))..))))............................................... (-22.19 = -21.97 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:02:44 2006