Locus 2395

Sequence ID 2R_DroMel_CAF1
Location 8,636,557 – 8,636,676
Length 119
Max. P 0.975352
window3963

overview

Window 3

Location 8,636,557 – 8,636,676
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 74.48
Mean single sequence MFE -26.68
Consensus MFE -8.22
Energy contribution -9.10
Covariance contribution 0.88
Combinations/Pair 1.17
Mean z-score -2.24
Structure conservation index 0.31
SVM decision value 1.75
SVM RNA-class probability 0.975352
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8636557 119 + 20766785
UGUGCAUCCGAGUGAACCGCUGUGCACAGGGAAAGUAUUCCCAACUAAAGGAAUUUAUCAGAAUAUAUUAACU-UAAAUUUAAAUAUAUCUAUGAAACGUAGUUUUGCGAAAGCAAUUUC
(((((((.((.(....)))..)))))))(((((....)))))(((((......(((((.(((.((((((....-........))))))))))))))...)))))((((....)))).... ( -28.40)
>DroSec_CAF1 16705 119 + 1
UGUGCAUCCGAGUGAACCACGAUGCACAGGGAAAGUAUUCCCAACUAAAGGAAUUUAUCAGAAUAUAUUAACU-UGAAUUUAAAUAUAACUAGAUAACGUAGUUUUGCGAAAGCAAUUUC
((((((((...(....)...))))))))(((((....)))))(((((.......(((((((..((((((....-........)))))).)).)))))..)))))((((....)))).... ( -27.90)
>DroSim_CAF1 20411 119 + 1
UGUGCAUCCGAGUGAACCUCGGUGCACAGGGAAAGUAUUCCCAACUAAAGGAAUUUAUCAGAAUAUAUUAACU-UGAAUUUAAACAUAACUAGGAAACGUAGUUUUGCGAAAGCAAUUUA
((((((.(((((.....)))))))))))(((((....)))))........(((((((................-)))))))......((((((....).)))))((((....)))).... ( -34.59)
>DroEre_CAF1 16599 113 + 1
UGUGCAUCCGAGUGAAGCGCUGUGCACAGGAAAAG-----CAAAGGGCAUAAAUUUAUUAGAAUAUAUAGUCUUUAAAAUUGCACCUAUCUAUGAAGCUCAGCU--UGGACAGCAAUUCA
..(((.(((((((..((((((...(....)...))-----)..((((((....((((..(((........))).))))..))).))).........)))..)))--))))..)))..... ( -27.20)
>DroYak_CAF1 16657 104 + 1
UGUGCAUCCGAGUGAACAUCAGUGCAUAGGGAAAGUAUACCAAACUAAACAAAUUUGCUAGAAUAUG-----UUUAAUAUUAAAAC-----AUAAACU----UU--UAGAAUGCAAUUUA
(((((((..(((....).)).)))))))((.........))................((((((((((-----(((.......))))-----)))...)----))--)))........... ( -15.30)
>consensus
UGUGCAUCCGAGUGAACCGCGGUGCACAGGGAAAGUAUUCCCAACUAAAGGAAUUUAUCAGAAUAUAUUAACU_UAAAUUUAAACAUAACUAUGAAACGUAGUUUUGCGAAAGCAAUUUA
(((((((..............)))))))(((((....))))).............................................................................. ( -8.22 =  -9.10 +   0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:29:00 2006