Locus 5791

Sequence ID 3R_DroMel_CAF1
Location 15,112,039 – 15,112,137
Length 98
Max. P 0.777702
window9490

overview

Window 0

Location 15,112,039 – 15,112,137
Length 98
Sequences 6
Columns 111
Reading direction reverse
Mean pairwise identity 79.88
Mean single sequence MFE -33.27
Consensus MFE -20.86
Energy contribution -20.67
Covariance contribution -0.19
Combinations/Pair 1.09
Mean z-score -1.84
Structure conservation index 0.63
SVM decision value 0.55
SVM RNA-class probability 0.777702
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15112039 98 - 27905053
AGCUGC------UG-CUGCUGCCGAUGAUGCUGCA------UGCCCCAGCGCAUGCUUCAUCUGUUGCAUGUAGUUACCGCUUUCAUGGCUAAGUGGUUGACUGGACAUGG
.((.((------..-..)).))((((((((..(((------(((......))))))..)))).))))((((((((((((((((........)))))).)))))..))))). ( -34.70)
>DroVir_CAF1 44322 84 - 1
--------------------GCUGA-UGCGCUGCA------UGCCGCAGCGCAUGCUUCAUCUGUUGCAUGUAGUUACCGCUUUCAUGGCUAAGUGGUUGGCUGGACAUGG
--------------------((..(-((((((((.------....)))))))))))...........((((((((((((((((........)))))).)))))..))))). ( -32.30)
>DroGri_CAF1 53770 85 - 1
--------------------GCUGAGUGCGCUGCA------UGCCGCAGUGCAUGCUUCAUCUGUUGCAUGUAGUUACCGCUUUCAUGGCUAAGUGGUUGGCUGGACAUGG
--------------------((...(((((((((.------....)))))))))))...........((((((((((((((((........)))))).)))))..))))). ( -30.30)
>DroWil_CAF1 26627 109 - 1
UGU-GCCAUGUCCGUGGACUGCGGAGGA-GCUGCAGACCUAUGGACCAGCGCAUGCUUCAUCUGUUGCAUGUAGUUACCGCUUUCAUGGCUAAGUGGUUGACUGGACAUGG
...-.((((((((((((.((((((....-.))))))..)))))))(((((((((((..(....)..))))))....(((((((........))))))).).)))).))))) ( -42.20)
>DroMoj_CAF1 44044 82 - 1
--------------------GCUGA-UG--CUGCA------UGCCGCAGCGCAUGCUUCAUCUGUUGCAUGUAGUUACCGCUUUCAUGGCUAAGUGGUUGGCUGGACAUGG
--------------------((.((-((--..(((------(((......))))))..)))).))..((((((((((((((((........)))))).)))))..))))). ( -29.70)
>DroAna_CAF1 35222 86 - 1
GGUUGC------U-------------GAUGCUGCA------UGCCCCAGCGCAUGCUUCAUCUGUUGCAUGUAGUUACCGCUUUCAUGGCUAAGUGGUUGACUGGACAUGG
....((------.-------------((((..(((------(((......))))))..)))).))..((((((((((((((((........)))))).)))))..))))). ( -30.40)
>consensus
____________________GCUGA_GA_GCUGCA______UGCCCCAGCGCAUGCUUCAUCUGUUGCAUGUAGUUACCGCUUUCAUGGCUAAGUGGUUGACUGGACAUGG
.............................((((.............))))((((((..(....)..))))))(((((((((((........)))))).)))))........ (-20.86 = -20.67 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:04:53 2006