Locus 6952

Sequence ID	3R_DroMel_CAF1
Location	18,325,940 – 18,326,093
Length	153
Max. P	0.942808

overview

Window 4

Location	18,325,940 – 18,326,053
Length	113
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	79.48
Mean single sequence MFE	-27.63
Consensus MFE	-19.20
Energy contribution	-21.02
Covariance contribution	1.81
Combinations/Pair	1.19
Mean z-score	-2.31
Structure conservation index	0.69
SVM decision value	1.33
SVM RNA-class probability	0.942808
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18325940 113 + 27905053
GAUUGAAUGGCAUUUCAAUUAUCUUGUUCAAUUGAAGGAAACGUUGAGUGUCAGAACGUUCGAAAGGAUAAUUGGAAAACUAACUGCCAAUGUGCAGGAA-------UGCUUUUAAAUUG
((((....(((((((((((((((((.(((.......(....)...((((((....))))))))))))))))))).........((((......)))))))-------))))....)))). ( -27.70)
>DroSec_CAF1 11516 113 + 1
GAUUGAAUGGCAUUUCAAUUAUCUUGUUCAAUUGAAGGAAACGUUGAGUGUCAGAACGAUCGAAAGGAUAAUUGGAAAACUAACUGCCAAUGGGCAGGAA-------UGCUUUUAAAUUG
((((....(((((((((((((((((((((.(((.(((....).)).)))....)))))).(....))))))))).........(((((....))))))))-------))))....)))). ( -32.10)
>DroSim_CAF1 11755 113 + 1
GAUUGAAUGGCAUUUCAAUUAUCUUGUUCAAUUGAAGGAAACGUUGAGUGUCAGAACGAUCGAAAGGAUAAUUGGAAAACUAACUGCCAAUGGGCAGGAA-------UGCUUUUAAAUUG
((((....(((((((((((((((((((((.(((.(((....).)).)))....)))))).(....))))))))).........(((((....))))))))-------))))....)))). ( -32.10)
>DroEre_CAF1 11808 113 + 1
GAUUGAAUGGCAUUUCAAUUAUCUUGUUCAAUUGAAGGAAGCGUUGAGUGUCAAAACGAUCGAAAGGAUAAUUGGAAAACUAACUGCAAGCGCGCAGGAA-------UGCUUUUAAAAUG
..(((((.(((((((((((((((((.(((.((((...((.((.....)).))....)))).))))))))))))).........((((......)))))))-------))))))))).... ( -28.50)
>DroYak_CAF1 12203 113 + 1
GAUUGAAUGGCAUUUCAAUUAUCUUGUUCAAUUGAAGGAGACGUUGAGUGUCAAAACGAUCGAAAGGAUAAUUGGAAAACUAACUGCAAGCGGGCAGGAA-------UGCUUUUAAAUUG
((((....(((((((((((((((((.(((.((((...((.((.....)).))....)))).))))))))))))).........((((......)))))))-------))))....)))). ( -30.30)
>DroAna_CAF1 38510 111 + 1
GUCUUAACAACGUUUUAAUUAACAUAAAGUAUUGGAGUAAU---UAAUUACU-----AAUUGAAA-CAUAAGAUGAAGACCAAAUGGAUUAAGGUAUAAACUUCAUACCCUUUUAGAUUA
((((((.....((((((((((.((........))..((((.---...)))))-----))))))))-).))))))((((.((....)).....(((((.......)))))))))....... ( -15.10)
>consensus
GAUUGAAUGGCAUUUCAAUUAUCUUGUUCAAUUGAAGGAAACGUUGAGUGUCAGAACGAUCGAAAGGAUAAUUGGAAAACUAACUGCAAAUGGGCAGGAA_______UGCUUUUAAAUUG
..(((((.(((((((((((((((((.(((.((((...((.((.....)).))....)))).))))))))))))))))......((((......))))..........))))))))).... (-19.20 = -21.02 +   1.81)

alignment

secondary structure

dotplot

Window 5

Location	18,325,980 – 18,326,093
Length	113
Sequences	5
Columns	113
Reading direction	forward
Mean pairwise identity	88.05
Mean single sequence MFE	-23.94
Consensus MFE	-20.78
Energy contribution	-20.74
Covariance contribution	-0.04
Combinations/Pair	1.04
Mean z-score	-1.39
Structure conservation index	0.87
SVM decision value	0.15
SVM RNA-class probability	0.606240
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18325980 113 + 27905053
ACGUUGAGUGUCAGAACGUUCGAAAGGAUAAUUGGAAAACUAACUGCCAAUGUGCAGGAAUGCUUUUAAAUUGAAACUCAAUUUUAAUUGACACAGAGCAUUUUACAACUGAG
..(((((((.((((...((((....))))..))))...)))..((((......))))(((((((((..((((((((.....)))))))).....)))))))))..)))).... ( -25.70)
>DroSec_CAF1 11556 113 + 1
ACGUUGAGUGUCAGAACGAUCGAAAGGAUAAUUGGAAAACUAACUGCCAAUGGGCAGGAAUGCUUUUAAAUUGAAACUCAAUUUUAAUUGACACAGUGCAUUCUACAACUGAG
..((((.(((((((.......(((((.((..((((....))))(((((....)))))..)).)))))((((((.....))))))...)))))))((......)).)))).... ( -26.10)
>DroSim_CAF1 11795 113 + 1
ACGUUGAGUGUCAGAACGAUCGAAAGGAUAAUUGGAAAACUAACUGCCAAUGGGCAGGAAUGCUUUUAAAUUGAAACUCAAUUUUAAUUGACACAGUGCAUUUUACAACUGAG
..(((((((.((((.....((....))....((((((......(((((....)))))......)))))).)))).)))))))...........((((..........)))).. ( -24.60)
>DroEre_CAF1 11848 113 + 1
GCGUUGAGUGUCAAAACGAUCGAAAGGAUAAUUGGAAAACUAACUGCAAGCGCGCAGGAAUGCUUUUAAAAUGAAACUCAAUUUAAAUUGACACUGUCCAUUAUCAAACUGAG
......((((((((.....((....))................((((......)))).......((((((.((.....)).)))))))))))))).................. ( -19.50)
>DroYak_CAF1 12243 99 + 1
ACGUUGAGUGUCAAAACGAUCGAAAGGAUAAUUGGAAAACUAACUGCAAGCGGGCAGGAAUGCUUUUAAAUUGAAACUCAAUUUUAAUUGACACUGAC----A----------
..(((.((((((((.......(((((.((..((((....))))((((......))))..)).)))))((((((.....))))))...)))))))))))----.---------- ( -23.80)
>consensus
ACGUUGAGUGUCAGAACGAUCGAAAGGAUAAUUGGAAAACUAACUGCCAAUGGGCAGGAAUGCUUUUAAAUUGAAACUCAAUUUUAAUUGACACAGUGCAUUAUACAACUGAG
.......(((((((.......(((((.((..((((....))))((((......))))..)).)))))((((((.....))))))...)))))))................... (-20.78 = -20.74 +  -0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:34:02 2006