Locus 7424

Sequence ID	3R_DroMel_CAF1
Location	19,767,170 – 19,767,269
Length	99
Max. P	0.742332

overview

Window 1

Location	19,767,170 – 19,767,269
Length	99
Sequences	6
Columns	109
Reading direction	forward
Mean pairwise identity	80.24
Mean single sequence MFE	-21.46
Consensus MFE	-12.40
Energy contribution	-14.16
Covariance contribution	1.75
Combinations/Pair	1.07
Mean z-score	-1.71
Structure conservation index	0.58
SVM decision value	-0.01
SVM RNA-class probability	0.530738
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19767170 99 + 27905053
CACUUAGUAACAGG-------CUGUUUA--CAACU-UUUGGUGACCCAACUAACUAAGCCACAUGAUCGAUCGAUCGAUCUAUGGAUCGAAAACAAGAUCAUAAAGUGU
(((((.......((-------((((...--..)).-.(((((......)))))...))))..((((((......((((((....))))))......)))))).))))). ( -25.10)
>DroSec_CAF1 7240 91 + 1
CACUUAGUAACAGG-------CUGUUUA--CAACU-UUUGGUGACCCAAC----UAAGCCACAUGAUCGAU----CGAUCUAUGGAUCGAAAACAAGAUCAUAAAGUGC
(((((.......((-------(((....--))...-.(((((......))----))))))..((((((..(----(((((....))))))......)))))).))))). ( -23.10)
>DroSim_CAF1 7544 95 + 1
CACUUAGUAACAGG-------CUGUUUA--CAACU-UUUGGUGACCCAAC----UAAGCCACAUGAUCGAUCGGUCGAUCUAUGGAUCGAAAACAAGAUCAUAAAGUGC
(((((.......((-------(((....--))...-.(((((......))----))))))..((((((......((((((....))))))......)))))).))))). ( -25.80)
>DroEre_CAF1 7188 94 + 1
CACUUAGUAACAGG-------CUGUUUACACAACU-UUUGGUGACCCAA---ACUAAGCCACAUGAUCGAU----CGAAAUAUGGAUCGAAAACAAGAUCAUAAAGUGC
(((((.......((-------(((((.....))).-(((((....))))---)...))))..(((((((((----(........))))(....)..)))))).))))). ( -20.10)
>DroYak_CAF1 7310 106 + 1
CACUUGGUAACAACUUUUUCACUGUUUA--CAACUUUUUGGUGACCCAAC-AACUGAAGCACAUGAUCGAUCGAUCGAUCUAUGGAUCGAAAACAAGAUCAUAAAGCGC
((.(((((((((..........)).)))--)......((((....)))))-)).))..((..((((((......((((((....))))))......))))))...)).. ( -20.20)
>DroAna_CAF1 7186 89 + 1
CAGUUGGUAACAGG-------CUGUUUA--CAAGA--UUGGCGACAAGAU----CGGACCACAUGAUCGAUC----CCAGU-UCGAAAAAAAACAAGAUCAUAAACAAC
..((((........-------((((((.--...((--((((.((...(((----((.......)))))..))----)))))-).......)))).))........)))) ( -14.49)
>consensus
CACUUAGUAACAGG_______CUGUUUA__CAACU_UUUGGUGACCCAAC____UAAGCCACAUGAUCGAUC___CGAUCUAUGGAUCGAAAACAAGAUCAUAAAGUGC
(((((.(((((((........)))))...........((((....))))...........))((((((.......(((((....))))).......)))))).))))). (-12.40 = -14.16 +   1.75)

alignment

secondary structure

dotplot

Window 2

Location	19,767,170 – 19,767,269
Length	99
Sequences	6
Columns	109
Reading direction	reverse
Mean pairwise identity	80.24
Mean single sequence MFE	-24.57
Consensus MFE	-17.30
Energy contribution	-16.84
Covariance contribution	-0.46
Combinations/Pair	1.34
Mean z-score	-1.53
Structure conservation index	0.70
SVM decision value	0.45
SVM RNA-class probability	0.742332
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19767170 99 - 27905053
ACACUUUAUGAUCUUGUUUUCGAUCCAUAGAUCGAUCGAUCGAUCAUGUGGCUUAGUUAGUUGGGUCACCAAA-AGUUG--UAAACAG-------CCUGUUACUAAGUG
.(((...(((((((((...((((((....)))))).)))..)))))))))((((((((((((((....)))).-.((((--....)))-------))))..))))))). ( -28.40)
>DroSec_CAF1 7240 91 - 1
GCACUUUAUGAUCUUGUUUUCGAUCCAUAGAUCG----AUCGAUCAUGUGGCUUA----GUUGGGUCACCAAA-AGUUG--UAAACAG-------CCUGUUACUAAGUG
.(((...((((((......((((((....)))))----)..)))))))))(((((----(((((....)))..-.((((--....)))-------).....))))))). ( -25.10)
>DroSim_CAF1 7544 95 - 1
GCACUUUAUGAUCUUGUUUUCGAUCCAUAGAUCGACCGAUCGAUCAUGUGGCUUA----GUUGGGUCACCAAA-AGUUG--UAAACAG-------CCUGUUACUAAGUG
.(((...((((((......((((((....))))))......)))))))))(((((----(((((....)))..-.((((--....)))-------).....))))))). ( -26.00)
>DroEre_CAF1 7188 94 - 1
GCACUUUAUGAUCUUGUUUUCGAUCCAUAUUUCG----AUCGAUCAUGUGGCUUAGU---UUGGGUCACCAAA-AGUUGUGUAAACAG-------CCUGUUACUAAGUG
.(((...((((((......((((........)))----)..)))))))))(((((((---((((....)))).-.(((((....))))-------).....))))))). ( -24.30)
>DroYak_CAF1 7310 106 - 1
GCGCUUUAUGAUCUUGUUUUCGAUCCAUAGAUCGAUCGAUCGAUCAUGUGCUUCAGUU-GUUGGGUCACCAAAAAGUUG--UAAACAGUGAAAAAGUUGUUACCAAGUG
((((...(((((((((...((((((....)))))).)))..)))))))))).......-.((((....))))..(.(((--..(((((........)))))..))).). ( -24.00)
>DroAna_CAF1 7186 89 - 1
GUUGUUUAUGAUCUUGUUUUUUUUCGA-ACUGG----GAUCGAUCAUGUGGUCCG----AUCUUGUCGCCAA--UCUUG--UAAACAG-------CCUGUUACCAACUG
((((((((..(..(((........(((-...((----((((((((....))).))----))))).))).)))--..)..--)))))))-------)............. ( -19.60)
>consensus
GCACUUUAUGAUCUUGUUUUCGAUCCAUAGAUCG___GAUCGAUCAUGUGGCUUA____GUUGGGUCACCAAA_AGUUG__UAAACAG_______CCUGUUACUAAGUG
.(((((.((((((.......(((((....))))).......))))))((((((((......))))))))..............(((((........)))))...))))) (-17.30 = -16.84 +  -0.46)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:45:39 2006