Locus 2668

Sequence ID	2R_DroMel_CAF1
Location	9,411,041 – 9,411,171
Length	130
Max. P	0.759728

overview

Window 8

Location	9,411,041 – 9,411,137
Length	96
Sequences	6
Columns	108
Reading direction	reverse
Mean pairwise identity	82.40
Mean single sequence MFE	-23.68
Consensus MFE	-17.86
Energy contribution	-17.75
Covariance contribution	-0.11
Combinations/Pair	1.29
Mean z-score	-1.89
Structure conservation index	0.75
SVM decision value	0.50
SVM RNA-class probability	0.759728
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9411041 96 - 20766785
AGCCUUAGACAUGCCUCAGCAU---AGAUCGGGUCGCAAGGCGACUAAAACCA---------AAUCCAAAACCCAAACCACGACUGUCCAAGUGGCAGAGGAAAGUGA
.........(((.((((.....---......((((((...)))))).......---------...............((((..........))))..))))...))). ( -20.60)
>DroVir_CAF1 285 96 - 1
AGAUUUAGACAUGCCUCAGCAU---AGAUCGGGUCGCAAGGCGACCCAAACUA---------AAACCAUAACCCAAACCACAACUGCCUAUGUGGCAGAGGAAAGUGA
.........(((.((((.....---.....(((((((...)))))))......---------......................((((.....))))))))...))). ( -27.90)
>DroGri_CAF1 288 105 - 1
AGAUUUAGACAUGCCUCAGCAU---AGAUCGGGUCGCAAGGCGACCCAAACUAAACUGUCCAAAACCAAUACCCAAACCACAACUGUCCAAGUGGCAGAGGAAAGUGA
.........(((.((((((..(---((...(((((((...)))))))...)))..))....................((((..........))))..))))...))). ( -25.90)
>DroWil_CAF1 314 93 - 1
AGCCUUAGCCAUGCCUCAGCAUACUAAAACGAGUCGUAAGACGACUAAAACC---------------AAAACCCAAACAACAACUGUCCAAGUGGCAGAGGAAAGUGA
..((((.(((((((....))...........(((((.....)))))......---------------........................))))).))))....... ( -19.50)
>DroMoj_CAF1 6954 96 - 1
AGAUUUAGACAUGCCUCAGCAU---AGAUCGGGUCGCAAAGUGGCCCAAACUA---------AAACCAAAUCCCAUACCACAACUGUCCAUGUGGCAGAGGAAAGUGA
...(((((..((((....))))---.....(((((((...)))))))...)))---------))..((..(((..(.(((((........))))).)..)))...)). ( -25.30)
>DroAna_CAF1 312 90 - 1
AGCCUUAGACAUGCCUCAGCAU---AGAUCGGGUCGCAAGACGA------CCA---------AAUCCAAAACCCAAACCACGACUGUCCAAGUGGCAGAGGAAAGUGA
.........(((.((((.....---.(((..(((((.....)))------)).---------.)))...........((((..........))))..))))...))). ( -22.90)
>consensus
AGACUUAGACAUGCCUCAGCAU___AGAUCGGGUCGCAAGGCGACCCAAACCA_________AAACCAAAACCCAAACCACAACUGUCCAAGUGGCAGAGGAAAGUGA
.........(((.((((..............((((((...))))))...............................((((..........))))..))))...))). (-17.86 = -17.75 +  -0.11)

alignment

secondary structure

dotplot

Window 9

Location	9,411,075 – 9,411,171
Length	96
Sequences	6
Columns	117
Reading direction	reverse
Mean pairwise identity	78.32
Mean single sequence MFE	-21.83
Consensus MFE	-12.85
Energy contribution	-12.63
Covariance contribution	-0.22
Combinations/Pair	1.22
Mean z-score	-1.48
Structure conservation index	0.59
SVM decision value	-0.06
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9411075 96 - 20766785
CUGACUAUGACUUUGUCGAACUGAACCAAACGA------AAGCCUUAGACAUGCCUCAGCAUAGAUCGGGUCGCAAGGCGACUAAAACCA---------AAUCCAAAACCC------
(((((((((....(((((........)...(..------..).....))))........))))).))))(((((...)))))........---------............------ ( -16.90)
>DroVir_CAF1 319 96 - 1
CUGACUAUGACUAUGUCAAAUUGAAAGAAUCGC------AAGAUUUAGACAUGCCUCAGCAUAGAUCGGGUCGCAAGGCGACCCAAACUA---------AAACCAUAACCC------
..(((((((..((((((...((....))(((..------..)))...))))))......))))).))(((((((...)))))))......---------............------ ( -26.70)
>DroPse_CAF1 332 108 - 1
CUGACUAUGACUUUGUCGAACUGAAUCGAUCGAAAAGCAAAGCCUUAGACAUGCCCCAGCAUAGAUCGGGUCGCAAGGCGACCAAAGCCC---------AAAGCAAAAGCCAAACCC
.......((.(((((...........(((((...(((......)))....((((....)))).)))))((((((...))))))......)---------))))))............ ( -22.60)
>DroGri_CAF1 322 105 - 1
CUGACUAUGACUAUGUCGCAUUGAAAGAUACCC------AAGAUUUAGACAUGCCUCAGCAUAGAUCGGGUCGCAAGGCGACCCAAACUAAACUGUCCAAAACCAAUACCC------
..(((...((((((((.((((....((((....------...))))....))))....)))))).))(((((((...)))))))..........)))..............------ ( -23.50)
>DroMoj_CAF1 6988 96 - 1
CUGGCUAUGACUAUGUCAAAUUGAAAGAAACGC------AAGAUUUAGACAUGCCUCAGCAUAGAUCGGGUCGCAAAGUGGCCCAAACUA---------AAACCAAAUCCC------
.((((((((..((((((...((....))..(..------..).....))))))......)))))...(((((((...)))))))......---------...)))......------ ( -23.30)
>DroAna_CAF1 346 90 - 1
CUGACUAUGACUUUGUUGAACUGAACGAAACUA------AAGCCUUAGACAUGCCUCAGCAUAGAUCGGGUCGCAAGACGA------CCA---------AAUCCAAAACCC------
(((((((((..((((((......)))))).(((------(....))))...........))))).))))(((....)))..------...---------............------ ( -18.00)
>consensus
CUGACUAUGACUAUGUCGAACUGAAAGAAACGA______AAGACUUAGACAUGCCUCAGCAUAGAUCGGGUCGCAAGGCGACCCAAACCA_________AAACCAAAACCC______
(((((((((....((((..............................))))........))))).))))(((((...)))))................................... (-12.85 = -12.63 +  -0.22)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:35:50 2006