Locus 8626

Sequence ID	3L_DroMel_CAF1
Location	22,430,343 – 22,430,503
Length	160
Max. P	0.775096

overview

Window 2

Location	22,430,343 – 22,430,463
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	94.14
Mean single sequence MFE	-37.16
Consensus MFE	-30.19
Energy contribution	-30.59
Covariance contribution	0.40
Combinations/Pair	1.07
Mean z-score	-1.50
Structure conservation index	0.81
SVM decision value	0.23
SVM RNA-class probability	0.646433
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22430343 120 - 23771897
CGCCCUUUCCAAGCAGGGGAUACGGAUACCUGUAUCCUCCUGCAAUCAGGGAAUCCAAGCGGAAACGCGAAAAUCCCCGACACUUUAUUUUAUUACAUUUUAGUGGUGCGGCGCGUCGGA
(((((...(((.(((((((((((((....)))))))).)))))..((.((((......(((....))).....)))).)).......................)))...)).)))..... ( -45.40)
>DroSec_CAF1 2045 119 - 1
CGCCCUUUCCGAGCAGGGGAUACGGAUACCUGUCUCCUCCUGCAAUCAGGGAAUCCAAGCGGAAAC-CGAAAAUCCCCGACACUUUAUUUUAUUACAUUUUAGUGGUGCGGCGCGGCGCA
((((.((((((.((((((((.((((....)))).))).))))).....((....))...)))))).-.........(((.((((.................))))...)))...)))).. ( -37.43)
>DroSim_CAF1 7177 119 - 1
CGCCCUUUCCGAGCAGGGGAUACGGAUACCUGUCUCCUCUUGCAAUCAGGGAAUCCAAGCGGAAAC-CGAAAAUCCCCGACACUUUAUUUUAUUACAUUUUAGUGGUGCGGCGCGGCGCA
((((....(((.((.((((((..((((.((((....(....)....))))..))))...(((...)-))...))))))..((((.................)))))).)))...)))).. ( -34.73)
>DroEre_CAF1 8379 119 - 1
CGCCCUUUCCGAGCAGGAGAUACGGCUACCUGUCUGCUCCUGCAAUCAGGGAAUCCAAGCGGAAAC-CGAAAAUCCCCGACACUUUAUUUUAUUACAUUUUAGUGGUGCGGCGCGGCGAA
((((.((((((.(((((((..((((....))))...))))))).....((....))...)))))).-.........(((.((((.................))))...)))...)))).. ( -36.43)
>DroYak_CAF1 44006 114 - 1
CGCCCUUUCCGAGCAGGAGUUACGGAUACCUGUCUCCUCCUGCAAUCAGGGAAUCCAAGCGGAAAC-CGAAAAUCCCCGACACUUUAUUUUAUUACAUUUUAGUGCUGCG-----GCGAA
((((.((((((((((((((..((((....))))...)))))))..)).))))).....((((....-((........)).((((.................)))))))))-----))).. ( -31.83)
>consensus
CGCCCUUUCCGAGCAGGGGAUACGGAUACCUGUCUCCUCCUGCAAUCAGGGAAUCCAAGCGGAAAC_CGAAAAUCCCCGACACUUUAUUUUAUUACAUUUUAGUGGUGCGGCGCGGCGAA
((((.((((((.(((((((..((((....))))...))))))).....((....))...))))))...........(((.((((.................))))...)))...)))).. (-30.19 = -30.59 +   0.40)

alignment

secondary structure

dotplot

Window 3

Location	22,430,383 – 22,430,503
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	94.56
Mean single sequence MFE	-39.64
Consensus MFE	-32.94
Energy contribution	-33.34
Covariance contribution	0.40
Combinations/Pair	1.07
Mean z-score	-1.54
Structure conservation index	0.83
SVM decision value	0.54
SVM RNA-class probability	0.775096
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22430383 120 - 23771897
UGCAUACUUCACACCAUUGACGGGCCUGCGGCUUCUGCGCCGCCCUUUCCAAGCAGGGGAUACGGAUACCUGUAUCCUCCUGCAAUCAGGGAAUCCAAGCGGAAACGCGAAAAUCCCCGA
....................((((((((((((......))))).........(((((((((((((....)))))))).)))))....)))........(((....))).......)))). ( -48.30)
>DroSec_CAF1 2085 119 - 1
UGCAUACUUCACACCAUUGACGGGCCUGCGGCCUCUGCGCCGCCCUUUCCGAGCAGGGGAUACGGAUACCUGUCUCCUCCUGCAAUCAGGGAAUCCAAGCGGAAAC-CGAAAAUCCCCGA
....................((((...(((((......)))))..((((((.((((((((.((((....)))).))).))))).....((....))...)))))).-........)))). ( -40.90)
>DroSim_CAF1 7217 119 - 1
UGCAUACUUCACACCAUUGACGGGCCUGCGGCCUCUGCGCCGCCCUUUCCGAGCAGGGGAUACGGAUACCUGUCUCCUCUUGCAAUCAGGGAAUCCAAGCGGAAAC-CGAAAAUCCCCGA
....................((((...(((((......)))))..((((((.((((((((.((((....)))).))).))))).....((....))...)))))).-........)))). ( -38.20)
>DroEre_CAF1 8419 119 - 1
UGCAUACUUCACACCAUUGACGCGCCCGAGGCCUCGGCGCCGCCCUUUCCGAGCAGGAGAUACGGCUACCUGUCUGCUCCUGCAAUCAGGGAAUCCAAGCGGAAAC-CGAAAAUCCCCGA
.((.....(((......))).(((((.((....))))))).))..((((((.(((((((..((((....))))...))))))).....((....))...)))))).-............. ( -35.00)
>DroYak_CAF1 44041 119 - 1
UGCAUACUUCACACCAUUGGCGUGCUUGCGGCCUCUGCGCCGCCCUUUCCGAGCAGGAGUUACGGAUACCUGUCUCCUCCUGCAAUCAGGGAAUCCAAGCGGAAAC-CGAAAAUCCCCGA
.(((..((..........))..)))..(((((......)))))..((((((.(((((((..((((....))))...))))))).....((....))...)))))).-............. ( -35.80)
>consensus
UGCAUACUUCACACCAUUGACGGGCCUGCGGCCUCUGCGCCGCCCUUUCCGAGCAGGGGAUACGGAUACCUGUCUCCUCCUGCAAUCAGGGAAUCCAAGCGGAAAC_CGAAAAUCCCCGA
....................((((...(((((......)))))..((((((.(((((((..((((....))))...))))))).....((....))...))))))..........)))). (-32.94 = -33.34 +   0.40)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:20:41 2006