Locus 437

Sequence ID	3L_DroMel_CAF1
Location	1,271,182 – 1,271,275
Length	93
Max. P	0.993935

overview

Window 7

Location	1,271,182 – 1,271,275
Length	93
Sequences	5
Columns	103
Reading direction	forward
Mean pairwise identity	73.89
Mean single sequence MFE	-31.00
Consensus MFE	-5.92
Energy contribution	-8.23
Covariance contribution	2.31
Combinations/Pair	1.10
Mean z-score	-2.50
Structure conservation index	0.19
SVM decision value	2.44
SVM RNA-class probability	0.993935
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1271182 93 + 23771897
UGCCUGUG---GGUGAUGG-------GUGGUGGCAGACCGACCUAUCCCGAACCACCACCCACUUGCCACCCGCUUGCCACUAUUUCGAACUAAACGAAAAUC
.((..(((---((((.(((-------(((((((.....((........))..)))))))))).....)))))))..)).....(((((.......)))))... ( -34.70)
>DroSec_CAF1 25905 92 + 1
GGUCGG-GGGGGGUGUUGG----------GUGGCAGACCGACCUAUCCCGAACCACCACCCAGUUGCCACCCACUUGCCACUAUUUCGAACUAAACGAAAAUC
((.(((-(((((((..(((----------((((..(..((........))..)..)))))))...))).))).))))))....(((((.......)))))... ( -31.10)
>DroSim_CAF1 26352 89 + 1
GGUCGG-G---GGUGUUGG----------GUGGCAGACCGACCUAUCCCGAACCACCACCCAGUUGCCACCCACUUGCCACUAUUUCGAACUAAACGAAAAUC
(((.((-(---((((((((----------((((..(..((........))..)..))))))))....))))).)).)))....(((((.......)))))... ( -29.60)
>DroEre_CAF1 25707 72 + 1
GGCCCGGA---GGUGGUGG--------------GCGGCAGACCUAUCCCGAACCA--------------CCCACUUGCCACUAUUUCGAGCUAAACGAAAAUC
(((..(..---((((((((--------------(.((....))...)))..))))--------------))..)..)))....(((((.......)))))... ( -22.60)
>DroYak_CAF1 26492 86 + 1
CACCGAAG---GGUGGUGGGUGGUGGGUGGUGGUUGGCAGACCUAUCCCAAACCA--------------CCCACUUGCCACUAUUUCGAACUAAACGAAAAUC
((((....---))))((((..((((((((((((..((....))...))...))))--------------))))))..))))..(((((.......)))))... ( -37.00)
>consensus
GGCCGG_G___GGUGGUGG__________GUGGCAGACCGACCUAUCCCGAACCACCACCCA_UUGCCACCCACUUGCCACUAUUUCGAACUAAACGAAAAUC
...........((((((((..........(((((((...........................)))))))))).)))))....(((((.......)))))... ( -5.92 =  -8.23 +   2.31)

alignment

secondary structure

dotplot

Window 8

Location	1,271,182 – 1,271,275
Length	93
Sequences	5
Columns	103
Reading direction	reverse
Mean pairwise identity	73.89
Mean single sequence MFE	-32.30
Consensus MFE	-8.22
Energy contribution	-10.62
Covariance contribution	2.40
Combinations/Pair	1.09
Mean z-score	-1.68
Structure conservation index	0.25
SVM decision value	0.19
SVM RNA-class probability	0.624326
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1271182 93 - 23771897
GAUUUUCGUUUAGUUCGAAAUAGUGGCAAGCGGGUGGCAAGUGGGUGGUGGUUCGGGAUAGGUCGGUCUGCCACCAC-------CCAUCACC---CACAGGCA
...(((((.......))))).....((..(.(((((....((((((((((((...((((......))))))))))))-------))))))))---).)..)). ( -39.20)
>DroSec_CAF1 25905 92 - 1
GAUUUUCGUUUAGUUCGAAAUAGUGGCAAGUGGGUGGCAACUGGGUGGUGGUUCGGGAUAGGUCGGUCUGCCAC----------CCAACACCCCCC-CCGACC
...(((((.......)))))...(((...(.(((((.....(((((((..(..(((......)))..)..))))----------))).))))))..-)))... ( -32.20)
>DroSim_CAF1 26352 89 - 1
GAUUUUCGUUUAGUUCGAAAUAGUGGCAAGUGGGUGGCAACUGGGUGGUGGUUCGGGAUAGGUCGGUCUGCCAC----------CCAACACC---C-CCGACC
...(((((.......)))))....((...(.(((((.....(((((((..(..(((......)))..)..))))----------))).))))---)-.)..)) ( -31.40)
>DroEre_CAF1 25707 72 - 1
GAUUUUCGUUUAGCUCGAAAUAGUGGCAAGUGGG--------------UGGUUCGGGAUAGGUCUGCCGC--------------CCACCACC---UCCGGGCC
...(((((.......)))))....(((..(..((--------------((((..(((...((....)).)--------------))))))))---..)..))) ( -27.30)
>DroYak_CAF1 26492 86 - 1
GAUUUUCGUUUAGUUCGAAAUAGUGGCAAGUGGG--------------UGGUUUGGGAUAGGUCUGCCAACCACCACCCACCACCCACCACC---CUUCGGUG
...(((((.......)))))..((((...(((((--------------((((((((.(......).))))..)))))))))...))))((((---....)))) ( -31.40)
>consensus
GAUUUUCGUUUAGUUCGAAAUAGUGGCAAGUGGGUGGCAA_UGGGUGGUGGUUCGGGAUAGGUCGGUCUGCCAC__________CCAACACC___C_CCGGCC
...(((((.......)))))..((((....(((...........(((((((.((((......)))).)))))))..........)))))))............ ( -8.22 = -10.62 +   2.40)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:41:48 2006