Locus 8815

Sequence ID	3R_DroMel_CAF1
Location	23,588,213 – 23,588,312
Length	99
Max. P	0.663651

overview

Window 0

Location	23,588,213 – 23,588,312
Length	99
Sequences	5
Columns	101
Reading direction	forward
Mean pairwise identity	87.14
Mean single sequence MFE	-33.28
Consensus MFE	-21.88
Energy contribution	-22.00
Covariance contribution	0.12
Combinations/Pair	1.15
Mean z-score	-1.94
Structure conservation index	0.66
SVM decision value	-0.05
SVM RNA-class probability	0.508054
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23588213 99 + 27905053
CAUUUUAACUUAUGAUGGAUUAUGGCUUCAGCCGUGUGUGCAAAGCUGGCGCCGCAGUUGGAGUUGUUUCACCAGCUUUGGUGCUCCGACUCCUGCCAC--
...............(((.....(((.(((((..((....))..))))).)))......(((((((...((((......))))...)))))))..))).-- ( -32.70)
>DroSec_CAF1 49436 101 + 1
CAUUUUAACUUAUGAUGGAUUAUGGCUUCAGCCGUGUGUGCAAAGCUGGCGCCGCAGUUGGAGUUGUUUCACCAGCUUCGGUGCUCCGGCUCCUGCCACCG
((((.........))))....(((((....)))))(((.(((.(((((((((((.((((((.(......).)))))).))))))..)))))..)))))).. ( -37.50)
>DroSim_CAF1 51171 101 + 1
CAUUUUAACUUAUGAUGGAUUAUGGCUUCAGCCGUGUGUGCAAAGCUGGCGCCGCAGUUGGAGUUGUUUCACCAGCUUCGGUGCUCCGGCUCCUGCCACCG
((((.........))))....(((((....)))))(((.(((.(((((((((((.((((((.(......).)))))).))))))..)))))..)))))).. ( -37.50)
>DroEre_CAF1 51806 86 + 1
CAUUUUAACUUAUGAUGGAUUAUGGCUUCAGCCGUGUGUGCAAAGCUGCCGCCGCAGUUGGAGUUGUUUCAGCAGC--------------UCCUGCUGCA-
((((.........))))......(((..((((..((....))..))))..)))(((((.((((((((....)))))--------------))).))))).- ( -34.50)
>DroYak_CAF1 54401 87 + 1
CAUUUUAACUUAUGAUGGAUUAUGGCUUCAGCCGUGUGUGCAAAGCUGGCGCCGCAGUUGGAGUUCUUUCAGCAGC--------------UCCUGCCAGAG
............(((.(((.....((((((((.(((.((((.......))))))).))))))))))).)))((((.--------------..))))..... ( -24.20)
>consensus
CAUUUUAACUUAUGAUGGAUUAUGGCUUCAGCCGUGUGUGCAAAGCUGGCGCCGCAGUUGGAGUUGUUUCACCAGCUU_GGUGCUCCG_CUCCUGCCACAG
...............(((...(..((((((((.(((.((((.......))))))).))))))))..).....(((..((((....))))...))))))... (-21.88 = -22.00 +   0.12)

alignment

secondary structure

dotplot

Window 1

Location	23,588,213 – 23,588,312
Length	99
Sequences	5
Columns	101
Reading direction	reverse
Mean pairwise identity	87.14
Mean single sequence MFE	-29.86
Consensus MFE	-20.74
Energy contribution	-22.62
Covariance contribution	1.88
Combinations/Pair	1.09
Mean z-score	-1.98
Structure conservation index	0.69
SVM decision value	0.27
SVM RNA-class probability	0.663651
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23588213 99 - 27905053
--GUGGCAGGAGUCGGAGCACCAAAGCUGGUGAAACAACUCCAACUGCGGCGCCAGCUUUGCACACACGGCUGAAGCCAUAAUCCAUCAUAAGUUAAAAUG
--(..(..(((((.(...(((((....)))))...).)))))..)..)(((..(((((.((....)).)))))..)))....................... ( -32.30)
>DroSec_CAF1 49436 101 - 1
CGGUGGCAGGAGCCGGAGCACCGAAGCUGGUGAAACAACUCCAACUGCGGCGCCAGCUUUGCACACACGGCUGAAGCCAUAAUCCAUCAUAAGUUAAAAUG
..(((((...(((((......(((((((((((...((........))...)))))))))))......)))))...)))))..................... ( -34.30)
>DroSim_CAF1 51171 101 - 1
CGGUGGCAGGAGCCGGAGCACCGAAGCUGGUGAAACAACUCCAACUGCGGCGCCAGCUUUGCACACACGGCUGAAGCCAUAAUCCAUCAUAAGUUAAAAUG
..(((((...(((((......(((((((((((...((........))...)))))))))))......)))))...)))))..................... ( -34.30)
>DroEre_CAF1 51806 86 - 1
-UGCAGCAGGA--------------GCUGCUGAAACAACUCCAACUGCGGCGGCAGCUUUGCACACACGGCUGAAGCCAUAAUCCAUCAUAAGUUAAAAUG
-.((((..(((--------------(.((......)).))))..))))(((..(((((.((....)).)))))..)))....................... ( -27.50)
>DroYak_CAF1 54401 87 - 1
CUCUGGCAGGA--------------GCUGCUGAAAGAACUCCAACUGCGGCGCCAGCUUUGCACACACGGCUGAAGCCAUAAUCCAUCAUAAGUUAAAAUG
...((((.((.--------------(((((................))))).))((((.((....)).))))...))))...................... ( -20.89)
>consensus
CGGUGGCAGGAG_CGGAGCACC_AAGCUGGUGAAACAACUCCAACUGCGGCGCCAGCUUUGCACACACGGCUGAAGCCAUAAUCCAUCAUAAGUUAAAAUG
..((((..((((......((((......))))......))))..))))(((..(((((.((....)).)))))..)))....................... (-20.74 = -22.62 +   1.88)

alignment

secondary structure

dotplot

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