Locus 608

Sequence ID	3R_DroMel_CAF1
Location	2,257,778 – 2,257,885
Length	107
Max. P	0.875124

overview

Window 4

Location	2,257,778 – 2,257,885
Length	107
Sequences	5
Columns	107
Reading direction	forward
Mean pairwise identity	88.22
Mean single sequence MFE	-31.70
Consensus MFE	-25.02
Energy contribution	-26.30
Covariance contribution	1.28
Combinations/Pair	1.13
Mean z-score	-1.56
Structure conservation index	0.79
SVM decision value	0.23
SVM RNA-class probability	0.643595
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2257778 107 + 27905053
UGGUGAUGGCUUUUCCAACUCAACCACCCGCAAAGGAUGUAAAAGUCGGGUCGAAAUGACUUUUGGUUGGGUCUGGGCCCAAUUCCAUCACCUCCUUGUUCAACUUU
.((((((((..((((((((((((((..((.....))....((((((((........)))))))))))))))).))))...))..))))))))............... ( -36.80)
>DroSec_CAF1 48777 107 + 1
UGGUGAUGGUUUUUCCGACCCAACCACCCGCAAAGAAUGGAAAAGUCGGGUCGAAAUGACUUAUGGUUGGGUCUGAGCCCAAUUCUAGCACCUCCUCGUUCAACUUU
.((((.(((..((((.((((((((((.(((.......)))..((((((........)))))).)))))))))).))....))..))).))))............... ( -31.70)
>DroSim_CAF1 46900 107 + 1
UGAUGAUGGUUUUUCCGACCCAACCACCCGCAAAGAAUGGAAAAGUCGGGUCGAAAUGACUUAUGGUUGGGUCUGGGCCCAAUUCUAGCACCUCCUCGUUCAACUUU
.((.((.(((....((((((((((((.(((.......)))..((((((........)))))).)))))))))).))((.........))))))).)).......... ( -30.10)
>DroEre_CAF1 47080 107 + 1
CGCUGAUGGCUUUUCCAACCCAACCACCCGCAAAGGAUGGAAAAGCUGGGUCGAAGCGACUUUUGGUUGGGUCUGGCCGCCAUUCUAUCACCACCUCGUUCAACUUU
....((((((....((((((((((((((.((.............)).))((((...))))...))))))))).)))..))))))....................... ( -30.82)
>DroYak_CAF1 44002 107 + 1
UGGAGAUGGCUUUUCCAACCCAACCACCCGCACAGGAUGGAUAAAUCGAGUCGAAAAGACUUUUGCUUGGGUCUGGGUCCAAUUCUAUCACCACCUCGUUCAACUUU
(((.(((((..(((((((((((((((.((.....)).))).......(((((.....)))))....)))))).))))...))..))))).))).............. ( -29.10)
>consensus
UGGUGAUGGCUUUUCCAACCCAACCACCCGCAAAGGAUGGAAAAGUCGGGUCGAAAUGACUUUUGGUUGGGUCUGGGCCCAAUUCUAUCACCUCCUCGUUCAACUUU
.((((((((..(((((((((((((((.(((.......))).......(((((.....))))).))))))))).))))...))..))))))))............... (-25.02 = -26.30 +   1.28)

alignment

secondary structure

dotplot

Window 5

Location	2,257,778 – 2,257,885
Length	107
Sequences	5
Columns	107
Reading direction	reverse
Mean pairwise identity	88.22
Mean single sequence MFE	-35.46
Consensus MFE	-27.06
Energy contribution	-26.82
Covariance contribution	-0.24
Combinations/Pair	1.27
Mean z-score	-2.04
Structure conservation index	0.76
SVM decision value	0.89
SVM RNA-class probability	0.875124
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2257778 107 - 27905053
AAAGUUGAACAAGGAGGUGAUGGAAUUGGGCCCAGACCCAACCAAAAGUCAUUUCGACCCGACUUUUACAUCCUUUGCGGGUGGUUGAGUUGGAAAAGCCAUCACCA
...............((((((((..(((((......)))))......(((.....)))(((((((...(((((.....)))))...))))))).....)))))))). ( -38.00)
>DroSec_CAF1 48777 107 - 1
AAAGUUGAACGAGGAGGUGCUAGAAUUGGGCUCAGACCCAACCAUAAGUCAUUUCGACCCGACUUUUCCAUUCUUUGCGGGUGGUUGGGUCGGAAAAACCAUCACCA
............((.((((......(((((......)))))......((..(((((((((((((.(((((.....)).))).)))))))))))))..)))))).)). ( -34.10)
>DroSim_CAF1 46900 107 - 1
AAAGUUGAACGAGGAGGUGCUAGAAUUGGGCCCAGACCCAACCAUAAGUCAUUUCGACCCGACUUUUCCAUUCUUUGCGGGUGGUUGGGUCGGAAAAACCAUCAUCA
..........((.(((((.......(((((......)))))..........(((((((((((((.(((((.....)).))).)))))))))))))..))).)).)). ( -33.30)
>DroEre_CAF1 47080 107 - 1
AAAGUUGAACGAGGUGGUGAUAGAAUGGCGGCCAGACCCAACCAAAAGUCGCUUCGACCCAGCUUUUCCAUCCUUUGCGGGUGGUUGGGUUGGAAAAGCCAUCAGCG
...(((((.((((((((........(((.(......))))........))))))))..(((((((..((((((.....))))))..)))))))........))))). ( -37.09)
>DroYak_CAF1 44002 107 - 1
AAAGUUGAACGAGGUGGUGAUAGAAUUGGACCCAGACCCAAGCAAAAGUCUUUUCGACUCGAUUUAUCCAUCCUGUGCGGGUGGUUGGGUUGGAAAAGCCAUCUCCA
..........(((((((((((....((((........))))......)))((((((((((((.....((((((.....)))))))))))))))))).)))))))).. ( -34.80)
>consensus
AAAGUUGAACGAGGAGGUGAUAGAAUUGGGCCCAGACCCAACCAAAAGUCAUUUCGACCCGACUUUUCCAUCCUUUGCGGGUGGUUGGGUUGGAAAAGCCAUCACCA
............((.((((......(((((......)))))......((..((((((((((((.....(((((.....)))))))))))))))))..)))))).)). (-27.06 = -26.82 +  -0.24)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:47:17 2006