Locus 5830

Sequence ID	3L_DroMel_CAF1
Location	15,753,202 – 15,753,360
Length	158
Max. P	0.836113

overview

Window 0

Location	15,753,202 – 15,753,322
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	87.86
Mean single sequence MFE	-17.76
Consensus MFE	-11.74
Energy contribution	-12.26
Covariance contribution	0.52
Combinations/Pair	1.10
Mean z-score	-2.01
Structure conservation index	0.66
SVM decision value	-0.05
SVM RNA-class probability	0.507223
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15753202 120 + 23771897
UUGAACCUCUACUUUCAACCGACUAUCCGUUCAUUUUUGCUCCUCCCUUUUGUUCGCACUUUUUGCCAACUUUGCAUAUGUGCAAAUAAUUUAGCAUCCCAGCAAUAGCAAAAAACUUCA
.(((((........((....))......)))))((((((((........(((((.((((....(((.......)))...)))).)))))....((......))...))))))))...... ( -19.54)
>DroSec_CAF1 4894 119 + 1
UUGAACCUCUACUUUCAACCGACUAUCCGUUCAUUUUUGCUCCUCCCUUUUGUUCGCACUUUUUGCCAACUUUGCAUAUGUGCAAAUAAUUUAGCAUCCCAGCAAUAGCAAA-AACUUCA
.(((((........((....))......)))))((((((((........(((((.((((....(((.......)))...)))).)))))....((......))...))))))-))..... ( -19.24)
>DroSim_CAF1 5143 119 + 1
UUGAACCUCCACUUUCAACAGACUAUCCGUUCUUUUUUGCUCCUCCCUUUUGUUCGCACUUUUUGCCAACUUUGCAUAUGUGCAAAUAAUUUAGCAUCCCAGCAAUAGCAAA-AACUUCA
(((((........)))))...............((((((((........(((((.((((....(((.......)))...)))).)))))....((......))...))))))-))..... ( -18.40)
>DroEre_CAF1 4961 119 + 1
UUGAACCUCCACUUUCAACCGACUAUCCGCUCAUUUUUGCUCCUCCCUUUUGUUCGCACUUUUUGCCAACUUUGCAUAUGUGCAAAUAAUUUAGCAUCCCAGCAACAGCCAA-AACUCCA
(((((........)))))..........(((.....(((((.....((.(((((.((((....(((.......)))...)))).)))))...))......))))).)))...-....... ( -15.40)
>DroAna_CAF1 156 114 + 1
CCGCACCUCCCUUUCGCACAGAC-AUCCUUCUAUUUUUCGCUCUCCC-UUUGUUCGCACUUUUUGCCAACUUUGCAUAUGUGCAAAUAAUUUAGCAUCCCAACAACGACAUG-GAU---A
.......(((...(((...(((.-.....))).......(((.....-.(((((.((((....(((.......)))...)))).)))))...)))..........)))...)-)).---. ( -16.20)
>consensus
UUGAACCUCCACUUUCAACCGACUAUCCGUUCAUUUUUGCUCCUCCCUUUUGUUCGCACUUUUUGCCAACUUUGCAUAUGUGCAAAUAAUUUAGCAUCCCAGCAAUAGCAAA_AACUUCA
...................................((((((........(((((.((((....(((.......)))...)))).)))))....((......))...))))))........ (-11.74 = -12.26 +   0.52)

alignment

secondary structure

dotplot

Window 1

Location	15,753,242 – 15,753,360
Length	118
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	91.12
Mean single sequence MFE	-21.40
Consensus MFE	-18.26
Energy contribution	-18.46
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-1.51
Structure conservation index	0.85
SVM decision value	0.73
SVM RNA-class probability	0.836113
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15753242 118 + 23771897
UCCUCCCUUUUGUUCGCACUUUUUGCCAACUUUGCAUAUGUGCAAAUAAUUUAGCAUCCCAGCAAUAGCAAAAAACUUCAGCAAAAACC--AACAACAUCAGCAAGGACAAUUGUGGAUU
...((((..((((((....(((((((....((((((....)))))).......((......))....)))))))......((.......--..........))..))))))..).))).. ( -22.23)
>DroSec_CAF1 4934 117 + 1
UCCUCCCUUUUGUUCGCACUUUUUGCCAACUUUGCAUAUGUGCAAAUAAUUUAGCAUCCCAGCAAUAGCAAA-AACUUCAGCAAAAACC--AACAACAUCAGCAAGGACAAUUGUGGAUU
...((((..((((((....(((((((....((((((....)))))).......((......))....)))))-)).....((.......--..........))..))))))..).))).. ( -21.93)
>DroSim_CAF1 5183 117 + 1
UCCUCCCUUUUGUUCGCACUUUUUGCCAACUUUGCAUAUGUGCAAAUAAUUUAGCAUCCCAGCAAUAGCAAA-AACUUCAGCAAAAACC--AACAACAUCAGCAAGGACAAUUGUGGAUU
...((((..((((((....(((((((....((((((....)))))).......((......))....)))))-)).....((.......--..........))..))))))..).))).. ( -21.93)
>DroEre_CAF1 5001 117 + 1
UCCUCCCUUUUGUUCGCACUUUUUGCCAACUUUGCAUAUGUGCAAAUAAUUUAGCAUCCCAGCAACAGCCAA-AACUCCAGCAAAAACC--AACAACAUCAGCAAGGACAAUUGUGGAUU
...((((..((((((((((....(((.......)))...))))..........((......)).........-................--..............))))))..).))).. ( -20.10)
>DroAna_CAF1 195 115 + 1
CUCUCCC-UUUGUUCGCACUUUUUGCCAACUUUGCAUAUGUGCAAAUAAUUUAGCAUCCCAACAACGACAUG-GAU---AACAACAACCACACUAGCAGGAGCAAGGACAAUUGUGGAUU
...((((-.((((((((((....(((.......)))...))))..........((((((............)-)))---........((.........)).))..))))))..).))).. ( -20.80)
>consensus
UCCUCCCUUUUGUUCGCACUUUUUGCCAACUUUGCAUAUGUGCAAAUAAUUUAGCAUCCCAGCAAUAGCAAA_AACUUCAGCAAAAACC__AACAACAUCAGCAAGGACAAUUGUGGAUU
...((((..((((((((((....(((.......)))...))))..........((......))..........................................))))))..).))).. (-18.26 = -18.46 +   0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:01:16 2006