Locus 7406

Sequence ID	3R_DroMel_CAF1
Location	19,696,041 – 19,696,133
Length	92
Max. P	0.903430

overview

Window 0

Location	19,696,041 – 19,696,133
Length	92
Sequences	6
Columns	104
Reading direction	forward
Mean pairwise identity	89.65
Mean single sequence MFE	-26.73
Consensus MFE	-20.69
Energy contribution	-20.75
Covariance contribution	0.06
Combinations/Pair	1.10
Mean z-score	-3.52
Structure conservation index	0.77
SVM decision value	1.03
SVM RNA-class probability	0.903430
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19696041 92 + 27905053
UUUUUUGUUUGCCUAUGCAGCCGCACGUCUCGAACAAUAUUUUUGCCAUCGCCUUG------------CCUUUCCCAGCUGCUUUUUUGGCAAACAAAUUUGCA
...((((((((((...(((((.(((.(...(((.(((.....)))...))).).))------------)........)))))......))))))))))...... ( -21.70)
>DroSec_CAF1 8581 92 + 1
UUUUUUGUUUGCCUAUGCAGGCGCACGUCUCGAACAAUAUUUUUGCCAUCGGCUCG------------CCUUUCCCAGCUGCUUUUUUGGCAAACAAAUUUGCA
...((((((((((...(((((((...(((.....(((.....))).....))).))------------)).........)))......))))))))))...... ( -21.10)
>DroSim_CAF1 11840 92 + 1
UUUUUUGUUUGCCUAUGCAGCCGCACGUCUCGAACAAUAUUUUUGCCAUCGGCUCG------------CCUUUCCCAGCUGCUUUUUUGGCAAACAAAUUUGCA
...((((((((((...(((((....((..((((.(((.....)))...))))..))------------.........)))))......))))))))))...... ( -23.22)
>DroEre_CAF1 8917 92 + 1
UUUUUUGUUUGCCUAUGCAGCGGCACGUCUCGAACAAUAUUUUUGCCAUUGGCUUG------------CCUUUGCCAGCUGCUUUUUUGGCAAACAAAUUUGCA
...((((((((((...(((((((((..................))))..((((...------------.....)))))))))......))))))))))...... ( -32.37)
>DroYak_CAF1 9136 92 + 1
UUUUUUGUUUGCCUAUGCAGCGGCACGUCUCGAACAAUAUUUUUGCCAUCGGCUUG------------CCUUUCCCAGCUGCUUUUUUGGCAAACAAAUUUGCA
...((((((((((...(((((((((.(((.....(((.....))).....))).))------------)).......)))))......))))))))))...... ( -28.61)
>DroAna_CAF1 8320 101 + 1
--UUUUGUUUGCCUAUGCAGCGGCACGUCGCUAACAAUAUUUUUGCUUUUGGUUUGGCGGUGGCUUGUCUUUUUCCAGCUGCUUU-UUGGCAAACAAAUUUGCA
--.((((((((((...(((((((((.((((((..(((................)))..)))))).))))........)))))...-..))))))))))...... ( -33.39)
>consensus
UUUUUUGUUUGCCUAUGCAGCCGCACGUCUCGAACAAUAUUUUUGCCAUCGGCUUG____________CCUUUCCCAGCUGCUUUUUUGGCAAACAAAUUUGCA
...((((((((((...(((((.....((.....)).........(((...)))........................)))))......))))))))))...... (-20.69 = -20.75 +   0.06)

alignment

secondary structure

dotplot

Window 1

Location	19,696,041 – 19,696,133
Length	92
Sequences	6
Columns	104
Reading direction	reverse
Mean pairwise identity	89.65
Mean single sequence MFE	-28.20
Consensus MFE	-19.68
Energy contribution	-19.65
Covariance contribution	-0.03
Combinations/Pair	1.09
Mean z-score	-3.82
Structure conservation index	0.70
SVM decision value	0.23
SVM RNA-class probability	0.642621
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19696041 92 - 27905053
UGCAAAUUUGUUUGCCAAAAAAGCAGCUGGGAAAGG------------CAAGGCGAUGGCAAAAAUAUUGUUCGAGACGUGCGGCUGCAUAGGCAAACAAAAAA
......((((((((((......(((((((.(...(.------------...(((((((.......))))))).....).).)))))))...))))))))))... ( -28.00)
>DroSec_CAF1 8581 92 - 1
UGCAAAUUUGUUUGCCAAAAAAGCAGCUGGGAAAGG------------CGAGCCGAUGGCAAAAAUAUUGUUCGAGACGUGCGCCUGCAUAGGCAAACAAAAAA
......((((((((((......((((.((.(.....------------(((((.((((.......))))))))).....).)).))))...))))))))))... ( -25.20)
>DroSim_CAF1 11840 92 - 1
UGCAAAUUUGUUUGCCAAAAAAGCAGCUGGGAAAGG------------CGAGCCGAUGGCAAAAAUAUUGUUCGAGACGUGCGGCUGCAUAGGCAAACAAAAAA
......((((((((((......(((((((.(.....------------(((((.((((.......))))))))).....).)))))))...))))))))))... ( -31.80)
>DroEre_CAF1 8917 92 - 1
UGCAAAUUUGUUUGCCAAAAAAGCAGCUGGCAAAGG------------CAAGCCAAUGGCAAAAAUAUUGUUCGAGACGUGCCGCUGCAUAGGCAAACAAAAAA
......((((((((((......(((((((((.....------------...))))..((((......((....))....)))))))))...))))))))))... ( -31.10)
>DroYak_CAF1 9136 92 - 1
UGCAAAUUUGUUUGCCAAAAAAGCAGCUGGGAAAGG------------CAAGCCGAUGGCAAAAAUAUUGUUCGAGACGUGCCGCUGCAUAGGCAAACAAAAAA
......((((((((((......(((((.......((------------((..((((..((((.....))))))).)...)))))))))...))))))))))... ( -28.51)
>DroAna_CAF1 8320 101 - 1
UGCAAAUUUGUUUGCCAA-AAAGCAGCUGGAAAAAGACAAGCCACCGCCAAACCAAAAGCAAAAAUAUUGUUAGCGACGUGCCGCUGCAUAGGCAAACAAAA--
......((((((((((..-...(((((.((..........((....)).........(((((.....))))).........)))))))...)))))))))).-- ( -24.60)
>consensus
UGCAAAUUUGUUUGCCAAAAAAGCAGCUGGGAAAGG____________CAAGCCGAUGGCAAAAAUAUUGUUCGAGACGUGCCGCUGCAUAGGCAAACAAAAAA
......((((((((((......((((((((......................)))..(((((.....)))))...........)))))...))))))))))... (-19.68 = -19.65 +  -0.03)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:45:09 2006