Locus 5687

Sequence ID	3R_DroMel_CAF1
Location	14,915,595 – 14,915,687
Length	92
Max. P	0.865323

overview

Window 6

Location	14,915,595 – 14,915,687
Length	92
Sequences	6
Columns	99
Reading direction	forward
Mean pairwise identity	89.40
Mean single sequence MFE	-32.10
Consensus MFE	-26.22
Energy contribution	-27.25
Covariance contribution	1.03
Combinations/Pair	1.04
Mean z-score	-2.60
Structure conservation index	0.82
SVM decision value	0.85
SVM RNA-class probability	0.865323
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14915595 92 + 27905053
AGCCAGUUGAAGUCAAAGCCGGCAGCAGGCCAUAAUUAGGGUCAAUUGCGGCUAACCGCCGCCAAUUGACGACA-----ACGAAAGCUUUUGGCCAA--
.(((.(((........))).)))....(((((........((((((((((((.....)))).))))))))....-----.(....)....)))))..-- ( -35.20)
>DroSec_CAF1 42780 92 + 1
AGCCAGUUGAAGUCAAAGCCGGCAGCAGGCCAUAAUUAGGGUCAAUUGCGGCUAACCGCCGCCAAUCGACGACA-----ACGAAAGCUUUUGGCCAA--
.(((.(((........))).)))....(((((........(((.((((((((.....)))).)))).)))....-----.(....)....)))))..-- ( -31.10)
>DroSim_CAF1 42671 92 + 1
AGCCAGUUGAAGUCAAAGCCGGCAGCAGGCCAUAAUUAGGGUCAAUUGCGGCUAACCGCCGCCAAUCGACGACA-----ACGAAAGCUUUUGGCCAA--
.(((.(((........))).)))....(((((........(((.((((((((.....)))).)))).)))....-----.(....)....)))))..-- ( -31.10)
>DroEre_CAF1 42115 92 + 1
AGCCAGUUAAAGUUAAAGCCGGCAGCAGGCCAUAAUUAGGGUCAAUUGCGGCUAACCGCCGCCAAUCGACGACA-----ACAAAAGCUUUUGGCCAA--
.(((.(((........))).)))....(((((........(((.((((((((.....)))).)))).)))(...-----.).........)))))..-- ( -27.20)
>DroYak_CAF1 49100 92 + 1
AGCCAGUUGAAGUCAAAGCCGGCAGCAGGCCAUAAUUAGGGUCAAUUGCGGCUAACCGCCGCCAAUCGACGACA-----ACGAAAGCUUUUGGCCAA--
.(((.(((........))).)))....(((((........(((.((((((((.....)))).)))).)))....-----.(....)....)))))..-- ( -31.10)
>DroAna_CAF1 39970 92 + 1
GGCUGGCAGCAGGCAG-------AGCAGGCCAUAAUUAGGGUCAAUUGCGGCUAACCGCCGCCUAUCGGCGACAAUGAAACGAAAGCUCUUGGCCAGCC
(((((((.(....)((-------(((.((((........))))....((((....))))((((....))))..............)))))..))))))) ( -36.90)
>consensus
AGCCAGUUGAAGUCAAAGCCGGCAGCAGGCCAUAAUUAGGGUCAAUUGCGGCUAACCGCCGCCAAUCGACGACA_____ACGAAAGCUUUUGGCCAA__
.(((.(((........))).)))....(((((........(((.((((((((.....)))).)))).)))..........(....)....))))).... (-26.22 = -27.25 +   1.03)

alignment

secondary structure

dotplot

Window 7

Location	14,915,595 – 14,915,687
Length	92
Sequences	6
Columns	99
Reading direction	reverse
Mean pairwise identity	89.40
Mean single sequence MFE	-36.47
Consensus MFE	-28.19
Energy contribution	-28.83
Covariance contribution	0.64
Combinations/Pair	1.11
Mean z-score	-3.12
Structure conservation index	0.77
SVM decision value	0.60
SVM RNA-class probability	0.796938
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14915595 92 - 27905053
--UUGGCCAAAAGCUUUCGU-----UGUCGUCAAUUGGCGGCGGUUAGCCGCAAUUGACCCUAAUUAUGGCCUGCUGCCGGCUUUGACUUCAACUGGCU
--..(((((.........((-----((..(((((..(.(((((((..((((.(((((....))))).))))..))))))).).)))))..))))))))) ( -37.00)
>DroSec_CAF1 42780 92 - 1
--UUGGCCAAAAGCUUUCGU-----UGUCGUCGAUUGGCGGCGGUUAGCCGCAAUUGACCCUAAUUAUGGCCUGCUGCCGGCUUUGACUUCAACUGGCU
--..(((((.........((-----((..(((((..(.(((((((..((((.(((((....))))).))))..))))))).).)))))..))))))))) ( -36.70)
>DroSim_CAF1 42671 92 - 1
--UUGGCCAAAAGCUUUCGU-----UGUCGUCGAUUGGCGGCGGUUAGCCGCAAUUGACCCUAAUUAUGGCCUGCUGCCGGCUUUGACUUCAACUGGCU
--..(((((.........((-----((..(((((..(.(((((((..((((.(((((....))))).))))..))))))).).)))))..))))))))) ( -36.70)
>DroEre_CAF1 42115 92 - 1
--UUGGCCAAAAGCUUUUGU-----UGUCGUCGAUUGGCGGCGGUUAGCCGCAAUUGACCCUAAUUAUGGCCUGCUGCCGGCUUUAACUUUAACUGGCU
--..(((((..(((....))-----)...((((((((.((((.....))))))))))))........)))))....(((((............))))). ( -32.90)
>DroYak_CAF1 49100 92 - 1
--UUGGCCAAAAGCUUUCGU-----UGUCGUCGAUUGGCGGCGGUUAGCCGCAAUUGACCCUAAUUAUGGCCUGCUGCCGGCUUUGACUUCAACUGGCU
--..(((((.........((-----((..(((((..(.(((((((..((((.(((((....))))).))))..))))))).).)))))..))))))))) ( -36.70)
>DroAna_CAF1 39970 92 - 1
GGCUGGCCAAGAGCUUUCGUUUCAUUGUCGCCGAUAGGCGGCGGUUAGCCGCAAUUGACCCUAAUUAUGGCCUGCU-------CUGCCUGCUGCCAGCC
(((((((..(((((.........(((((((((....)))))))))..((((.(((((....))))).))))..)))-------)).......))))))) ( -38.80)
>consensus
__UUGGCCAAAAGCUUUCGU_____UGUCGUCGAUUGGCGGCGGUUAGCCGCAAUUGACCCUAAUUAUGGCCUGCUGCCGGCUUUGACUUCAACUGGCU
....(((((...((....)).........((((((((.((((.....))))))))))))........)))))....(((((..(((....)))))))). (-28.19 = -28.83 +   0.64)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:01:45 2006