Locus 7218

Sequence ID	X_DroMel_CAF1
Location	18,060,772 – 18,061,012
Length	240
Max. P	0.815065

overview

Window 8

Location	18,060,772 – 18,060,892
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	75.00
Mean single sequence MFE	-30.54
Consensus MFE	-21.92
Energy contribution	-22.37
Covariance contribution	0.45
Combinations/Pair	1.05
Mean z-score	-1.42
Structure conservation index	0.72
SVM decision value	0.66
SVM RNA-class probability	0.815065
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18060772 120 - 22224390
GCAAGAGGCGAGAACCAAAACCAAAACCAGAACCGGUUGAGACAGCUGAUAUUUGCAGGCUGUGCCCGCCUGCAACUGUCUGGGUAUUACACGACUGUCUCCCGCACAUUUCCACUACCA
.......(((..............((((......))))((((((((.((((.((((((((.......)))))))).))))..(......)..).))))))).)))............... ( -33.70)
>DroSec_CAF1 5921 120 - 1
GCGAGAGGCGAGAACCAAAACCAAAACCAGAACCGGUUGAGACAGCUGAUAUUUGCAGGCUGUGCCCGCCUGCAACUGUCUGGGUAUUACACGACUGUCUCCCGCACAUUUCCACUACCA
(((.((((((.........(((..((((......)))).((((((.......((((((((.......)))))))))))))).)))..........)))))).)))............... ( -36.82)
>DroSim_CAF1 14104 117 - 1
GCGAGAGGCGAGAACCAAAACCAAAACUAGAACCGGUUGAUACAGCUGAUAAUUGCAGGCUGUGCCAGCCAGCAA-UGUCAGGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN--
((.....)).........((((............)))).......((((((.((((.(((((...))))).))))-))))))....................................-- ( -21.10)
>consensus
GCGAGAGGCGAGAACCAAAACCAAAACCAGAACCGGUUGAGACAGCUGAUAUUUGCAGGCUGUGCCCGCCUGCAACUGUCUGGGUAUUACACGACUGUCUCCCGCACAUUUCCACUACCA
((.....)).................(((((..((((((...))))))....((((((((.......))))))))...)))))..................................... (-21.92 = -22.37 +   0.45)

alignment

secondary structure

dotplot

Window 9

Location	18,060,892 – 18,061,012
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	83.43
Mean single sequence MFE	-36.30
Consensus MFE	-32.31
Energy contribution	-32.20
Covariance contribution	-0.11
Combinations/Pair	1.07
Mean z-score	-1.22
Structure conservation index	0.89
SVM decision value	0.30
SVM RNA-class probability	0.677300
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18060892 120 - 22224390
GCUGGGUUGGCCCUUAAGGAGGCGGCCACAUUGGGGGUGGUCUGUGCUAACUAGGAGGCUGCCAUUUAAUGCCCAGAACCGAGAGGCGAGUGGCAAGAGGCGAGAGGCAAGAGGCAAGAG
(((.(((((((((....))((((.(((........))).))))..)))))))....)))((((......((((.....((....)).....))))...(.(....).)....)))).... ( -40.10)
>DroSec_CAF1 6041 98 - 1
GCUGGGUUGGCCCUUAAGGAGGGGGUCACAUUGAGGGUGGUCUGUGCUAACUAGGAGGCUGCCAUUUAAUGCCGAGAACCGAGAGGCGAGUGGCG----------------------GAG
.((.(((((((((((.....)))))))).))).))((..((((.(........).))))..))......(((((....((....))....)))))----------------------... ( -34.40)
>DroSim_CAF1 14221 98 - 1
GCUGGGUUGGCCCUUAAGGAGGGGGUCACAUUGAGGGUGGUCUGUGCUAAAUAGGAGGCUGCCAUUUAAUGCCGAGAACCGAGAGGCGAGUGGCG----------------------GAG
.((.(((((((((((.....)))))))).))).))((..((((.(........).))))..))......(((((....((....))....)))))----------------------... ( -34.40)
>consensus
GCUGGGUUGGCCCUUAAGGAGGGGGUCACAUUGAGGGUGGUCUGUGCUAACUAGGAGGCUGCCAUUUAAUGCCGAGAACCGAGAGGCGAGUGGCG______________________GAG
(((((..((((((((.....))))))))(((((((((..((((.(........).))))..)).))))))))).....((....)).....))).......................... (-32.31 = -32.20 +  -0.11)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:33:10 2006