Locus 5756

Sequence ID	X_DroMel_CAF1
Location	14,924,632 – 14,924,767
Length	135
Max. P	0.991073

overview

Window 9

Location	14,924,632 – 14,924,738
Length	106
Sequences	6
Columns	109
Reading direction	reverse
Mean pairwise identity	85.95
Mean single sequence MFE	-28.58
Consensus MFE	-22.60
Energy contribution	-23.88
Covariance contribution	1.28
Combinations/Pair	1.14
Mean z-score	-2.86
Structure conservation index	0.79
SVM decision value	0.84
SVM RNA-class probability	0.864496
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14924632 106 - 22224390
UCGUACAUCAAGGCCAGGCCACAAAUGUUGAUGCCCAAUGCUCUUAUCAUUCGGGUAAUAACAUGCCCCAA--UCAAAGUACGAUAACGCUCAAAACAAUAGCACUGC-
((((((.....(((...)))....((((((.(((((((((.......)))).))))).)))))).......--.....))))))....(((.........))).....- ( -25.10)
>DroSec_CAF1 3809 106 - 1
UCGUACAUCAAGGCCAGACCAAAAAUGUUGAUGCCCAAUGGUCUUAUCAUUCGGGUAUUAACAUGCCCCAA--UCAAAGUACGAUAACGCUCAAAACAAUAGUACUGC-
((((((.....((.....))....((((((((((((((((((...)))))).)))))))))))).......--.....))))))........................- ( -28.00)
>DroSim_CAF1 3143 106 - 1
UCGUACAUCAAGGCCAAACCAAAAAUGUUGAUGCCCAAUGGUCUUAUCAUUCGGGUAUUAACAUGCCCCAA--UCAAAGUACGAUAACGCUCAAAACAAUAGCACUGC-
((((((.....((.....))....((((((((((((((((((...)))))).)))))))))))).......--.....))))))....(((.........))).....- ( -29.10)
>DroEre_CAF1 3916 107 - 1
UCGUACAUCAAGGCCAGGCCACAAAUGUUGAUGCCCAAUGGCCUUAUCAUUCGGGUAUUAACAAGCUCCAA--UCAUAGUACGAUAACGCGCAAAGCAAUAGCACUACA
((((((.....(((...))).....((((((((((((((((.....))))).)))))))))))........--.....))))))....((.....))............ ( -30.50)
>DroYak_CAF1 3156 107 - 1
UCAGACAUCAAGGCCAGGCCACAAAUGUUGAUGCCCAAUGGUCUUAUCAUUCGGGUAUUAACAUGGCCCAA--UCAUAGUACGAUAAAGCUCAAAACAAUAGCACUGCA
.(((............(((((....(((((((((((((((((...)))))).))))))))))))))))...--...............(((.........))).))).. ( -29.00)
>DroAna_CAF1 3797 107 - 1
UCACACAUCAAGGCCAGGCCACAAUUGCUGAUGCUCGAUGGCCUUAUCAUUGGGGUAUUAACAUUCCCCGGGCCCAUAGUACAGUAGGGCUUACUCCGAUAGCAUCG--
............((.((((((.....((....))....))))))((((...((((..........))))((((((...........)))))).....))))))....-- ( -29.80)
>consensus
UCGUACAUCAAGGCCAGGCCACAAAUGUUGAUGCCCAAUGGUCUUAUCAUUCGGGUAUUAACAUGCCCCAA__UCAAAGUACGAUAACGCUCAAAACAAUAGCACUGC_
((((((.....((.....))....(((((((((((((((((.....))))).))))))))))))..............))))))....(((.........)))...... (-22.60 = -23.88 +   1.28)

alignment

secondary structure

dotplot

Window 0

Location	14,924,667 – 14,924,767
Length	100
Sequences	6
Columns	109
Reading direction	reverse
Mean pairwise identity	77.50
Mean single sequence MFE	-26.33
Consensus MFE	-17.50
Energy contribution	-18.45
Covariance contribution	0.95
Combinations/Pair	1.13
Mean z-score	-3.25
Structure conservation index	0.66
SVM decision value	2.25
SVM RNA-class probability	0.991073
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14924667 100 - 22224390
UGCAUGUAAC--------ACAUACAU-AGUAUAUACAAUCGUACAUCAAGGCCAGGCCACAAAUGUUGAUGCCCAAUGCUCUUAUCAUUCGGGUAAUAACAUGCCCCAA
.((((((...--------.((.((((-.((((........)))).....(((...)))....)))))).(((((((((.......)))).)))))...))))))..... ( -21.80)
>DroSec_CAF1 3844 91 - 1
U-----------------ACAAAUAU-AGUAUAUACAAUCGUACAUCAAGGCCAGACCAAAAAUGUUGAUGCCCAAUGGUCUUAUCAUUCGGGUAUUAACAUGCCCCAA
.-----------------........-.((((........)))).....(((..........((((((((((((((((((...)))))).))))))))))))))).... ( -22.70)
>DroSim_CAF1 3178 94 - 1
UGCAUGU-----------ACAUAUAU-AGUAUAUA---UCGUACAUCAAGGCCAAACCAAAAAUGUUGAUGCCCAAUGGUCUUAUCAUUCGGGUAUUAACAUGCCCCAA
((.((((-----------((((((((-...)))))---).)))))))).(((..........((((((((((((((((((...)))))).))))))))))))))).... ( -29.10)
>DroEre_CAF1 3952 98 - 1
----------ACAUACAUAUGUGUGU-GGUAUAAACAAUCGUACAUCAAGGCCAGGCCACAAAUGUUGAUGCCCAAUGGCCUUAUCAUUCGGGUAUUAACAAGCUCCAA
----------.((((((....)))))-)((((........)))).....(((...))).....((((((((((((((((.....))))).)))))))))))........ ( -27.50)
>DroYak_CAF1 3192 108 - 1
UGCAUGUACUACAUACAUACAUAUAU-AGUAUAUACAAUCAGACAUCAAGGCCAGGCCACAAAUGUUGAUGCCCAAUGGUCUUAUCAUUCGGGUAUUAACAUGGCCCAA
((.((((((((.(((......))).)-))))))).)).................(((((....(((((((((((((((((...)))))).))))))))))))))))... ( -33.40)
>DroAna_CAF1 3833 94 - 1
U---------------GUACGUAUGUGAGUACACCCUAUCACACAUCAAGGCCAGGCCACAAUUGCUGAUGCUCGAUGGCCUUAUCAUUGGGGUAUUAACAUUCCCCGG
(---------------((((........))))).((.............((..((((((.....((....))....))))))..))...((((..........)))))) ( -23.50)
>consensus
U_________________ACAUAUAU_AGUAUAUACAAUCGUACAUCAAGGCCAGGCCACAAAUGUUGAUGCCCAAUGGUCUUAUCAUUCGGGUAUUAACAUGCCCCAA
............................((((........)))).....((.....))....(((((((((((((((((.....))))).))))))))))))....... (-17.50 = -18.45 +   0.95)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:55:37 2006