Locus 8186

Sequence ID	X_DroMel_CAF1
Location	20,347,798 – 20,347,893
Length	95
Max. P	0.999979

overview

Window 6

Location	20,347,798 – 20,347,893
Length	95
Sequences	5
Columns	97
Reading direction	forward
Mean pairwise identity	95.77
Mean single sequence MFE	-32.32
Consensus MFE	-30.44
Energy contribution	-30.32
Covariance contribution	-0.12
Combinations/Pair	1.08
Mean z-score	-3.70
Structure conservation index	0.94
SVM decision value	5.09
SVM RNA-class probability	0.999973
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20347798 95 + 22224390
CUCUCACUUGCGCCAUCGCCUCUGGAAUUUUUUCCAGAGUGCGCCAAAAAAUUGAGCGCAAUUUUUCUAAGAUGCCCGUGGUGGGUUGCCCU--UUC
..((((((.(((.((((..((((((((....))))))))((((((((....))).)))))..........))))..))))))))).......--... ( -32.60)
>DroSec_CAF1 15643 93 + 1
CUCUCACUCUCGCCAGCGCCUCUGGAAUUUUUUCCAGAGUGCGCCAAAAAAUUGAGCGCAAUUUUUCUAAGAU--CCGUGGUGGGUUGCCCU--UUC
........(((((((((((((((((((....)))))))).))))..((((((((....)))))))).......--...))))))).......--... ( -33.30)
>DroSim_CAF1 17407 93 + 1
CUCUCACUCUCGCCAGCGCCUCUGGAAUUUUUUCCAGAGUGCGCCAAAAAAUUGAGCGCAAUUUUUCUAAGAU--CCGUGGUGGGUUGCCCU--UUC
........(((((((((((((((((((....)))))))).))))..((((((((....)))))))).......--...))))))).......--... ( -33.30)
>DroEre_CAF1 12406 93 + 1
CUCUCACUCUCGCCAACGCCUCUGGAAUUUUUUCCAGAGUGCGCCAAAAAAUUGAGCGCAAUUUUUCUAAGAU--CCGUGGUGGGUUGCCCA--UUC
........(((((((.((.((((((((....))))))))((((((((....))).))))).............--.))))))))).......--... ( -31.20)
>DroYak_CAF1 16254 95 + 1
CUCUCACUCUCGCCGACGCCUCUGGAAUUUUUUCCAGAGUGCGCCAAAAAAUUGAGCGCAAUUUUUCUAAGAU--CCGUGGUGGGUUGCCCUUCUUC
........((((((.(((.((((((((....))))))))((((((((....))).))))).............--.)))))))))............ ( -31.20)
>consensus
CUCUCACUCUCGCCAACGCCUCUGGAAUUUUUUCCAGAGUGCGCCAAAAAAUUGAGCGCAAUUUUUCUAAGAU__CCGUGGUGGGUUGCCCU__UUC
........(((((((.((.((((((((....))))))))((((((((....))).)))))................)))))))))............ (-30.44 = -30.32 +  -0.12)

alignment

secondary structure

dotplot

Window 7

Location	20,347,798 – 20,347,893
Length	95
Sequences	5
Columns	97
Reading direction	reverse
Mean pairwise identity	95.77
Mean single sequence MFE	-32.74
Consensus MFE	-31.34
Energy contribution	-31.22
Covariance contribution	-0.12
Combinations/Pair	1.07
Mean z-score	-3.12
Structure conservation index	0.96
SVM decision value	5.22
SVM RNA-class probability	0.999979
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20347798 95 - 22224390
GAA--AGGGCAACCCACCACGGGCAUCUUAGAAAAAUUGCGCUCAAUUUUUUGGCGCACUCUGGAAAAAAUUCCAGAGGCGAUGGCGCAAGUGAGAG
...--.((....))...(((.(.((((..........(((((.(((....))))))))((((((((....))))))))..)))).)....))).... ( -33.00)
>DroSec_CAF1 15643 93 - 1
GAA--AGGGCAACCCACCACGG--AUCUUAGAAAAAUUGCGCUCAAUUUUUUGGCGCACUCUGGAAAAAAUUCCAGAGGCGCUGGCGAGAGUGAGAG
...--.((....))...(((..--.((...(((((((((....)))))))))(((((.((((((((....)))))))))))))...))..))).... ( -33.40)
>DroSim_CAF1 17407 93 - 1
GAA--AGGGCAACCCACCACGG--AUCUUAGAAAAAUUGCGCUCAAUUUUUUGGCGCACUCUGGAAAAAAUUCCAGAGGCGCUGGCGAGAGUGAGAG
...--.((....))...(((..--.((...(((((((((....)))))))))(((((.((((((((....)))))))))))))...))..))).... ( -33.40)
>DroEre_CAF1 12406 93 - 1
GAA--UGGGCAACCCACCACGG--AUCUUAGAAAAAUUGCGCUCAAUUUUUUGGCGCACUCUGGAAAAAAUUCCAGAGGCGUUGGCGAGAGUGAGAG
...--.((....))...(((..--.((...(((((((((....)))))))))(((((.((((((((....)))))))))))))...))..))).... ( -30.70)
>DroYak_CAF1 16254 95 - 1
GAAGAAGGGCAACCCACCACGG--AUCUUAGAAAAAUUGCGCUCAAUUUUUUGGCGCACUCUGGAAAAAAUUCCAGAGGCGUCGGCGAGAGUGAGAG
......((....))...(((..--.((...(((((((((....)))))))))(((((.((((((((....)))))))))))))...))..))).... ( -33.20)
>consensus
GAA__AGGGCAACCCACCACGG__AUCUUAGAAAAAUUGCGCUCAAUUUUUUGGCGCACUCUGGAAAAAAUUCCAGAGGCGCUGGCGAGAGUGAGAG
......((....))...........((((.(((((((((....)))))))))(((((.((((((((....))))))))))))).((....)))))). (-31.34 = -31.22 +  -0.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:57:59 2006