Locus 6376

Sequence ID	3L_DroMel_CAF1
Location	17,067,229 – 17,067,319
Length	90
Max. P	0.997850

overview

Window 5

Location	17,067,229 – 17,067,319
Length	90
Sequences	6
Columns	90
Reading direction	forward
Mean pairwise identity	98.59
Mean single sequence MFE	-13.25
Consensus MFE	-13.50
Energy contribution	-13.25
Covariance contribution	-0.25
Combinations/Pair	1.06
Mean z-score	-0.55
Structure conservation index	1.02
SVM decision value	0.10
SVM RNA-class probability	0.583961
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17067229 90 + 23771897
CUUAUUGGUUUACUUGUUUACAUGGCAAGCUGCUCGUUUUCACACUCUUUCUUAUUUGCUUUAACAUUUUCGCAUGCAUAUGCAAGCAGC
.............(((((.....)))))((((((......................(((............)))(((....))))))))) ( -13.00)
>DroVir_CAF1 21688 90 + 1
CUUAUUGGUUUACUUGUUUACAUGACAAGCUGCUCGUUUUCACACUCUUUCUUAUUUGCUUUAACAUUUUCGCAUGCAUAUGCAAGCAGC
.............(((((.....)))))((((((......................(((............)))(((....))))))))) ( -13.50)
>DroGri_CAF1 25782 90 + 1
CUUAUUGGUUUACUUGUUUACAUGACAAGCUGCUCGUUUUCACACUCAUUCUUAUUUGCUUUAACAUUUUCGCAUGCAUAUGCAAGCAGC
.............(((((.....)))))((((((......................(((............)))(((....))))))))) ( -13.50)
>DroYak_CAF1 26826 90 + 1
CUUAUUGGUUUACUUGUUUACAUGGCAAGCUGCUCGUUUUCACACUCUUUCUUAUUUGCUUUAACAUUUUCGCAUGCAUAUGCAAGCAGC
.............(((((.....)))))((((((......................(((............)))(((....))))))))) ( -13.00)
>DroMoj_CAF1 28705 90 + 1
CUUAUUGGUUUACUUGUUUACAUGACAAGCUGCUCGUUUUCACACUUUUUCUUAUUUGCUUUAACAUUUUCGCAUGCAUAUGCAAGCAGC
.............(((((.....)))))((((((......................(((............)))(((....))))))))) ( -13.50)
>DroAna_CAF1 25758 90 + 1
CUUAUUGGUUUACUUGUUUACAUGGCAAGCUGCUCGUUUUCACACUCUUUCUUAUUUGCUUUAACAUUUUCGCAUGCAUAUGCAAGCAGC
.............(((((.....)))))((((((......................(((............)))(((....))))))))) ( -13.00)
>consensus
CUUAUUGGUUUACUUGUUUACAUGACAAGCUGCUCGUUUUCACACUCUUUCUUAUUUGCUUUAACAUUUUCGCAUGCAUAUGCAAGCAGC
.............(((((.....)))))((((((......................(((............)))(((....))))))))) (-13.50 = -13.25 +  -0.25)

alignment

secondary structure

dotplot

Window 6

Location	17,067,229 – 17,067,319
Length	90
Sequences	6
Columns	90
Reading direction	reverse
Mean pairwise identity	98.59
Mean single sequence MFE	-17.46
Consensus MFE	-17.20
Energy contribution	-17.20
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.64
Structure conservation index	0.99
SVM decision value	2.95
SVM RNA-class probability	0.997850
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17067229 90 - 23771897
GCUGCUUGCAUAUGCAUGCGAAAAUGUUAAAGCAAAUAAGAAAGAGUGUGAAAACGAGCAGCUUGCCAUGUAAACAAGUAAACCAAUAAG
(((((((((....((((......))))....))..............((....)))))))))((((..((....)).))))......... ( -17.50)
>DroVir_CAF1 21688 90 - 1
GCUGCUUGCAUAUGCAUGCGAAAAUGUUAAAGCAAAUAAGAAAGAGUGUGAAAACGAGCAGCUUGUCAUGUAAACAAGUAAACCAAUAAG
(((((((((....((((......))))....))..............((....)))))))))............................ ( -17.20)
>DroGri_CAF1 25782 90 - 1
GCUGCUUGCAUAUGCAUGCGAAAAUGUUAAAGCAAAUAAGAAUGAGUGUGAAAACGAGCAGCUUGUCAUGUAAACAAGUAAACCAAUAAG
(((((((((((((.(((.......(((....))).......))).)))))....))))))))............................ ( -17.84)
>DroYak_CAF1 26826 90 - 1
GCUGCUUGCAUAUGCAUGCGAAAAUGUUAAAGCAAAUAAGAAAGAGUGUGAAAACGAGCAGCUUGCCAUGUAAACAAGUAAACCAAUAAG
(((((((((....((((......))))....))..............((....)))))))))((((..((....)).))))......... ( -17.50)
>DroMoj_CAF1 28705 90 - 1
GCUGCUUGCAUAUGCAUGCGAAAAUGUUAAAGCAAAUAAGAAAAAGUGUGAAAACGAGCAGCUUGUCAUGUAAACAAGUAAACCAAUAAG
(((((((((....((((......))))....))..............((....)))))))))............................ ( -17.20)
>DroAna_CAF1 25758 90 - 1
GCUGCUUGCAUAUGCAUGCGAAAAUGUUAAAGCAAAUAAGAAAGAGUGUGAAAACGAGCAGCUUGCCAUGUAAACAAGUAAACCAAUAAG
(((((((((....((((......))))....))..............((....)))))))))((((..((....)).))))......... ( -17.50)
>consensus
GCUGCUUGCAUAUGCAUGCGAAAAUGUUAAAGCAAAUAAGAAAGAGUGUGAAAACGAGCAGCUUGCCAUGUAAACAAGUAAACCAAUAAG
(((((((((....((((......))))....))..............((....)))))))))............................ (-17.20 = -17.20 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:16:54 2006