Locus 342

Sequence ID	X_DroMel_CAF1
Location	1,063,543 – 1,063,703
Length	160
Max. P	0.556370

overview

Window 0

Location	1,063,543 – 1,063,663
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	78.41
Mean single sequence MFE	-38.06
Consensus MFE	-21.10
Energy contribution	-23.08
Covariance contribution	1.98
Combinations/Pair	1.29
Mean z-score	-1.75
Structure conservation index	0.55
SVM decision value	-0.00
SVM RNA-class probability	0.532852
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1063543 120 - 22224390
GCGUUCAUCAAUGCAAAACAGCUGAUUAGGCUGAUCAGGCUGACCAGGAUGUCGAGGUGAAAAAACCUGAACAUGCUGCUCAAUAUGGUUGUCUGUUGCAAAUGCUUGCAGUGGCCCUGA
(((((....)))))....(((((.....))))).(((((.(((.(((.((((..((((......))))..)))).))).)))..........(..((((((....))))))..).))))) ( -39.50)
>DroSec_CAF1 12549 120 - 1
GCGUUUAUCAAUGCAAAACAGCCGAUCAGGCUGAUCAGGCUGACCAGGAUGUCGAGGUGAAAAAACCUGAACAUGCUGCUCAAUAUGGUUGUCGGUUGCAAAUGCUUGCAGUGGCCCUGA
(((((....)))))....(((((.....))))).(((((.(((.(((.((((..((((......))))..)))).))).)))........((((.(.((((....))))).))))))))) ( -40.70)
>DroSim_CAF1 13501 120 - 1
GCGUUUAUCAAUGCAAAAUAGCCGAUCAGGCUGAUCAGGCUGACCAGGAUGUCGAGGUGAAAAAACCUGAACAUGCUGCUCAAUAUGGUUGUCGGUUGCAAAUGCUUGCAGUGGCCCUGA
(((((....)))))....(((((.....))))).(((((.(((.(((.((((..((((......))))..)))).))).)))........((((.(.((((....))))).))))))))) ( -38.60)
>DroYak_CAF1 14957 111 - 1
GCCCGCAUCAAUGCAAAACAGCCAAA---------CAGGCUGACCAGGAUGUCGAGGUGAAUAAACCUGAACAUGCUGCUCAAUAUGGUUGUCUGUUGCAAAUGCUUGCAGUGGCCCUGA
(((((((.((.(((((.(((((((..---------.....(((.(((.((((..((((......))))..)))).))).)))...)))))))...)))))..))..))).).)))..... ( -35.50)
>DroAna_CAF1 16559 108 - 1
GCCUCCGGGCAACAGAAACAGCUGGCCAGG------------AUCAGGGCCUUGAGGUGGACAACCUUGAACAUGUUGCCCAAGAUUGUUGGCUUUUGCAAAUGUUGCCACCGACACUGC
......((((((((.........((((...------------.....))))(..((((.....))))..)...)))))))).....((((((.....(((.....)))..)))))).... ( -36.00)
>consensus
GCGUUCAUCAAUGCAAAACAGCCGAUCAGGCUGAUCAGGCUGACCAGGAUGUCGAGGUGAAAAAACCUGAACAUGCUGCUCAAUAUGGUUGUCUGUUGCAAAUGCUUGCAGUGGCCCUGA
(((..(((...(((((.(((((((.....(((.....)))(((.(((.((((..((((......))))..)))).))).)))...)))))))...))))).)))..)))........... (-21.10 = -23.08 +   1.98)

alignment

secondary structure

dotplot

Window 1

Location	1,063,583 – 1,063,703
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	86.53
Mean single sequence MFE	-40.35
Consensus MFE	-29.51
Energy contribution	-29.95
Covariance contribution	0.44
Combinations/Pair	1.18
Mean z-score	-1.46
Structure conservation index	0.73
SVM decision value	0.05
SVM RNA-class probability	0.556370
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1063583 120 - 22224390
CCCCGAUACCUCCUGCUGGUGGAAUUGCUGCUGCUGCUGGGCGUUCAUCAAUGCAAAACAGCUGAUUAGGCUGAUCAGGCUGACCAGGAUGUCGAGGUGAAAAAACCUGAACAUGCUGCU
...((((.((.((....)).)).))))..((.((..(((((((((....)))))....(((((((((.....))))).)))).)))).((((..((((......))))..)))))).)). ( -37.60)
>DroSec_CAF1 12589 120 - 1
CCCCGUAAUCUCCUGCUGGUGGGAUUGCUGCUGCUGCUGGGCGUUUAUCAAUGCAAAACAGCCGAUCAGGCUGAUCAGGCUGACCAGGAUGUCGAGGUGAAAAAACCUGAACAUGCUGCU
....(((((((((.....).)))))))).((.((..(((((((((....)))))....(((((((((.....)))).))))).)))).((((..((((......))))..)))))).)). ( -43.50)
>DroSim_CAF1 13541 114 - 1
CCGCGAAAUCUCCUGCUGGUGGGAUUGCU------GCUGGGCGUUUAUCAAUGCAAAAUAGCCGAUCAGGCUGAUCAGGCUGACCAGGAUGUCGAGGUGAAAAAACCUGAACAUGCUGCU
(((((.(((((((.....).))))))..)------)).))(((((....)))))....(((((((((.....)))).)))))..(((.((((..((((......))))..)))).))).. ( -37.20)
>DroYak_CAF1 14997 111 - 1
CCCCGAAAGCUCCUGCUGGUGGGAUUGCUGCUGGUGCUGUGCCCGCAUCAAUGCAAAACAGCCAAA---------CAGGCUGACCAGGAUGUCGAGGUGAAUAAACCUGAACAUGCUGCU
.((((..(((....)))..)))).((((...((((((.......))))))..))))..(((((...---------..)))))..(((.((((..((((......))))..)))).))).. ( -43.10)
>consensus
CCCCGAAAUCUCCUGCUGGUGGGAUUGCUGCUGCUGCUGGGCGUUCAUCAAUGCAAAACAGCCGAUCAGGCUGAUCAGGCUGACCAGGAUGUCGAGGUGAAAAAACCUGAACAUGCUGCU
.............((((((((((...((.((....))...)).)))))))..)))...(((((((((.....)))).)))))..(((.((((..((((......))))..)))).))).. (-29.51 = -29.95 +   0.44)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:42:12 2006