Locus 5430

Sequence ID 2L_DroMel_CAF1
Location 15,468,950 – 15,469,041
Length 91
Max. P 0.897366
window8623 window8624

overview

Window 3

Location 15,468,950 – 15,469,041
Length 91
Sequences 6
Columns 103
Reading direction forward
Mean pairwise identity 81.54
Mean single sequence MFE -22.40
Consensus MFE -15.78
Energy contribution -17.28
Covariance contribution 1.50
Combinations/Pair 1.00
Mean z-score -2.17
Structure conservation index 0.70
SVM decision value 0.76
SVM RNA-class probability 0.842887
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15468950 91 + 22407834
----------CCAUCCCGAUCCCUAUCCCUACUC--CGAUCUCGAGAUGAUGGGCCUAGCAAACACAGAGCGACAUGUCAACUAUAACCACCCAUCGAUCGGG
----------....(((((((..........(((--.(....))))..((((((....((.........))((....))...........))))))))))))) ( -23.60)
>DroGri_CAF1 224554 73 + 1
----------CCAGCGCGUC-------------------CCUGACGAUGAUGAGCAUAGGAAACACAAAACGACAUGUCAACUAUAACCACCCAUCGAUCG-A
----------.(((......-------------------.))).((((((((......(....).......((....)).............)))).))))-. ( -10.60)
>DroSec_CAF1 206987 93 + 1
----------CCAUCCCGAUCCCAAUCCCUACCCUACAAUCUGGAGAUGAUGGGCCUAGCAAACACAGAGCGACAUGUCAACUAUAACCACCCAUCGAUCGGG
----------....(((((((...(((((.............)).)))((((((....((.........))((....))...........))))))))))))) ( -24.42)
>DroSim_CAF1 213078 91 + 1
----------CCAUCCCGAUCCCAAUCCCUACUC--CGAUCUGGAGAUGAUGGGCCUAGCAAACACAGAGCGACAUGUCAACUAUAACCACCCAUCGAUCGGG
----------....(((((((..........(((--(.....))))..((((((....((.........))((....))...........))))))))))))) ( -27.30)
>DroEre_CAF1 217645 95 + 1
AUCC------CCAUCCCGAUCCCGAUCCCCACUC--UGAUCUCGAGAUGAUGGGCCUAGCAAACACAGAGCGACAUGUCAACUAUAACCACCCAUCGAUCGGG
....------....(((((((..((((.......--.)))).......((((((....((.........))((....))...........))))))))))))) ( -25.00)
>DroYak_CAF1 215163 101 + 1
AUCCCCAUCCCCAUCCCGAUCCCAAUCCCCACUC--CGAUCCCGAGAUGAUGGGCCUAGCAAACACAGAGCGACAUGUCAACUAUAACCACCCAUCGAUCGGG
..............(((((((..........(((--.......)))..((((((....((.........))((....))...........))))))))))))) ( -23.50)
>consensus
__________CCAUCCCGAUCCCAAUCCCUACUC__CGAUCUCGAGAUGAUGGGCCUAGCAAACACAGAGCGACAUGUCAACUAUAACCACCCAUCGAUCGGG
..............(((((((.................(((....)))((((((....((.........))((....))...........))))))))))))) (-15.78 = -17.28 +   1.50)

alignment

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secondary structure

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dotplot

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Window 4

Location 15,468,950 – 15,469,041
Length 91
Sequences 6
Columns 103
Reading direction reverse
Mean pairwise identity 81.54
Mean single sequence MFE -33.28
Consensus MFE -27.20
Energy contribution -28.29
Covariance contribution 1.09
Combinations/Pair 1.11
Mean z-score -2.11
Structure conservation index 0.82
SVM decision value 1.00
SVM RNA-class probability 0.897366
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15468950 91 - 22407834
CCCGAUCGAUGGGUGGUUAUAGUUGACAUGUCGCUCUGUGUUUGCUAGGCCCAUCAUCUCGAGAUCG--GAGUAGGGAUAGGGAUCGGGAUGG----------
((((((((((((((.....((((.(((((........))))).)))).)))))))(((((.......--.....)))))...)))))))....---------- ( -34.90)
>DroGri_CAF1 224554 73 - 1
U-CGAUCGAUGGGUGGUUAUAGUUGACAUGUCGUUUUGUGUUUCCUAUGCUCAUCAUCGUCAGG-------------------GACGCGCUGG----------
.-((((.(((((((....((((..((((((......))))))..))))))))))))))).(((.-------------------(...).))).---------- ( -20.50)
>DroSec_CAF1 206987 93 - 1
CCCGAUCGAUGGGUGGUUAUAGUUGACAUGUCGCUCUGUGUUUGCUAGGCCCAUCAUCUCCAGAUUGUAGGGUAGGGAUUGGGAUCGGGAUGG----------
((((((((((((((.....((((.(((((........))))).)))).)))))))...(((..((......))..)))....)))))))....---------- ( -34.30)
>DroSim_CAF1 213078 91 - 1
CCCGAUCGAUGGGUGGUUAUAGUUGACAUGUCGCUCUGUGUUUGCUAGGCCCAUCAUCUCCAGAUCG--GAGUAGGGAUUGGGAUCGGGAUGG----------
((((((((((((((.....((((.(((((........))))).)))).)))))))..((((.....)--)))..........)))))))....---------- ( -36.20)
>DroEre_CAF1 217645 95 - 1
CCCGAUCGAUGGGUGGUUAUAGUUGACAUGUCGCUCUGUGUUUGCUAGGCCCAUCAUCUCGAGAUCA--GAGUGGGGAUCGGGAUCGGGAUGG------GGAU
(((.((((((((((.....((((.(((((........))))).)))).)))))))(((((((..((.--.....))..)))))))...))).)------)).. ( -37.00)
>DroYak_CAF1 215163 101 - 1
CCCGAUCGAUGGGUGGUUAUAGUUGACAUGUCGCUCUGUGUUUGCUAGGCCCAUCAUCUCGGGAUCG--GAGUGGGGAUUGGGAUCGGGAUGGGGAUGGGGAU
(((.((((((((((.....((((.(((((........))))).)))).)))))))(((((((..(((--(........))))..)))))))...))).))).. ( -36.80)
>consensus
CCCGAUCGAUGGGUGGUUAUAGUUGACAUGUCGCUCUGUGUUUGCUAGGCCCAUCAUCUCCAGAUCG__GAGUAGGGAUUGGGAUCGGGAUGG__________
((((((((((((((.....((((.(((((........))))).)))).)))))))(((((..............)))))...))))))).............. (-27.20 = -28.29 +   1.09)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:44:01 2006