Locus 44

Sequence ID 4_DroMel_CAF1
Location 405,538 – 405,659
Length 121
Max. P 0.679724
window68 window69

overview

Window 8

Location 405,538 – 405,637
Length 99
Sequences 4
Columns 101
Reading direction forward
Mean pairwise identity 84.97
Mean single sequence MFE -19.42
Consensus MFE -12.95
Energy contribution -13.82
Covariance contribution 0.88
Combinations/Pair 1.06
Mean z-score -1.73
Structure conservation index 0.67
SVM decision value 0.21
SVM RNA-class probability 0.633488
Prediction RNA

Download alignment: ClustalW | MAF

>4_DroMel_CAF1 405538 99 + 1281640
-CCCCUCGCUCGAUUGCUUUUUAUU-UCAACUCCUACGUCCCUCCACUCUAUUCCGCAAGCACUCGACCCCUCCGUGCCAGUGGCAGGGACGCAAACUCAA
-......((......))........-..........((((((((((((...........((((..((....)).)))).))))).)))))))......... ( -22.80)
>DroSec_CAF1 22762 101 + 1
CCCCCUCGCUCGAUUGCUUUUUAUUUUCAACUCCUUCACCCCUCCACUCUCUUCCGCAAGCACUCGACCCCUCCGUGCCAGUGGCAGGGACGCAAACUCAA
.......((((((.(((((......................................))))).))))....(((.((((...)))).))).))........ ( -18.46)
>DroEre_CAF1 31007 94 + 1
CCCCUUCGUUCGCUUACUUUUUAUUUCCAAUUC------CCCUCCACUGUCUUCAGCAAGCAGUCGACCCCU-AGUGCCAGUGCCAGGGACGCAAACUCAA
.......(((.((....................------...((.((((.(((....))))))).)).((((-.(((....))).))))..)).))).... ( -15.80)
>DroYak_CAF1 32522 94 + 1
CCCCUUCGCUGGCUUGCUUUUUAUUUCCAAUUC------CCCUCCACUGUCUUUAGCAAGCACUCGACCCCU-AGUGCCAGUGCCAGGGACGCAAACUCAC
.((((.((((((((((((...............------...............))))))((((.(....).-))))))))))..))))............ ( -20.61)
>consensus
CCCCCUCGCUCGAUUGCUUUUUAUUUCCAACUC______CCCUCCACUCUCUUCAGCAAGCACUCGACCCCU_AGUGCCAGUGCCAGGGACGCAAACUCAA
.......((......))......................((((((((((..........((((...........)))))))))).))))............ (-12.95 = -13.82 +   0.88) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 405,562 – 405,659
Length 97
Sequences 4
Columns 98
Reading direction forward
Mean pairwise identity 87.95
Mean single sequence MFE -28.07
Consensus MFE -19.88
Energy contribution -21.12
Covariance contribution 1.25
Combinations/Pair 1.00
Mean z-score -1.80
Structure conservation index 0.71
SVM decision value 0.30
SVM RNA-class probability 0.679724
Prediction RNA

Download alignment: ClustalW | MAF

>4_DroMel_CAF1 405562 97 + 1281640
-UCAACUCCUACGUCCCUCCACUCUAUUCCGCAAGCACUCGACCCCUCCGUGCCAGUGGCAGGGACGCAAACUCAAAGAGGGAUGGACUUAUGUCCGC
-.....(((..((((((((((((...........((((..((....)).)))).))))).)))))))....(((...)))))).((((....)))).. ( -30.40)
>DroSec_CAF1 22787 98 + 1
UUCAACUCCUUCACCCCUCCACUCUCUUCCGCAAGCACUCGACCCCUCCGUGCCAGUGGCAGGGACGCAAACUCAAAGAGGGAUGGACUUAUGUCCGC
..............(((((...(((((.((((..((((..((....)).))))..)))).))))).(......)...)))))..((((....)))).. ( -27.90)
>DroEre_CAF1 31032 91 + 1
UCCAAUUC------CCCUCCACUGUCUUCAGCAAGCAGUCGACCCCU-AGUGCCAGUGCCAGGGACGCAAACUCAAAGAGGGAUGGACUUAUGUCCGC
........------(((((.((((.(((....)))))))....((((-.(((....))).)))).............)))))..((((....)))).. ( -25.40)
>DroYak_CAF1 32547 91 + 1
UCCAAUUC------CCCUCCACUGUCUUUAGCAAGCACUCGACCCCU-AGUGCCAGUGCCAGGGACGCAAACUCACAGAGGGAUGGACUUAUGUCCGC
........------(((((....((((((.(((.(((((.(....).-)))))...))).))))))(........).)))))..((((....)))).. ( -28.60)
>consensus
UCCAACUC______CCCUCCACUCUCUUCAGCAAGCACUCGACCCCU_AGUGCCAGUGCCAGGGACGCAAACUCAAAGAGGGAUGGACUUAUGUCCGC
..............((((((((((..........((((...........)))))))))).))))..((...(((.....)))..((((....)))))) (-19.88 = -21.12 +   1.25) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:32:21 2006