Locus 4629

Sequence ID X_DroMel_CAF1
Location 12,100,109 – 12,100,204
Length 95
Max. P 0.865588
window7606 window7607

overview

Window 6

Location 12,100,109 – 12,100,204
Length 95
Sequences 4
Columns 95
Reading direction forward
Mean pairwise identity 90.15
Mean single sequence MFE -32.77
Consensus MFE -25.03
Energy contribution -25.04
Covariance contribution 0.00
Combinations/Pair 1.04
Mean z-score -2.26
Structure conservation index 0.76
SVM decision value 0.85
SVM RNA-class probability 0.865588
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12100109 95 + 22224390
GCGUGAAGUGUGUUUGCCUUGGAGCGCCGCACCGCGCCGCGCGUCGGCAACAUCGCUGCAUAAUCCUUUGGCAAACACCCUCGUUACCUCUACGU
..((((((.(((((((((..(((((((......)))).(((((..(....)..))).))....)))...))))))))).))..))))........ ( -36.10)
>DroSec_CAF1 12419 81 + 1
GCGUGAAGUGUGUUUGCCUUGGAGCGCCG------------CGUCGGCGACAUCGCUGCAUAAUCCUUUGGCAAACACCCUCGUUACC--UACGU
..((((((.(((((((((..(((..((.(------------((..(....)..))).))....)))...))))))))).))..)))).--..... ( -29.80)
>DroEre_CAF1 23968 81 + 1
GCGUGGAGUGUGUUUGCCUUGGAGCGCCG------------CGUCGGCGACAUCGCUGCAUAAUCCUUUGGCAAACACCCUCGUUACC--UACGU
((((((((.(((((((((..(((..((.(------------((..(....)..))).))....)))...))))))))).)))......--))))) ( -33.10)
>DroYak_CAF1 24433 81 + 1
GAGUGGAGUGUGUUUGCCUUGGAGCGCCG------------CGUCGGCGACAUCGCUGCAUAAUCCUUUGGCAAACACCCUCGUUACC--UACGU
.....(((.(((((((((..(((..((.(------------((..(....)..))).))....)))...))))))))).)))......--..... ( -32.10)
>consensus
GCGUGAAGUGUGUUUGCCUUGGAGCGCCG____________CGUCGGCGACAUCGCUGCAUAAUCCUUUGGCAAACACCCUCGUUACC__UACGU
..((((((.(((((((((..((((((...............)))(((((....))))).....)))...))))))))).))..))))........ (-25.03 = -25.04 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 12,100,109 – 12,100,204
Length 95
Sequences 4
Columns 95
Reading direction reverse
Mean pairwise identity 90.15
Mean single sequence MFE -30.50
Consensus MFE -26.37
Energy contribution -26.69
Covariance contribution 0.31
Combinations/Pair 1.04
Mean z-score -1.53
Structure conservation index 0.86
SVM decision value 0.34
SVM RNA-class probability 0.696422
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12100109 95 - 22224390
ACGUAGAGGUAACGAGGGUGUUUGCCAAAGGAUUAUGCAGCGAUGUUGCCGACGCGCGGCGCGGUGCGGCGCUCCAAGGCAAACACACUUCACGC
.(((...(....)(((((((((((((...(((...((((.((.((((((......)))))))).))))....)))..))))))))).))))))). ( -37.90)
>DroSec_CAF1 12419 81 - 1
ACGUA--GGUAACGAGGGUGUUUGCCAAAGGAUUAUGCAGCGAUGUCGCCGACG------------CGGCGCUCCAAGGCAAACACACUUCACGC
.(((.--(....)(((((((((((((...(((...(((.(((.((....)).))------------).))).)))..))))))))).))))))). ( -29.00)
>DroEre_CAF1 23968 81 - 1
ACGUA--GGUAACGAGGGUGUUUGCCAAAGGAUUAUGCAGCGAUGUCGCCGACG------------CGGCGCUCCAAGGCAAACACACUCCACGC
.(((.--(....)(((.(((((((((...(((...(((.(((.((....)).))------------).))).)))..))))))))).))).))). ( -27.60)
>DroYak_CAF1 24433 81 - 1
ACGUA--GGUAACGAGGGUGUUUGCCAAAGGAUUAUGCAGCGAUGUCGCCGACG------------CGGCGCUCCAAGGCAAACACACUCCACUC
.....--......(((.(((((((((...(((...(((.(((.((....)).))------------).))).)))..))))))))).)))..... ( -27.50)
>consensus
ACGUA__GGUAACGAGGGUGUUUGCCAAAGGAUUAUGCAGCGAUGUCGCCGACG____________CGGCGCUCCAAGGCAAACACACUCCACGC
.............(((((((((((((...(((....(((....)))(((((...............))))).)))..))))))))).)))).... (-26.37 = -26.69 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:29:45 2006