Locus 6756

Sequence ID 2L_DroMel_CAF1
Location 18,877,267 – 18,877,365
Length 98
Max. P 0.899229
window10789 window10790

overview

Window 9

Location 18,877,267 – 18,877,365
Length 98
Sequences 6
Columns 101
Reading direction forward
Mean pairwise identity 79.19
Mean single sequence MFE -36.85
Consensus MFE -22.59
Energy contribution -24.32
Covariance contribution 1.72
Combinations/Pair 1.17
Mean z-score -1.85
Structure conservation index 0.61
SVM decision value 0.61
SVM RNA-class probability 0.799905
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18877267 98 + 22407834
CACCCCGAAAUGUAUC-UCGCAGAUACAUUCUGCCUGCGAGAGCAGUGCGACUAGCUCGUCGCUCCGCAAGGGUAGGGAACUGGUGUGGC--ACUGGUGCA
(((.(((.((((((((-.....))))))))((((((((....)))).(((((......))))).((....)))))).....))).)))((--(....))). ( -37.60)
>DroGri_CAF1 1232 86 + 1
C--CUUCCACAU-UGUUGAGUUGCUUC-UU----GUGUUAGAGCAGCACAGCUAGCGGG-GGUU-UGCUAG----AUGUGCGUGUGUGAGUGUGUG-UGCG
.--((..(((((-........((((.(-(.----.....))))))(((((.(((((((.-...)-))))))----.))))))))))..))......-.... ( -27.00)
>DroSec_CAF1 744 97 + 1
CACCCCGAAAUGUAUC-UCGCAGAUAC-UUCUGCCUGCGAGAGCAGUGCGACUAGCUCGUCGCUCCGCAAGGGUAGGGUACUGGUGUGGC--ACUGGUGCA
.((((.........((-((((((....-......))))))))((.(.(((((......))))).).))..))))...((((..(((...)--))..)))). ( -40.00)
>DroSim_CAF1 744 97 + 1
CACCCCGAAAUGUAUC-UCGCAGAUAC-UUCUGCCUGCGAGAGCAGUGCGACUAGCUCUUCGCUCCGCAAGGGUAGGGUACUGGUGUGGC--ACUGGUGCA
((((.......((.((-((((((....-......))))))))))(((((.(((((..((..((.((....))))..))..)))))...))--))))))).. ( -38.20)
>DroEre_CAF1 680 97 + 1
CACCCCGAAAUGUAUC-UCGCAGAUAC-UUCUGCCUGCGAGAGCAGUGCGACUAGCUCGUCGCUCCGCAAGGGUAAGGUACUGGUAUGGC--ACUGGUGCA
.((((.........((-((((((....-......))))))))((.(.(((((......))))).).))..))))...((((..((.....--))..)))). ( -38.30)
>DroYak_CAF1 748 97 + 1
CACCCCGAAAAGUAUC-UCGCAGAUAC-UUCUGCCUGCGAGAGCAGUGCGACUAGCUCGUCGCUCCGCAAGGGUAAGGUACUGGUGUGGC--ACUGGUGCA
.((((.........((-((((((....-......))))))))((.(.(((((......))))).).))..))))...((((..(((...)--))..)))). ( -40.00)
>consensus
CACCCCGAAAUGUAUC_UCGCAGAUAC_UUCUGCCUGCGAGAGCAGUGCGACUAGCUCGUCGCUCCGCAAGGGUAAGGUACUGGUGUGGC__ACUGGUGCA
.((((..............(((((.....)))))((((....)))).(((((......))))).......))))...((((..((.......))..)))). (-22.59 = -24.32 +   1.72)

alignment

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secondary structure

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dotplot

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Window 0

Location 18,877,267 – 18,877,365
Length 98
Sequences 6
Columns 101
Reading direction reverse
Mean pairwise identity 79.19
Mean single sequence MFE -34.47
Consensus MFE -20.68
Energy contribution -22.43
Covariance contribution 1.75
Combinations/Pair 1.17
Mean z-score -2.20
Structure conservation index 0.60
SVM decision value 1.01
SVM RNA-class probability 0.899229
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18877267 98 - 22407834
UGCACCAGU--GCCACACCAGUUCCCUACCCUUGCGGAGCGACGAGCUAGUCGCACUGCUCUCGCAGGCAGAAUGUAUCUGCGA-GAUACAUUUCGGGGUG
.(((....)--)).............((((((.((((.(((((......))))).))))((((((((((.....))..))))))-))........)))))) ( -36.40)
>DroGri_CAF1 1232 86 - 1
CGCA-CACACACUCACACACGCACAU----CUAGCA-AACC-CCCGCUAGCUGUGCUGCUCUAACAC----AA-GAAGCAACUCAACA-AUGUGGAAG--G
....-......((..((((.(((((.----(((((.-....-...))))).)))))((((((.....----.)-).))))........-.))))..))--. ( -25.10)
>DroSec_CAF1 744 97 - 1
UGCACCAGU--GCCACACCAGUACCCUACCCUUGCGGAGCGACGAGCUAGUCGCACUGCUCUCGCAGGCAGAA-GUAUCUGCGA-GAUACAUUUCGGGGUG
.(((....)--))........((((((......((((.(((((......))))).))))(((((((((.....-...)))))))-))........)))))) ( -37.70)
>DroSim_CAF1 744 97 - 1
UGCACCAGU--GCCACACCAGUACCCUACCCUUGCGGAGCGAAGAGCUAGUCGCACUGCUCUCGCAGGCAGAA-GUAUCUGCGA-GAUACAUUUCGGGGUG
.(((....)--))........((((((......((((.((((........)))).))))(((((((((.....-...)))))))-))........)))))) ( -33.40)
>DroEre_CAF1 680 97 - 1
UGCACCAGU--GCCAUACCAGUACCUUACCCUUGCGGAGCGACGAGCUAGUCGCACUGCUCUCGCAGGCAGAA-GUAUCUGCGA-GAUACAUUUCGGGGUG
.(((....)--)).............((((((.((((.(((((......))))).))))(((((((((.....-...)))))))-))........)))))) ( -37.10)
>DroYak_CAF1 748 97 - 1
UGCACCAGU--GCCACACCAGUACCUUACCCUUGCGGAGCGACGAGCUAGUCGCACUGCUCUCGCAGGCAGAA-GUAUCUGCGA-GAUACUUUUCGGGGUG
.(((....)--)).............((((((.((((.(((((......))))).))))(((((((((.....-...)))))))-))........)))))) ( -37.10)
>consensus
UGCACCAGU__GCCACACCAGUACCCUACCCUUGCGGAGCGACGAGCUAGUCGCACUGCUCUCGCAGGCAGAA_GUAUCUGCGA_GAUACAUUUCGGGGUG
..........................((((((.((((.(((((......))))).))))(((((((((.........))))))).))........)))))) (-20.68 = -22.43 +   1.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:19:15 2006