Locus 7247

Sequence ID 2L_DroMel_CAF1
Location 20,280,191 – 20,280,307
Length 116
Max. P 0.994910
window11603 window11604

overview

Window 3

Location 20,280,191 – 20,280,307
Length 116
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 87.25
Mean single sequence MFE -19.86
Consensus MFE -17.03
Energy contribution -17.07
Covariance contribution 0.04
Combinations/Pair 1.14
Mean z-score -2.45
Structure conservation index 0.86
SVM decision value 2.52
SVM RNA-class probability 0.994910
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20280191 116 + 22407834
CCAUUUUCACUUCCACUUCCGCCGCAC----ACUCACACACACAUGCACACUACUAGGACGUGCAUGCAUAUAUAUCCAUACACAUACAUAUGCAUGAGUCCUUCACAAUGUUGUCUGAA
...........................----..(((.(((.((((..........(((((...(((((((((.(((........))).))))))))).))))).....))))))).))). ( -23.96)
>DroSec_CAF1 30949 118 + 1
CCAUUUUCACUUCCACUUCCGCCGCACUCACACACACACACACAUGCACACUACUAGGACGUGCAUGCAUA--UAUCAAUACACAUACAUAUGCAUGAGUCCUUCACAAUGUUGUCUGAA
..................................((.(((.((((..........(((((...((((((((--(..............))))))))).))))).....))))))).)).. ( -21.00)
>DroSim_CAF1 29797 116 + 1
CCAUUUUCACUUCCACUUCCGCCGCACUCACACAC--ACACACAUGCACACUACUAGGACGUGCAUGCAUA--UAUCAAUACACAUACAUAUGCAUGAGUCCUUCACAAUGUUGUCUGAA
................................((.--(((.((((..........(((((...((((((((--(..............))))))))).))))).....))))))).)).. ( -21.00)
>DroEre_CAF1 15981 102 + 1
CCAUUUUCACUUCCACUUCCGCCGCAC----------ACACACAGGCGCACUAC-AGGAUGUGCCUGCAUA--UAC-----CACAUACAUAUGCAUGAGUCCUUCACAAUGUUGUCUGAA
...........................----------.....((((((((....-(((((...(.((((((--(..-----.......))))))).).)))))......)).)))))).. ( -19.00)
>DroYak_CAF1 11218 101 + 1
CCAUUUUCACUUCCACUUCCGCCGCAC----------ACACACAUACACACUACUAGGAUGUGCCUGCAU----AC-----UACAUACAUAUGCAUGAGUCCUUCACAAUGUUGUCUGAA
...........................----------.((.(((.(((.......(((((...(.(((((----(.-----........)))))).).)))))......)))))).)).. ( -14.32)
>consensus
CCAUUUUCACUUCCACUUCCGCCGCAC____AC_C__ACACACAUGCACACUACUAGGACGUGCAUGCAUA__UAUC_AUACACAUACAUAUGCAUGAGUCCUUCACAAUGUUGUCUGAA
......................................((.(((.(((.......(((((...((((((((..................)))))))).)))))......)))))).)).. (-17.03 = -17.07 +   0.04)

alignment

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secondary structure

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dotplot

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Window 4

Location 20,280,191 – 20,280,307
Length 116
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 87.25
Mean single sequence MFE -32.14
Consensus MFE -22.48
Energy contribution -22.44
Covariance contribution -0.04
Combinations/Pair 1.10
Mean z-score -2.10
Structure conservation index 0.70
SVM decision value 0.44
SVM RNA-class probability 0.736024
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20280191 116 - 22407834
UUCAGACAACAUUGUGAAGGACUCAUGCAUAUGUAUGUGUAUGGAUAUAUAUGCAUGCACGUCCUAGUAGUGUGCAUGUGUGUGUGAGU----GUGCGGCGGAAGUGGAAGUGAAAAUGG
.........((((.....(.(((((((((((((((((((((....)))))))))(((((((.(......))))))))))))))))))))----.).(.((....)).).......)))). ( -35.40)
>DroSec_CAF1 30949 118 - 1
UUCAGACAACAUUGUGAAGGACUCAUGCAUAUGUAUGUGUAUUGAUA--UAUGCAUGCACGUCCUAGUAGUGUGCAUGUGUGUGUGUGUGUGAGUGCGGCGGAAGUGGAAGUGAAAAUGG
((((.....((((.((..(.(((((((((((..((((((((....))--)))(((((((((.(......)))))))))))))..))))))))))).)..))..))))....))))..... ( -36.90)
>DroSim_CAF1 29797 116 - 1
UUCAGACAACAUUGUGAAGGACUCAUGCAUAUGUAUGUGUAUUGAUA--UAUGCAUGCACGUCCUAGUAGUGUGCAUGUGUGU--GUGUGUGAGUGCGGCGGAAGUGGAAGUGAAAAUGG
((((.....((((.((..(.(((((((((((..(((((((....)))--)))(((((((((.(......)))))))))))..)--)))))))))).)..))..))))....))))..... ( -35.60)
>DroEre_CAF1 15981 102 - 1
UUCAGACAACAUUGUGAAGGACUCAUGCAUAUGUAUGUG-----GUA--UAUGCAGGCACAUCCU-GUAGUGCGCCUGUGUGU----------GUGCGGCGGAAGUGGAAGUGAAAAUGG
((((.(......).))))....((((...(((...(((.-----(((--(((((((((.(((...-...))).))))))..))----------)))).)))...)))...))))...... ( -27.70)
>DroYak_CAF1 11218 101 - 1
UUCAGACAACAUUGUGAAGGACUCAUGCAUAUGUAUGUA-----GU----AUGCAGGCACAUCCUAGUAGUGUGUAUGUGUGU----------GUGCGGCGGAAGUGGAAGUGAAAAUGG
.........((((..........((((((((((((..((-----.(----((..(((.....))).))).))..)))))))))----------)))(.((....)).).......)))). ( -25.10)
>consensus
UUCAGACAACAUUGUGAAGGACUCAUGCAUAUGUAUGUGUAU_GAUA__UAUGCAUGCACGUCCUAGUAGUGUGCAUGUGUGU__G_GU____GUGCGGCGGAAGUGGAAGUGAAAAUGG
((((.....((((.((..(.((.(((((....)))))............((((((((((((.(......)))))))))))))...........)).)..))..))))....))))..... (-22.48 = -22.44 +  -0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:31:30 2006