Locus 1112

Sequence ID 2R_DroMel_CAF1
Location 4,443,957 – 4,444,067
Length 110
Max. P 0.733100
window1964

overview

Window 4

Location 4,443,957 – 4,444,067
Length 110
Sequences 6
Columns 118
Reading direction forward
Mean pairwise identity 78.81
Mean single sequence MFE -28.48
Consensus MFE -20.16
Energy contribution -19.75
Covariance contribution -0.41
Combinations/Pair 1.36
Mean z-score -1.33
Structure conservation index 0.71
SVM decision value 0.43
SVM RNA-class probability 0.733100
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4443957 110 + 20766785
AAAAUGAGAUUCGCCCGGAUGGCAAAACGGCGACCAUUAAGCCAUGCCACAUGAGUGUGGCCCGGAUUUCAUGUAUACGAGGGUAAUUCAU-----UAACUGA-AACUU--AAAAAUA
...((((((((((((.....))).....(((.........)))..((((((....))))))..)))))))))........((((..((((.-----....)))-)))))--....... ( -27.80)
>DroVir_CAF1 907 112 + 1
AGAACGAAAUACGGCCGGAUGGCAAAACGGCGACCAUAAAACCCUGUCAUAUGAGUGUGGCGCGUAUAUCCUGUAUUCGUGGGCAAGUUUG-----UGUACGU-AGCAUCCAAGAGGA
.....(...((((((((..........))))...((((((....((((.((((((((..(..........)..))))))))))))..))))-----))..)))-).).(((....))) ( -26.80)
>DroPse_CAF1 971 116 + 1
AGAAUGAAAUUCGUCCGGAUGGUAAAACAGCGACCAUCAAACCAUGCCAUAUGAGCGUGGCCCGCAUUUCAUGUAUUCGAGGGUAAGUAAUUUCGCUAGUCAAGUACUU--CAACGAA
.(((((((((.((....((((((.........))))))...(((((((....).))))))..)).)))))))(((((.((.((..((....))..))..)).))))).)--)...... ( -27.40)
>DroSim_CAF1 702 110 + 1
AAAAUGAGAUUCGCCCGGAUGGCAAAACGGCGACCAUCAAGCCAUGCCACAUGAGUGUGGCCCGGAUUUCAUGUAUACGAGGGUAAUUCUU-----UAACCGA-AACUU--AAAAAUA
....((((.((((.(((((((((.....(....)......)))))((((((....)))))))))).............(((((....))))-----)...)))-).)))--)...... ( -29.00)
>DroEre_CAF1 388 110 + 1
AAAAUGAGAUCCGCCCAGAUGGAAAAACGGCGACUAUUAAGCCGUGCCACAUGAGUGUGGCCAGGAUUUCAUGUAUACGAGGGUAAUUCUU-----UUAUCAA-AAGAA--CAAAAUA
...(((((((((..((....))....(((((.........)))))((((((....))))))..))))))))).........(((((.....-----)))))..-.....--....... ( -31.40)
>DroYak_CAF1 700 111 + 1
AAAAUGAGAUCCGCCCAGAUGGAAAAACGGCGACUAUUAAGCCAUGCCACAUGAGUGUGGCCAGGAUUUCAUGUAUACGAGGGUAAUUCUUU----UUAUCGA-AACAA--CAAAAUA
...(((((((((..((....))......(((.........)))..((((((....))))))..))))))))).........(((((......----)))))..-.....--....... ( -28.50)
>consensus
AAAAUGAGAUUCGCCCGGAUGGCAAAACGGCGACCAUUAAGCCAUGCCACAUGAGUGUGGCCCGGAUUUCAUGUAUACGAGGGUAAUUCUU_____UAAUCGA_AACAU__AAAAAUA
...(((((((((((...(((((...........)))))..))...((((((....))))))..))))))))).............................................. (-20.16 = -19.75 +  -0.41)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:56:49 2006