Locus 3396

Sequence ID 3R_DroMel_CAF1
Location 9,193,323 – 9,193,440
Length 117
Max. P 0.534550
window5449

overview

Window 9

Location 9,193,323 – 9,193,440
Length 117
Sequences 5
Columns 118
Reading direction reverse
Mean pairwise identity 86.10
Mean single sequence MFE -29.22
Consensus MFE -19.58
Energy contribution -19.86
Covariance contribution 0.28
Combinations/Pair 1.07
Mean z-score -1.80
Structure conservation index 0.67
SVM decision value 0.00
SVM RNA-class probability 0.534550
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9193323 117 - 27905053
CAAAUACAUAUGUAUAUUAUUUGGAUGCCA-AUUGAUAUGAUUUCCUAUACCUAUUGCAAAUGUGAUAGAUAGGGCGGCUAAGUCGUUUCUUUUGCGAUGGGCGGCAUUUUCAGUGGG
......(((...(((((((.((((...)))-).)))))))....(((((..((((..(....)..)))))))))((.(((..(((((.......))))).))).)).......))).. ( -30.40)
>DroSec_CAF1 30505 106 - 1
UAA--------GAAUAUUAUUUGGAUGCCAAAUUAGUAUGAUUUCCUAUACCUAUUGCAAAUGUGAU----AGGGCGGCUAAGUCGUAUCUCUUGCGAUGGGCGUCAUUUUCAGUGGG
...--------..(((((((((((...))))).)))))).....(((((.(((((..(....)..))----)))(((.((..((((((.....)))))))).)))........))))) ( -29.00)
>DroSim_CAF1 29370 106 - 1
UAA--------GAAUGUUAUUUGGAUGCCAAAUUAGUAUGAUUUCCUAUACCUAUUGCAAAUGUAAU----AGGGCGGCUAAGUCGUAUCUUUUGCGAUGGGCGGCAUUUUCAGUGGG
...--------..((...((((((...))))))..)).......(((((.((((((((....)))))----)))((.(((..((((((.....)))))).))).)).......))))) ( -30.60)
>DroEre_CAF1 35753 102 - 1
UAU--------GUAUAUUAUUUAGAUGCCAAAUUAAAAUGAUUUUCUGUACCUAUUGCAAAUGUAAA----AGGGCGGCUAAGUCGUAUCUCUUGCGAUGGGCGGCAUUUUCAG----
...--------...........(((((((........(((((((.((((.(((.((((....)))).----)))))))..))))))).......((.....)))))))))....---- ( -24.60)
>DroYak_CAF1 29120 106 - 1
UAU--------GUAUAUUAUUUGGAUGCCGAAUUAAAAGGAUUUCCUGUACCUAUUGCAAAUGUAAU----AGGGCGGCUAAGUCGUAUCUCUUUCGAUGGGCGGCAUUUUCAGUGGG
...--------.....(((((.((((((((.((..(((((((........((((((((....)))))----)))(((((...)))))))).))))..))...))))))))..))))). ( -31.50)
>consensus
UAA________GUAUAUUAUUUGGAUGCCAAAUUAAUAUGAUUUCCUAUACCUAUUGCAAAUGUAAU____AGGGCGGCUAAGUCGUAUCUCUUGCGAUGGGCGGCAUUUUCAGUGGG
......................((((((((((((.....)))))......((((((((((...........((((((((...))))).))).)))))))))).)))))))........ (-19.58 = -19.86 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:59:55 2006