Locus 1865

Sequence ID 3R_DroMel_CAF1
Location 5,356,091 – 5,356,258
Length 167
Max. P 0.997649
window3067 window3068

overview

Window 7

Location 5,356,091 – 5,356,185
Length 94
Sequences 5
Columns 94
Reading direction forward
Mean pairwise identity 97.23
Mean single sequence MFE -11.26
Consensus MFE -10.88
Energy contribution -10.84
Covariance contribution -0.04
Combinations/Pair 1.06
Mean z-score -1.93
Structure conservation index 0.97
SVM decision value 2.90
SVM RNA-class probability 0.997649
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5356091 94 + 27905053
CUAUUUUAAAACAAACAACAAGGGAAAGUCUCUAAAAAUAAGAAUGUCUCAACCAAACCACGGAGAAACAAUUUGUUUCAGACAAAUACAAAUA
....................((((.....))))...........(((((...((.......)).(((((.....)))))))))).......... ( -12.40)
>DroSec_CAF1 15421 94 + 1
CUAUUUUAAAACAAUCAACAAGGGAAAGUCUCUAAAAAUAAGAAUGUCUCAACCAAACCACGGAGAAACAAUUUGUUUCAGACAAAUACAAAUA
....................((((.....))))...........(((((...((.......)).(((((.....)))))))))).......... ( -12.40)
>DroSim_CAF1 14870 94 + 1
CUAUUUUAAAACAAUCAACAAGGGAAAGUCUCUAAAAAUAAGAAUGUCUCAACCAAACCACGGAGAAACAAUUUGUUUCAGACAAAUACAAAUA
....................((((.....))))...........(((((...((.......)).(((((.....)))))))))).......... ( -12.40)
>DroEre_CAF1 15518 94 + 1
CUAUUUUAAAACAAACAACAAGGGAAAGUCUCUAAAAAUAAAAAUGUCUCAACCAAACCACGGAAAAACAAUUUGUUUUAGACAAAUACAAAUA
....(((((((((((.....((((.....))))...................((.......))........)))))))))))............ ( -11.10)
>DroYak_CAF1 16544 94 + 1
CUAUUUUAAAACAAACAACAAGGGAAAGUCUCUAAAAAUAAAAAUGUCUCAACCAAGCCACGGAAAAACAAUUUGUUUCAGACAAAUACAAAUA
....................((((.....))))...........(((((...((.......))..((((.....)))).))))).......... (  -8.00)
>consensus
CUAUUUUAAAACAAACAACAAGGGAAAGUCUCUAAAAAUAAGAAUGUCUCAACCAAACCACGGAGAAACAAUUUGUUUCAGACAAAUACAAAUA
....................((((.....))))...........(((((...((.......)).(((((.....)))))))))).......... (-10.88 = -10.84 +  -0.04)

alignment

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secondary structure

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dotplot

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Window 8

Location 5,356,145 – 5,356,258
Length 113
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 89.95
Mean single sequence MFE -23.74
Consensus MFE -18.80
Energy contribution -19.36
Covariance contribution 0.56
Combinations/Pair 1.11
Mean z-score -1.38
Structure conservation index 0.79
SVM decision value -0.05
SVM RNA-class probability 0.508009
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5356145 113 - 27905053
UGGUCGUAAAAACG------UUUUAAAAAGUACUUUCUAGAAACGAUUUCUUUCCGGCAUUUGUUUGUUUUAAGCAU-CGUAUUUGUAUUUGUCUGAAACAAAUUGUUUCUCCGUGGUUU
....(((....)))------...........(((....(((((((((((.((((.((((..((((((...)))))).-............)))).)))).)))))))))))....))).. ( -18.56)
>DroSec_CAF1 15475 120 - 1
UGGUCGUAAAAACGGUUUUGUUUUAAAAAGUACUUUCUAGAAACGAUUUGUUUCCGGCAUUUGUUUGUUUUAGGCAUUUAUAUUUGUAUUUGUCUGAAACAAAUUGUUUCUCCGUGGUUU
...........((((((((......)))).........((((((((((((((((.((((......))))..(((((..(((....)))..)))))))))))))))))))))))))..... ( -28.60)
>DroSim_CAF1 14924 120 - 1
UGGUCGUAAAAACGGUUUUGUUUUAAAAAGUACUUUCUAGAAACGAUUUGUUUCCGGCAUUUGUUUGUUUUAAGCAUUCGUAUUUGUAUUUGUCUGAAACAAAUUGUUUCUCCGUGGUUU
...........((((((((......)))).........((((((((((((((((.((((..((..(((.....)))..))..........)))).))))))))))))))))))))..... ( -27.10)
>DroEre_CAF1 15572 118 - 1
UGGUCGUAAAAACUAU-UUGUUUUAAAAAGUACUUUCUAGAAACGAUUUGUUUUCGGCAUUUUUUUGUUUUAAGUAU-CGUAUUUGUAUUUGUCUAAAACAAAUUGUUUUUCCGUGGUUU
....((.((((((.((-((((((((..((((((.....(((.(((((...(((..((((......))))..))).))-))).)))))))))...)))))))))).)))))).))...... ( -22.50)
>DroYak_CAF1 16598 118 - 1
UGGUCGUUAAAACUAU-UUGUUUACAAGAGUACUUUCUAGAAACUUAUUGUUUUCGGCAUUUGUUUGUUUAAAGUAU-CGUAUUUGUAUUUGUCUGAAACAAAUUGUUUUUCCGUGGCUU
.(((((..(((((.((-((((((...((((((((((..(.((((....(((.....)))...)))).)..)))))))-..............))).)))))))).)))))....))))). ( -21.93)
>consensus
UGGUCGUAAAAACGAU_UUGUUUUAAAAAGUACUUUCUAGAAACGAUUUGUUUCCGGCAUUUGUUUGUUUUAAGCAU_CGUAUUUGUAUUUGUCUGAAACAAAUUGUUUCUCCGUGGUUU
.((.....(((((......)))))..............((((((((((((((((.((((...............................)))).))))))))))))))))))....... (-18.80 = -19.36 +   0.56)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:21:27 2006