Locus 4776

Sequence ID X_DroMel_CAF1
Location 12,410,212 – 12,410,317
Length 105
Max. P 0.978051
window7818 window7819

overview

Window 8

Location 12,410,212 – 12,410,317
Length 105
Sequences 5
Columns 106
Reading direction forward
Mean pairwise identity 84.99
Mean single sequence MFE -21.24
Consensus MFE -15.90
Energy contribution -15.74
Covariance contribution -0.16
Combinations/Pair 1.05
Mean z-score -2.67
Structure conservation index 0.75
SVM decision value 1.81
SVM RNA-class probability 0.978051
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12410212 105 + 22224390
GCACUAGUGCACUUUCCC-AAAGGCAUUCUAAUUCUAAUUCCAACGAACCACUGUAUUCAGUUUCAGUUUACUGCAGUCGAACUUCACUUGACUGCAACUUCGUUG
.....(((((.(((....-.)))))))).............(((((((..((((....))))..........(((((((((.......)))))))))..))))))) ( -25.40)
>DroSec_CAF1 4359 106 + 1
ACACUAGUGCAUUUUUCCAAAAGGCAUUCUAAUUCUAAUUCCAACGAACCACUGUAUUCAGUUUCAGUUUACUGCAGUCGAACUUCACUUCACUGCAACUUCGUUG
.....(((((.((((....))))))))).............(((((((..((((....))))..........((((((.(((......)))))))))..))))))) ( -20.30)
>DroSim_CAF1 4405 94 + 1
ACACUAGUGCACUUUU------------CUAAUUCUAAUUCCAACGAACCACUGUAUUCAGUUUCAGUUUGCUGCAGUCGAACUUCACUUCACUGCAACUUCGUUG
................------------.............(((((((..((((....))))..........((((((.(((......)))))))))..))))))) ( -17.60)
>DroEre_CAF1 4375 99 + 1
GUACUAAUACUAUUUUCA-AAUAGCAU------UCUAAUUCCAACGAACCACUGUAUUCAGUCUCAGUUUACUGCAGUCGAACUUCACUCGACUGCAACUUCGUUG
.........(((((....-)))))...------........(((((((..((((....))))..........(((((((((.......)))))))))..))))))) ( -24.00)
>DroYak_CAF1 4317 99 + 1
GCACUAGUGCUAUUUCCA-AAAUGCAU------UCCAAUUCCAACGAACCACUGUAUUCAGUUUCAGUUUUCUGCAGUCGAACUUCACUUAACUGCAACUUCGUUG
(((....)))........-........------........(((((((..((((....))))..........((((((..(.......)..))))))..))))))) ( -18.90)
>consensus
GCACUAGUGCAAUUUUCA_AAAGGCAU_CUAAUUCUAAUUCCAACGAACCACUGUAUUCAGUUUCAGUUUACUGCAGUCGAACUUCACUUCACUGCAACUUCGUUG
.........................................(((((((..((((....))))..........((((((.((.......)).))))))..))))))) (-15.90 = -15.74 +  -0.16)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 9

Location 12,410,212 – 12,410,317
Length 105
Sequences 5
Columns 106
Reading direction reverse
Mean pairwise identity 84.99
Mean single sequence MFE -25.90
Consensus MFE -19.38
Energy contribution -19.14
Covariance contribution -0.24
Combinations/Pair 1.14
Mean z-score -1.99
Structure conservation index 0.75
SVM decision value 0.73
SVM RNA-class probability 0.834096
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12410212 105 - 22224390
CAACGAAGUUGCAGUCAAGUGAAGUUCGACUGCAGUAAACUGAAACUGAAUACAGUGGUUCGUUGGAAUUAGAAUUAGAAUGCCUUU-GGGAAAGUGCACUAGUGC
(((((((.((((((((...........)))))))).........((((....))))..)))))))........(((((..((((((.-....))).)))))))).. ( -25.90)
>DroSec_CAF1 4359 106 - 1
CAACGAAGUUGCAGUGAAGUGAAGUUCGACUGCAGUAAACUGAAACUGAAUACAGUGGUUCGUUGGAAUUAGAAUUAGAAUGCCUUUUGGAAAAAUGCACUAGUGU
(((((((.((((((((((......))).))))))).........((((....))))..)))))))........(((((..(((..(((....))).)))))))).. ( -24.80)
>DroSim_CAF1 4405 94 - 1
CAACGAAGUUGCAGUGAAGUGAAGUUCGACUGCAGCAAACUGAAACUGAAUACAGUGGUUCGUUGGAAUUAGAAUUAG------------AAAAGUGCACUAGUGU
((((((((((((((((((......))).))))))))........((((....))))..)))))))........(((((------------.........))))).. ( -24.40)
>DroEre_CAF1 4375 99 - 1
CAACGAAGUUGCAGUCGAGUGAAGUUCGACUGCAGUAAACUGAGACUGAAUACAGUGGUUCGUUGGAAUUAGA------AUGCUAUU-UGAAAAUAGUAUUAGUAC
(((((((.(((((((((((.....))))))))))).........((((....))))..))))))).......(------((((((((-....)))))))))..... ( -32.20)
>DroYak_CAF1 4317 99 - 1
CAACGAAGUUGCAGUUAAGUGAAGUUCGACUGCAGAAAACUGAAACUGAAUACAGUGGUUCGUUGGAAUUGGA------AUGCAUUU-UGGAAAUAGCACUAGUGC
(((((((.(((((((..((.....))..))))))).........((((....))))..)))))))..(((((.------.((((((.-....))).)))))))).. ( -22.20)
>consensus
CAACGAAGUUGCAGUCAAGUGAAGUUCGACUGCAGUAAACUGAAACUGAAUACAGUGGUUCGUUGGAAUUAGAAUUAG_AUGCCUUU_GGAAAAGUGCACUAGUGC
(((((((.((((((((...........)))))))).........((((....))))..)))))))...............................(((....))) (-19.38 = -19.14 +  -0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:32:54 2006