Locus 8631

Sequence ID X_DroMel_CAF1
Location 21,702,300 – 21,702,498
Length 198
Max. P 0.995074
window14187 window14188 window14189

overview

Window 7

Location 21,702,300 – 21,702,402
Length 102
Sequences 3
Columns 102
Reading direction forward
Mean pairwise identity 88.49
Mean single sequence MFE -24.10
Consensus MFE -23.66
Energy contribution -23.00
Covariance contribution -0.66
Combinations/Pair 1.07
Mean z-score -2.73
Structure conservation index 0.98
SVM decision value 2.54
SVM RNA-class probability 0.995074
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21702300 102 + 22224390
AUCGGAUAUUCUAUCCACUAAAAGGGCCAAGAAGGCUGCUAAAGUUACGCAAGAAAUCUGAGUAAAAAGUGUGCUUAUUUGCACACUACUAUACUCUCUAUA
...(((((...)))))........((((.....))))..........(....)......(((((...(((((((......)))))))....)))))...... ( -26.20)
>DroSec_CAF1 6946 100 + 1
AUCGGAUAUUCUAUCCACUAAAAGGGCCAAUAGGGCUGCUAAAGUUAUACAAGAAAUCUGAGUAAAAAGUUUGCUUAUUUGCAAACUACUACACUCUGUA--
.((((((.((((....(((...((((((.....)))).))..)))......))))))))))(((...(((((((......)))))))..)))........-- ( -22.50)
>DroSim_CAF1 3749 100 + 1
AUCGGAUAUUCUAUCCACUAAAAGGGCCAAUAGGGCUGCUAAAGUUAUACAAGAAAUCUGAGUAAAAAGUUUGCUUAUUUGCAAACUAGUACANNNNNNN--
.((((((.((((....(((...((((((.....)))).))..)))......))))))))))(((...(((((((......)))))))..)))........-- ( -23.60)
>consensus
AUCGGAUAUUCUAUCCACUAAAAGGGCCAAUAGGGCUGCUAAAGUUAUACAAGAAAUCUGAGUAAAAAGUUUGCUUAUUUGCAAACUACUACACUCU_UA__
.((((((.((((....(((...((((((.....)))).))..)))......))))))))))(((...(((((((......)))))))..))).......... (-23.66 = -23.00 +  -0.66)

alignment

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secondary structure

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dotplot

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Window 8

Location 21,702,300 – 21,702,402
Length 102
Sequences 3
Columns 102
Reading direction reverse
Mean pairwise identity 88.49
Mean single sequence MFE -22.93
Consensus MFE -20.76
Energy contribution -21.10
Covariance contribution 0.34
Combinations/Pair 1.08
Mean z-score -1.74
Structure conservation index 0.91
SVM decision value 0.51
SVM RNA-class probability 0.763727
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21702300 102 - 22224390
UAUAGAGAGUAUAGUAGUGUGCAAAUAAGCACACUUUUUACUCAGAUUUCUUGCGUAACUUUAGCAGCCUUCUUGGCCCUUUUAGUGGAUAGAAUAUCCGAU
......(((((....(((((((......)))))))...)))))........(((.........)))(((.....)))........((((((...)))))).. ( -27.10)
>DroSec_CAF1 6946 100 - 1
--UACAGAGUGUAGUAGUUUGCAAAUAAGCAAACUUUUUACUCAGAUUUCUUGUAUAACUUUAGCAGCCCUAUUGGCCCUUUUAGUGGAUAGAAUAUCCGAU
--(((((((((....(((((((......)))))))...)))))((....))))))..(((..((..(((.....)))..))..)))(((((...)))))... ( -22.90)
>DroSim_CAF1 3749 100 - 1
--NNNNNNNUGUACUAGUUUGCAAAUAAGCAAACUUUUUACUCAGAUUUCUUGUAUAACUUUAGCAGCCCUAUUGGCCCUUUUAGUGGAUAGAAUAUCCGAU
--........(((..(((((((......)))))))...)))((.(((((((.((...(((..((..(((.....)))..))..)))..)))))).))).)). ( -18.80)
>consensus
__UA_AGAGUGUAGUAGUUUGCAAAUAAGCAAACUUUUUACUCAGAUUUCUUGUAUAACUUUAGCAGCCCUAUUGGCCCUUUUAGUGGAUAGAAUAUCCGAU
......(((((....(((((((......)))))))...)))))..............(((..((..(((.....)))..))..)))(((((...)))))... (-20.76 = -21.10 +   0.34)

alignment

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secondary structure

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dotplot

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Window 9

Location 21,702,402 – 21,702,498
Length 96
Sequences 3
Columns 107
Reading direction forward
Mean pairwise identity 75.56
Mean single sequence MFE -20.20
Consensus MFE -14.19
Energy contribution -15.03
Covariance contribution 0.84
Combinations/Pair 1.12
Mean z-score -1.27
Structure conservation index 0.70
SVM decision value 0.05
SVM RNA-class probability 0.558067
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21702402 96 + 22224390
UUGUGGUUAAAAGACUGGCUUUAG----------UAGUUAAGGCAAGU-UGUUGAAUACUGAAAGUAAAAGCUUUAAAAGUAUUAGACGAAUCCGUUUGUCAGAUUU
............((((.(((((((----------...))))))).)))-)....((((((.(((((....)))))...)))))).((((((....))))))...... ( -20.40)
>DroSec_CAF1 7046 107 + 1
UUAUGGUUAAAAGACUGGCUUUAGUGAUUCUUUGUAGUUAAGGCAAGUUUGUUGGAUACUAAAAGUAAAAGCUUUAAAAGUAUUAGACGAAUCCCUCUGCCAGAUUU
..............(((((...((.((((((((((.......)))))...(((.((((((.(((((....)))))...)))))).)))))))).))..))))).... ( -25.20)
>DroEre_CAF1 4639 83 + 1
UUAUGGUUAAAAGACUGGCCUUA-----------------------CUUUGUUAAGUACUGAA-GUAAUAGCUUUAAAAAUAUUAGACGAAUCCCUCUGCCAGGUUU
..............(((((....-----------------------.((((((.((((.((((-((....))))))....)))).)))))).......))))).... ( -15.00)
>consensus
UUAUGGUUAAAAGACUGGCUUUAG__________UAGUUAAGGCAAGUUUGUUGAAUACUGAAAGUAAAAGCUUUAAAAGUAUUAGACGAAUCCCUCUGCCAGAUUU
..............(((((.................((....))..(((((((.((((((.(((((....)))))...)))))).)))))))......))))).... (-14.19 = -15.03 +   0.84)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:08:58 2006