Locus 802

Sequence ID 3R_DroMel_CAF1
Location 2,722,528 – 2,722,647
Length 119
Max. P 0.918911
window1277 window1278

overview

Window 7

Location 2,722,528 – 2,722,647
Length 119
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 89.52
Mean single sequence MFE -18.43
Consensus MFE -15.12
Energy contribution -15.43
Covariance contribution 0.31
Combinations/Pair 1.14
Mean z-score -2.79
Structure conservation index 0.82
SVM decision value 1.12
SVM RNA-class probability 0.918911
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2722528 119 + 27905053
-AACGAAACGCUCUAUAAAGUUACAUGUUUUGUAUUAGGCUUGUUUAAAUAUAUAUAUCUACAUAUAAACAUAUGAUACUUUAUAGUUUGCCAUUCCGUCCUCCUUUUUCUUUCUCCUUC
-...(((..((.(((((((((..((((((((((((((((..(((........)))..)))).))))))).)))))..)))))))))...))..)))........................ ( -20.80)
>DroSec_CAF1 32830 119 + 1
-AACGAAACGCUCUAUAAAGUUACAUGUUUUGUAUUAGGCUUGUUUAAAUAUAUAUAUCUACAUAUAAACAUAUGAUACUUUAUAGUUUGCCAUUCCGUCCUCCUGUUUCUUUCUCCUUC
-...(((((((.(((((((((..((((((((((((((((..(((........)))..)))).))))))).)))))..)))))))))...))......(....)..))))).......... ( -22.30)
>DroSim_CAF1 33954 119 + 1
-AACGAAACGCUCUAUAAAGUUACAUGUUUUGUAUUAGGCUUGUUUAAAUAUAUAUAUCUACAUAUAAACAUAUGAUACUUUAUAGUUUGCCAUUCCGUCCUCCUUUUUCUUUCUCCUUC
-...(((..((.(((((((((..((((((((((((((((..(((........)))..)))).))))))).)))))..)))))))))...))..)))........................ ( -20.80)
>DroEre_CAF1 34068 117 + 1
-AACGAAACACUCUAUAAAGUUACAUGUUUUGUAUUAGGCUUGUUUAAACAUAUAUAUCUACAUAUAAACAUAUGAUACUUUAUAGUUUUCCAUCCCGUCCUCCUU--UCUUUCUCCUUC
-...((((....(((((((((..((((((((((((((((..(((........)))..)))).))))))).)))))..))))))))).))))...............--............ ( -19.10)
>DroYak_CAF1 33878 116 + 1
-AACGAAACACUCUAUAAAGUUACAUGUUUUGUAUUAGGCUUGU-UAAAUAUAUAUAUCUACAUAUAAACAUAUCAUACUUUAUAGUUUUCCAUUCCGUUCUCCUU--UUUUUCUCCUUC
-...((((....(((((((((...(((((((((((((((..(((-.......)))..)))).))))))).))))...))))))))).))))...............--............ ( -16.30)
>DroAna_CAF1 32284 116 + 1
AAACGGAACGCUCUACAAAGUUACGAGUUUUAUAUUGGGUUUGUUUAAUU--AUAUAUCUACAUAUAAACAUACGAUGCUUUACUAUUUUCUCUCCCAUCCUCUUA--UCCUUCUCUUUC
....(((..(((......)))...(((.((((((((((((.(((......--))).))))).))))))).....((((..................)))))))...--)))......... ( -11.27)
>consensus
_AACGAAACGCUCUAUAAAGUUACAUGUUUUGUAUUAGGCUUGUUUAAAUAUAUAUAUCUACAUAUAAACAUAUGAUACUUUAUAGUUUGCCAUUCCGUCCUCCUU__UCUUUCUCCUUC
............(((((((((..((((((((((((((((..(((........)))..)))).))))))).)))))..))))))))).................................. (-15.12 = -15.43 +   0.31) 

alignment

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secondary structure

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dotplot

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Window 8

Location 2,722,528 – 2,722,647
Length 119
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 89.52
Mean single sequence MFE -21.77
Consensus MFE -19.36
Energy contribution -19.37
Covariance contribution 0.01
Combinations/Pair 1.30
Mean z-score -1.79
Structure conservation index 0.89
SVM decision value 1.00
SVM RNA-class probability 0.897493
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2722528 119 - 27905053
GAAGGAGAAAGAAAAAGGAGGACGGAAUGGCAAACUAUAAAGUAUCAUAUGUUUAUAUGUAGAUAUAUAUAUUUAAACAAGCCUAAUACAAAACAUGUAACUUUAUAGAGCGUUUCGUU-
....................(((((((((.(...(((((((((......((((((.(((((......))))).)))))).......((((.....))))))))))))).))))))))))- ( -24.90)
>DroSec_CAF1 32830 119 - 1
GAAGGAGAAAGAAACAGGAGGACGGAAUGGCAAACUAUAAAGUAUCAUAUGUUUAUAUGUAGAUAUAUAUAUUUAAACAAGCCUAAUACAAAACAUGUAACUUUAUAGAGCGUUUCGUU-
....................(((((((((.(...(((((((((......((((((.(((((......))))).)))))).......((((.....))))))))))))).))))))))))- ( -24.90)
>DroSim_CAF1 33954 119 - 1
GAAGGAGAAAGAAAAAGGAGGACGGAAUGGCAAACUAUAAAGUAUCAUAUGUUUAUAUGUAGAUAUAUAUAUUUAAACAAGCCUAAUACAAAACAUGUAACUUUAUAGAGCGUUUCGUU-
....................(((((((((.(...(((((((((......((((((.(((((......))))).)))))).......((((.....))))))))))))).))))))))))- ( -24.90)
>DroEre_CAF1 34068 117 - 1
GAAGGAGAAAGA--AAGGAGGACGGGAUGGAAAACUAUAAAGUAUCAUAUGUUUAUAUGUAGAUAUAUAUGUUUAAACAAGCCUAAUACAAAACAUGUAACUUUAUAGAGUGUUUCGUU-
............--......((((..((......(((((((((......((((((.(((((......))))).)))))).......((((.....)))))))))))))...))..))))- ( -20.80)
>DroYak_CAF1 33878 116 - 1
GAAGGAGAAAAA--AAGGAGAACGGAAUGGAAAACUAUAAAGUAUGAUAUGUUUAUAUGUAGAUAUAUAUAUUUA-ACAAGCCUAAUACAAAACAUGUAACUUUAUAGAGUGUUUCGUU-
............--......((((((((......(((((((((...(((((((((((((((....)))))))...-..............)))))))).)))))))))...))))))))- ( -20.62)
>DroAna_CAF1 32284 116 - 1
GAAAGAGAAGGA--UAAGAGGAUGGGAGAGAAAAUAGUAAAGCAUCGUAUGUUUAUAUGUAGAUAUAU--AAUUAAACAAACCCAAUAUAAAACUCGUAACUUUGUAGAGCGUUCCGUUU
....(.(((.(.--((.((((.((.(((........(.....)...((.((((((..((((....)))--)..)))))).))...........))).)).)))).))...).)))).... ( -14.50)
>consensus
GAAGGAGAAAGA__AAGGAGGACGGAAUGGAAAACUAUAAAGUAUCAUAUGUUUAUAUGUAGAUAUAUAUAUUUAAACAAGCCUAAUACAAAACAUGUAACUUUAUAGAGCGUUUCGUU_
....................(((((((((.....(((((((((......((((((.(((((......))))).)))))).......((((.....)))))))))))))..))))))))). (-19.36 = -19.37 +   0.01) 

alignment

Postscript

secondary structure

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dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:52:31 2006