Locus 4360

Sequence ID 3L_DroMel_CAF1
Location 12,798,184 – 12,798,287
Length 103
Max. P 0.985732
window6748 window6749

overview

Window 8

Location 12,798,184 – 12,798,287
Length 103
Sequences 6
Columns 103
Reading direction forward
Mean pairwise identity 78.38
Mean single sequence MFE -35.77
Consensus MFE -24.72
Energy contribution -25.37
Covariance contribution 0.65
Combinations/Pair 1.44
Mean z-score -3.28
Structure conservation index 0.69
SVM decision value 2.02
SVM RNA-class probability 0.985732
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12798184 103 + 23771897
ACUUAGGCUCAUCUGCCCCCAGCGCAACGGAUCCCAUCGAUCCCGAUGAGUUCGUCCGGGACUAUGGGUUGCAAAUCAAUCCGCUGGUCCCUGAGCCGCACAA
.....((((((..(((.......)))((((((..(((((....))))).))))))..((((((((((((((.....))))))).)))))))))))))...... ( -40.30)
>DroSec_CAF1 39580 103 + 1
AUUUAGGCUCAUCUGCUCCCAACGCAACGGAUCCCAUCGGUCCCGAUGAGUUCCUACGGGACUAUGGGUUACAAAUCAAUCCGCUGGUCCCUGAGCCGCACAA
.....((((((..(((.......)))..(((.(.(((((....))))).).)))...(((((((((((((.......)))))).)))))))))))))...... ( -39.30)
>DroSim_CAF1 38871 103 + 1
ACUUAGGCUCAUCUGCUCCCAACGCAACAGAUCCCAUCGGUCCCGAUGAGUUCCUACGGGACUAUGGAUUGCAAAUCAAUCCGCUGGUCCCUGAGCCGCACAA
.....((((((..(((.......)))...((.(.(((((....))))).).))....((((((((((((((.....))))))).)))))))))))))...... ( -38.70)
>DroEre_CAF1 43795 103 + 1
AUUUAGGCUCGUCUGCUCCGAAGACCACGGAUCCCAUCACCCCCGAUGAGUUCCUCCGGAACUACGGGUUGCAAAUCAAUCCCCUGAUCCCUGAGCCCCACAA
.....(((((((((.......))))...(((((.((((......))))((((((...))))))..((((((.....))))))...)))))..)))))...... ( -32.80)
>DroYak_CAF1 42084 103 + 1
ACCUGGGCUCAUCUGCUCCGAAGGCCACGGAUCCCAUCACCCCCGAUGACUUCCUCCGGGACUAUGGGUUGCAAAUUAAUCCACUGGUCCCUGAGCCCCACAA
....(((((((...(((.....)))...(((...((((......))))...)))...((((((((((((((.....))))))).))))))))))))))..... ( -38.30)
>DroAna_CAF1 32058 103 + 1
ACUUGAGUGAAGCAACUUCAGAUCCCAAGGAUCCCAUUACCCCGGAGACCUUUUUUCGGGACUAUGCUUUGCGAAUAAAGCCUGUAGUUCCCGUGCAACCGAA
......(..(((((......(((((...))))).......((((((((....))))))))....)))))..).......((.((.......)).))....... ( -25.20)
>consensus
ACUUAGGCUCAUCUGCUCCCAACGCAACGGAUCCCAUCACCCCCGAUGAGUUCCUCCGGGACUAUGGGUUGCAAAUCAAUCCGCUGGUCCCUGAGCCGCACAA
.....((((((.................(((...((((......))))...)))...((((((((((((((.....))))))).)))))))))))))...... (-24.72 = -25.37 +   0.65)

alignment

Postscript

secondary structure

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dotplot

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Window 9

Location 12,798,184 – 12,798,287
Length 103
Sequences 6
Columns 103
Reading direction reverse
Mean pairwise identity 78.38
Mean single sequence MFE -39.42
Consensus MFE -21.01
Energy contribution -23.18
Covariance contribution 2.17
Combinations/Pair 1.27
Mean z-score -2.02
Structure conservation index 0.53
SVM decision value 0.49
SVM RNA-class probability 0.758409
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12798184 103 - 23771897
UUGUGCGGCUCAGGGACCAGCGGAUUGAUUUGCAACCCAUAGUCCCGGACGAACUCAUCGGGAUCGAUGGGAUCCGUUGCGCUGGGGGCAGAUGAGCCUAAGU
......((((((..(.(((((((.(((.....))).))...((..((((....(((((((....))))))).))))..)))))))...)...))))))..... ( -39.80)
>DroSec_CAF1 39580 103 - 1
UUGUGCGGCUCAGGGACCAGCGGAUUGAUUUGUAACCCAUAGUCCCGUAGGAACUCAUCGGGACCGAUGGGAUCCGUUGCGUUGGGAGCAGAUGAGCCUAAAU
......((((((..(((((((((((..........(((((.((((((...(....)..))))))..))))))))))))).)))(....)...))))))..... ( -39.40)
>DroSim_CAF1 38871 103 - 1
UUGUGCGGCUCAGGGACCAGCGGAUUGAUUUGCAAUCCAUAGUCCCGUAGGAACUCAUCGGGACCGAUGGGAUCUGUUGCGUUGGGAGCAGAUGAGCCUAAGU
......(((((.(((((.(..((((((.....)))))).).))))).......(((((((....)))))))(((((((.(....).))))))))))))..... ( -44.40)
>DroEre_CAF1 43795 103 - 1
UUGUGGGGCUCAGGGAUCAGGGGAUUGAUUUGCAACCCGUAGUUCCGGAGGAACUCAUCGGGGGUGAUGGGAUCCGUGGUCUUCGGAGCAGACGAGCCUAAAU
.....((((((.(((((.(.(((.(((.....)))))).).)))))...(((.(((((((....))))))).))).((.((....)).))...)))))).... ( -40.30)
>DroYak_CAF1 42084 103 - 1
UUGUGGGGCUCAGGGACCAGUGGAUUAAUUUGCAACCCAUAGUCCCGGAGGAAGUCAUCGGGGGUGAUGGGAUCCGUGGCCUUCGGAGCAGAUGAGCCCAGGU
.....((((((((((((..((((.............)))).))))).......((..((((((((.((((...)))).)))))))).))...))))))).... ( -41.42)
>DroAna_CAF1 32058 103 - 1
UUCGGUUGCACGGGAACUACAGGCUUUAUUCGCAAAGCAUAGUCCCGAAAAAAGGUCUCCGGGGUAAUGGGAUCCUUGGGAUCUGAAGUUGCUUCACUCAAGU
...(((.((.(((((.(((...(((((......))))).)))))))).....(((((((.(((((......))))).)))))))...)).))).......... ( -31.20)
>consensus
UUGUGCGGCUCAGGGACCAGCGGAUUGAUUUGCAACCCAUAGUCCCGGAGGAACUCAUCGGGAGCGAUGGGAUCCGUGGCGUUGGGAGCAGAUGAGCCUAAGU
......(((((((((((....((.(((.....))).))...)))))...(((.(((((((....))))))).))).................))))))..... (-21.01 = -23.18 +   2.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:20:32 2006