Locus 7188

Sequence ID 2L_DroMel_CAF1
Location 20,136,981 – 20,137,125
Length 144
Max. P 0.654582
window11471 window11472

overview

Window 1

Location 20,136,981 – 20,137,098
Length 117
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 94.97
Mean single sequence MFE -22.59
Consensus MFE -20.19
Energy contribution -20.19
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.71
Structure conservation index 0.89
SVM decision value -0.04
SVM RNA-class probability 0.512438
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20136981 117 - 22407834
-CAAACGUUGCAGUAAAUUGAUUGAAAU--AUGCAAUAUUUCAACGGAUCAAUAAACGUGUUAUCUAUCCAUUUGACUGCCGCUCAAAUCUAAAAGUCAAAUACGAAAUGUGAACCACAC
-...(((((...(((......(((((((--((...))))))))).((((..((((.....))))..)))).(((((((................))))))))))..)))))......... ( -19.69)
>DroSec_CAF1 48282 118 - 1
GCAAACGUUGCAGUAAAUUGAUUGAAAU--GUGCAAUAUUUCAACGGAUCAAUAAACGUGUUAUCUAUCCAUUUGACUGCCGCUCAAAUCUAAAAGUCAAAUACGAAAUGUGACCCACAC
((..(((((.((((......)))).)))--)))).(((((((...((((..((((.....))))..))))((((((((................))))))))..)))))))......... ( -22.89)
>DroYak_CAF1 6914 120 - 1
GAAAACGUUGCAGUAAAUUGAUUGAAAUAUAUGCAAUAUUUCAACGGAUCAAUAAACGUGUUAUCUAUCCAUUUGACUGCAACUCAAAUCUAAAAGUCAAAUAGGAAAUGUGACCCACAC
......((((((((.......(((((((((.....))))))))).((((..((((.....))))..)))).....))))))))............((((.((.....)).))))...... ( -25.20)
>consensus
GCAAACGUUGCAGUAAAUUGAUUGAAAU__AUGCAAUAUUUCAACGGAUCAAUAAACGUGUUAUCUAUCCAUUUGACUGCCGCUCAAAUCUAAAAGUCAAAUACGAAAUGUGACCCACAC
......((((((....(((......)))...))))))(((((...((((..((((.....))))..))))((((((((................))))))))..)))))(((...))).. (-20.19 = -20.19 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 2

Location 20,137,021 – 20,137,125
Length 104
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 85.39
Mean single sequence MFE -26.20
Consensus MFE -18.55
Energy contribution -19.22
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -2.11
Structure conservation index 0.71
SVM decision value 0.25
SVM RNA-class probability 0.654582
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20137021 104 + 22407834
GCAGUCAAAUGGAUAGAUAACACGUUUAUUGAUCCGUUGAAAUAUUGCAU--AUUUCAAUCAAUUUACUGCAACGUUUG------------UGCAAAA-AGCAAACUC-CCUUCCGCUUU
(((((.((((((((.(((((.....))))).))))((((((((((...))--))))))))..)))))))))...(((((------------(......-.))))))..-........... ( -24.60)
>DroSec_CAF1 48322 116 + 1
GCAGUCAAAUGGAUAGAUAACACGUUUAUUGAUCCGUUGAAAUAUUGCAC--AUUUCAAUCAAUUUACUGCAACGUUUGCGGCUUCUCUGGCGCAAAA-AGCAAACUC-CUUUCCGCUUU
(((((.((((((((.(((((.....))))).))))((((((((.......--))))))))..)))))))))....((((((.(......).))))))(-(((......-......)))). ( -27.80)
>DroYak_CAF1 6954 120 + 1
GCAGUCAAAUGGAUAGAUAACACGUUUAUUGAUCCGUUGAAAUAUUGCAUAUAUUUCAAUCAAUUUACUGCAACGUUUUCGGCUCCUCGUGGGUAAAAUGGCAAACUCUCUUUCCCCUUC
(((((.((((((((.(((((.....))))).))))((((((((((.....))))))))))..)))))))))..((((((..((.((....)))))))))).................... ( -26.20)
>consensus
GCAGUCAAAUGGAUAGAUAACACGUUUAUUGAUCCGUUGAAAUAUUGCAU__AUUUCAAUCAAUUUACUGCAACGUUUGCGGCU_CUC__GCGCAAAA_AGCAAACUC_CUUUCCGCUUU
(((((.((((((((.(((((.....))))).))))((((((((.........))))))))..)))))))))...((((((....................)))))).............. (-18.55 = -19.22 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:29:32 2006