Locus 3253

Sequence ID X_DroMel_CAF1
Location 8,616,139 – 8,616,236
Length 97
Max. P 0.995042
window5336 window5337

overview

Window 6

Location 8,616,139 – 8,616,236
Length 97
Sequences 4
Columns 101
Reading direction forward
Mean pairwise identity 81.52
Mean single sequence MFE -19.59
Consensus MFE -11.89
Energy contribution -13.39
Covariance contribution 1.50
Combinations/Pair 1.00
Mean z-score -2.77
Structure conservation index 0.61
SVM decision value 1.68
SVM RNA-class probability 0.971534
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8616139 97 + 22224390
CC----CCUCGCCAUUCCUCAUGUUUUUCUUUGGCAAACAUCCGCAUCCUCAUCCACAUCCGCAUCCACAUCCACAUUCACGUCCGCUGUCGAGGAUGCCG
..----....((((.................))))........((((((((....(((...((......................))))).)))))))).. ( -16.88)
>DroSec_CAF1 53983 77 + 1
CC----ACU--CCAUGCCUGAUGUUUUUCUUUGGCAAACAUCCGCAUCCUCAUCCGCAUCC------ACA------------UCUGCAGUCGAGGAUGCCG
..----...--...((((.((......))...)))).......((((((((..(.(((...------...------------..))).)..)))))))).. ( -23.90)
>DroEre_CAF1 66841 87 + 1
CCAGUCACU--CCAUUCCUGAUGUUUUUCUUUGGCAAACAUCCUCAUCCGCAUCCUCAUCCGCAUCCACA------------UCCGCAGUCGAGGAUGCCG
.........--........(((((((.(.....).))))))).......((((((((..(.((.......------------...)).)..)))))))).. ( -20.70)
>DroYak_CAF1 55021 83 + 1
CC----ACU--UCAUUCCUCAUGUUUUUCUUUGGCAAACAUCCGCAUCCUCAUCCGCAUCCGCAUCCACA------------UCCGCAGUCGAGGAUGCCG
..----...--.........((((((.(.....).))))))..((((((((..(.((.............------------...)).)..)))))))).. ( -16.89)
>consensus
CC____ACU__CCAUUCCUCAUGUUUUUCUUUGGCAAACAUCCGCAUCCUCAUCCGCAUCCGCAUCCACA____________UCCGCAGUCGAGGAUGCCG
...................(((((((.(.....).))))))).((((((((..(.((............................)).)..)))))))).. (-11.89 = -13.39 +   1.50)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 7

Location 8,616,139 – 8,616,236
Length 97
Sequences 4
Columns 101
Reading direction reverse
Mean pairwise identity 81.52
Mean single sequence MFE -29.23
Consensus MFE -18.68
Energy contribution -19.87
Covariance contribution 1.19
Combinations/Pair 1.10
Mean z-score -3.19
Structure conservation index 0.64
SVM decision value 2.54
SVM RNA-class probability 0.995042
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8616139 97 - 22224390
CGGCAUCCUCGACAGCGGACGUGAAUGUGGAUGUGGAUGCGGAUGUGGAUGAGGAUGCGGAUGUUUGCCAAAGAAAAACAUGAGGAAUGGCGAGG----GG
(.(((((((((.(.(((..(((................)))..))).).))))))))).).(.(((((((.................))))))).----). ( -28.42)
>DroSec_CAF1 53983 77 - 1
CGGCAUCCUCGACUGCAGA------------UGU------GGAUGCGGAUGAGGAUGCGGAUGUUUGCCAAAGAAAAACAUCAGGCAUGG--AGU----GG
..(((((((((.(((((..------------...------...))))).))))))))).(((((((.........)))))))........--...----.. ( -29.60)
>DroEre_CAF1 66841 87 - 1
CGGCAUCCUCGACUGCGGA------------UGUGGAUGCGGAUGAGGAUGCGGAUGAGGAUGUUUGCCAAAGAAAAACAUCAGGAAUGG--AGUGACUGG
(.(((((((((.(((((..------------......))))).))))))))).).....(((((((.........)))))))........--......... ( -29.50)
>DroYak_CAF1 55021 83 - 1
CGGCAUCCUCGACUGCGGA------------UGUGGAUGCGGAUGCGGAUGAGGAUGCGGAUGUUUGCCAAAGAAAAACAUGAGGAAUGA--AGU----GG
(.(((((((((.(((((..------------(((....)))..))))).))))))))).)((((((.........)))))).........--...----.. ( -29.40)
>consensus
CGGCAUCCUCGACUGCGGA____________UGUGGAUGCGGAUGCGGAUGAGGAUGCGGAUGUUUGCCAAAGAAAAACAUCAGGAAUGG__AGU____GG
..(((((((((.(((((..........................))))).))))))))).(((((((.........)))))))................... (-18.68 = -19.87 +   1.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:54:56 2006