Locus 7167

Sequence ID X_DroMel_CAF1
Location 17,977,133 – 17,977,244
Length 111
Max. P 0.733358
window11709 window11710

overview

Window 9

Location 17,977,133 – 17,977,244
Length 111
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 89.30
Mean single sequence MFE -23.83
Consensus MFE -19.45
Energy contribution -20.21
Covariance contribution 0.76
Combinations/Pair 1.08
Mean z-score -1.36
Structure conservation index 0.82
SVM decision value -0.01
SVM RNA-class probability 0.528490
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17977133 111 + 22224390
UUUGCAUUUGCGCAGGCAGCCGCAAAACACCUCGUCCCCAAAAGCUCCCAACCCAA---------ACAGCCAUUUCUCUUUGUUGUCGACGCCGCUUUUUGCUUUAUGCUUACGCGCAUU
........((((((((((...((((((..(..((((..(((..(((..........---------..)))((........)))))..))))..)..))))))....)))))..))))).. ( -23.40)
>DroSec_CAF1 8017 107 + 1
UUUGCAUUUGCGCAGGCAGCCGCAAAACACCUCGUCCCCAGCCGCCCC----CCAA---------ACAGCCAUUUCUCUUUGUUGUCGACGCCGCUUUUUGCUUUAUGCUUACGCGCAUU
........((((((((((...((((((..(..((((..((((......----....---------................))))..))))..)..))))))....)))))..))))).. ( -24.57)
>DroSim_CAF1 7723 107 + 1
UUUGCAUUUGCGCAGGCAGCCGCAAAACACCUCGUCCCCAACCGCCCC----CCAA---------ACAGCCAUUUCUCUUUGUUGUCGACGCCGCUUUUUGCUUUAUGCUUACGCGCAUU
........((((((((((...((((((..(..((((..((((......----....---------................))))..))))..)..))))))....)))))..))))).. ( -24.57)
>DroEre_CAF1 9369 116 + 1
UUUGCAUUUGCGCAGGCAGCCGCAAAACACUUCGCCCCCAAACAGCCC----CCAACCGCCCCCCACAACCAUUUCUCUUUGUUGUCGACGACGCUUUUUGCUUUAUGCUUACGCGCAUU
........((((((((((...((((((..(.(((..........((..----......))...(.(((((...........))))).).))).)..))))))....)))))..))))).. ( -22.40)
>DroYak_CAF1 7013 107 + 1
UUUGCAUUUGCGCAGGCAGCCGCAAAACACCUCGCCCCCCAUUCGCCU----CCAA---------AGAACCAUUUCUCUUUGUUGUCGACGCCGCUUUUUGCUUUAUGCUUACGCGCAUU
........((((((((((...((((((..(..((........(((.(.----.(((---------(((........))))))..).)))))..)..))))))....)))))..))))).. ( -24.20)
>consensus
UUUGCAUUUGCGCAGGCAGCCGCAAAACACCUCGUCCCCAAACGCCCC____CCAA_________ACAGCCAUUUCUCUUUGUUGUCGACGCCGCUUUUUGCUUUAUGCUUACGCGCAUU
........((((((((((...((((((..(..((((..((((.......................................))))..))))..)..))))))....)))))..))))).. (-19.45 = -20.21 +   0.76)

alignment

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secondary structure

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dotplot

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Window 0

Location 17,977,133 – 17,977,244
Length 111
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 89.30
Mean single sequence MFE -34.92
Consensus MFE -25.26
Energy contribution -25.42
Covariance contribution 0.16
Combinations/Pair 1.04
Mean z-score -2.04
Structure conservation index 0.72
SVM decision value 0.43
SVM RNA-class probability 0.733358
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17977133 111 - 22224390
AAUGCGCGUAAGCAUAAAGCAAAAAGCGGCGUCGACAACAAAGAGAAAUGGCUGU---------UUGGGUUGGGAGCUUUUGGGGACGAGGUGUUUUGCGGCUGCCUGCGCAAAUGCAAA
..((((((..(((.....((((((.(((((.(((((..((((.((......)).)---------))).)))))..)))((((....)))))).)))))).)))...))))))........ ( -34.90)
>DroSec_CAF1 8017 107 - 1
AAUGCGCGUAAGCAUAAAGCAAAAAGCGGCGUCGACAACAAAGAGAAAUGGCUGU---------UUGG----GGGGCGGCUGGGGACGAGGUGUUUUGCGGCUGCCUGCGCAAAUGCAAA
..(((((....)).....((...(((((((.((...........))....)))))---------)).(----.((((((((((((((.....))))).))))))))).)))....))).. ( -36.00)
>DroSim_CAF1 7723 107 - 1
AAUGCGCGUAAGCAUAAAGCAAAAAGCGGCGUCGACAACAAAGAGAAAUGGCUGU---------UUGG----GGGGCGGUUGGGGACGAGGUGUUUUGCGGCUGCCUGCGCAAAUGCAAA
..((((((..(((.....((((((.((..((((..((((....(....).(((.(---------....----).))).))))..))))..)).)))))).)))...))))))........ ( -34.50)
>DroEre_CAF1 9369 116 - 1
AAUGCGCGUAAGCAUAAAGCAAAAAGCGUCGUCGACAACAAAGAGAAAUGGUUGUGGGGGGCGGUUGG----GGGCUGUUUGGGGGCGAAGUGUUUUGCGGCUGCCUGCGCAAAUGCAAA
..(((((....)).....((......((((.((.(((((...........))))).)).))))((.((----.((((((..(((.((...)).))).)))))).)).))))....))).. ( -37.90)
>DroYak_CAF1 7013 107 - 1
AAUGCGCGUAAGCAUAAAGCAAAAAGCGGCGUCGACAACAAAGAGAAAUGGUUCU---------UUGG----AGGCGAAUGGGGGGCGAGGUGUUUUGCGGCUGCCUGCGCAAAUGCAAA
..((((((..(((.....((((((.((..((((..(..(((((((......))))---------))).----.........)..))))..)).)))))).)))...))))))........ ( -31.30)
>consensus
AAUGCGCGUAAGCAUAAAGCAAAAAGCGGCGUCGACAACAAAGAGAAAUGGCUGU_________UUGG____GGGGCGGUUGGGGACGAGGUGUUUUGCGGCUGCCUGCGCAAAUGCAAA
..((((((..(((.....((((((.((..((((..(((.........................................)))..))))..)).)))))).)))...))))))........ (-25.26 = -25.42 +   0.16)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:31:50 2006