Locus 6749

Sequence ID 3R_DroMel_CAF1
Location 17,784,921 – 17,785,020
Length 99
Max. P 0.873390
window10962 window10963

overview

Window 2

Location 17,784,921 – 17,785,020
Length 99
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 76.99
Mean single sequence MFE -32.98
Consensus MFE -25.28
Energy contribution -25.45
Covariance contribution 0.17
Combinations/Pair 1.21
Mean z-score -1.31
Structure conservation index 0.77
SVM decision value 0.88
SVM RNA-class probability 0.873390
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17784921 99 + 27905053
CGGGCCGUUGGGU-UGCUGGGUUUGCUGGGCUGAUGGGCCUAACUUUGGCAUUGCCCGCCUUUGGCCAUGGCAGCUGGAGUAAUUUUUCAUCAGCGCAAA--------
..(((((..((((-....((((.(((((((((....)))))......))))..)))))))).)))))...((.((((..(........)..))))))...-------- ( -36.10)
>DroSec_CAF1 73448 91 + 1
CGGGCUGCUGGGU---------UUGCUGGGCUGAUGGGCCUAACUUUGGCAUUGCCCGCCUUUGGCCAUGGCAGCUGGAGUAAUUUUUCAUCAGCGUAAA--------
(.(((........---------..))).)(((((((((....((((..((..((((.(((...)))...))))))..)))).....))))))))).....-------- ( -32.20)
>DroSim_CAF1 74181 100 + 1
CGGGCUGCUGGGUUUGCUGGGUUUGCUGGGCUGAUGGGCCUAACUUUGGCAUUGCCCGCCUUUGGCCAUGGCAGCUGGAGUAAUUUUUCAUCAGCGUAAA--------
(.(((.(((.((....)).)))..))).)(((((((((....((((..((..((((.(((...)))...))))))..)))).....))))))))).....-------- ( -38.40)
>DroEre_CAF1 78969 92 + 1
CGGGC--------UUGCUGGGUCUAUUGGGCUGAUGGGCCCAACUUUGGCAUUGUCCGCCUGUGGCCAUGGCAGCUGGAGUAAUUUUUCAUCAGCGUAAA--------
.((((--------.(((..((....(((((((....))))))).))..)))..))))(((((....)).))).((((..(........)..)))).....-------- ( -32.30)
>DroWil_CAF1 93999 93 + 1
---GCUGUUGCAU---------CUGAUAGUUUG---UGGAUACUUUUGGCACUGCCCGCCUUUGGCAAUGGCAGCGCGAGUAAUUUUUCAUCAACAUAAGGCAGGUUG
---((....))((---------(((.(((((.(---(((((((((...((.(((((.(((...)))...))))).)))))))....))))).))).))...))))).. ( -25.10)
>DroYak_CAF1 79211 92 + 1
UGGGU--------GUGCUGGGUUUGUUGGGCUGAUGGGCCUAACUUUGGCAUUGCCCGCCUUUGGCCAUGGCAGCUGGAGUAAUUUUUCAUCAGCGUAAA--------
.((((--------((((..((...((((((((....))))))))))..))).)))))(((.........))).((((..(........)..)))).....-------- ( -33.80)
>consensus
CGGGCUG_UGGGU_UGCUGGGUUUGCUGGGCUGAUGGGCCUAACUUUGGCAUUGCCCGCCUUUGGCCAUGGCAGCUGGAGUAAUUUUUCAUCAGCGUAAA________
..........................((.(((((((((....((((..((..((((.(((...)))...))))))..)))).....))))))))).)).......... (-25.28 = -25.45 +   0.17)

alignment

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secondary structure

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dotplot

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Window 3

Location 17,784,921 – 17,785,020
Length 99
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 76.99
Mean single sequence MFE -24.55
Consensus MFE -17.28
Energy contribution -18.17
Covariance contribution 0.89
Combinations/Pair 1.06
Mean z-score -1.34
Structure conservation index 0.70
SVM decision value 0.68
SVM RNA-class probability 0.820580
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17784921 99 - 27905053
--------UUUGCGCUGAUGAAAAAUUACUCCAGCUGCCAUGGCCAAAGGCGGGCAAUGCCAAAGUUAGGCCCAUCAGCCCAGCAAACCCAGCA-ACCCAACGGCCCG
--------((((((((((((...............((((...(((...))).))))..(((.......))).)))))))...))))).......-............. ( -25.80)
>DroSec_CAF1 73448 91 - 1
--------UUUACGCUGAUGAAAAAUUACUCCAGCUGCCAUGGCCAAAGGCGGGCAAUGCCAAAGUUAGGCCCAUCAGCCCAGCAA---------ACCCAGCAGCCCG
--------.....(((((((...............((((...(((...))).))))..(((.......))).)))))))...((..---------.....))...... ( -23.70)
>DroSim_CAF1 74181 100 - 1
--------UUUACGCUGAUGAAAAAUUACUCCAGCUGCCAUGGCCAAAGGCGGGCAAUGCCAAAGUUAGGCCCAUCAGCCCAGCAAACCCAGCAAACCCAGCAGCCCG
--------.....((((..(........)..)))).(((.........)))((((.........(((.(((......))).))).......((.......)).)))). ( -24.20)
>DroEre_CAF1 78969 92 - 1
--------UUUACGCUGAUGAAAAAUUACUCCAGCUGCCAUGGCCACAGGCGGACAAUGCCAAAGUUGGGCCCAUCAGCCCAAUAGACCCAGCAA--------GCCCG
--------.....((((................((((((.((....))))))).).........(((((((......))))))).....))))..--------..... ( -25.80)
>DroWil_CAF1 93999 93 - 1
CAACCUGCCUUAUGUUGAUGAAAAAUUACUCGCGCUGCCAUUGCCAAAGGCGGGCAGUGCCAAAAGUAUCCA---CAAACUAUCAG---------AUGCAACAGC---
............(((((.(((..........((((((((...(((...))).))))))))....(((.....---...))).))).---------...)))))..--- ( -25.00)
>DroYak_CAF1 79211 92 - 1
--------UUUACGCUGAUGAAAAAUUACUCCAGCUGCCAUGGCCAAAGGCGGGCAAUGCCAAAGUUAGGCCCAUCAGCCCAACAAACCCAGCAC--------ACCCA
--------.....(((((((...............((((...(((...))).))))..(((.......))).)))))))................--------..... ( -22.80)
>consensus
________UUUACGCUGAUGAAAAAUUACUCCAGCUGCCAUGGCCAAAGGCGGGCAAUGCCAAAGUUAGGCCCAUCAGCCCAGCAAACCCAGCA_ACCCA_CAGCCCG
.............(((((((...............((((...(((...))).))))..(((.......))).)))))))............................. (-17.28 = -18.17 +   0.89)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:29:02 2006