Locus 8042

Sequence ID X_DroMel_CAF1
Location 19,992,624 – 19,992,715
Length 91
Max. P 0.697109
window13197 window13198

overview

Window 7

Location 19,992,624 – 19,992,715
Length 91
Sequences 5
Columns 93
Reading direction forward
Mean pairwise identity 80.22
Mean single sequence MFE -20.56
Consensus MFE -13.60
Energy contribution -15.32
Covariance contribution 1.72
Combinations/Pair 1.14
Mean z-score -1.75
Structure conservation index 0.66
SVM decision value 0.34
SVM RNA-class probability 0.697109
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19992624 91 + 22224390
ACAUUACUCAUACGCCAUGUUGGCGUUAGCAUUUUAAAUGUAACAUACAUUAAUGGUAAUCAGAUGCAGUAAUGCGAAAGGGAGGUGGAGA--
.(((..(((..(((((.....)))))((.((((...((((((...)))))))))).))......((((....))))...)))..)))....-- ( -21.40)
>DroSec_CAF1 30133 93 + 1
ACAUUACUCAUACGCCAUGUUGGCGUGAGCAUUUCAAAUGUAACAUACAUAAAUGGUAGCUAGAUUCAGUAAUGCGAAAGGAAAGUGGAGACA
.(((((((..((((((.....))))))((((((....(((((...)))))....))).)))......)))))))(....).....((....)) ( -21.50)
>DroSim_CAF1 23275 93 + 1
ACAUUACUCAUACGCCAUGUUGGCGUGAGCAUUUCAAAUGUAACAUACAUAAAUGGUAGCUAGAUGCAGCAAUGCGAAAGGGAAGUGGAGACA
......(((.((((((.....))))))..((((((..(((((...)))))..............((((....)))).....)))))))))... ( -23.80)
>DroEre_CAF1 25009 87 + 1
ACAUUACUCAUACGCCAUGUUGGCGUGAACAUUUCAAAUGUAACAU----AAAUGGUAAUUAGAUGCAAUAAUGCCAAACGGCGGUGGAGA--
......(((...((((...(((((((..((((.....)))).....----.....(((......)))....)))))))..))))...))).-- ( -22.60)
>DroYak_CAF1 23342 72 + 1
ACAUUACUCAUACGCCAUGUUGGCGUGAACAUUUCAAAUGUAACAU----AAAUGACAAUUAGAGA---------------GGAGAGGAGA--
......(((.((((((.....))))))....((((((.(((.....----.....))).)).))))---------------...)))....-- ( -13.50)
>consensus
ACAUUACUCAUACGCCAUGUUGGCGUGAGCAUUUCAAAUGUAACAUACAUAAAUGGUAAUUAGAUGCAGUAAUGCGAAAGGGAAGUGGAGA__
......(((.((((((.....))))))..((((((........(((......)))..........(((....)))......)))))))))... (-13.60 = -15.32 +   1.72)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 8

Location 19,992,624 – 19,992,715
Length 91
Sequences 5
Columns 93
Reading direction reverse
Mean pairwise identity 80.22
Mean single sequence MFE -17.58
Consensus MFE -11.62
Energy contribution -13.18
Covariance contribution 1.56
Combinations/Pair 1.10
Mean z-score -1.58
Structure conservation index 0.66
SVM decision value 0.00
SVM RNA-class probability 0.535087
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19992624 91 - 22224390
--UCUCCACCUCCCUUUCGCAUUACUGCAUCUGAUUACCAUUAAUGUAUGUUACAUUUAAAAUGCUAACGCCAACAUGGCGUAUGAGUAAUGU
--................((((((((.(((........((((((((((...))))))...))))...(((((.....)))))))))))))))) ( -19.00)
>DroSec_CAF1 30133 93 - 1
UGUCUCCACUUUCCUUUCGCAUUACUGAAUCUAGCUACCAUUUAUGUAUGUUACAUUUGAAAUGCUCACGCCAACAUGGCGUAUGAGUAAUGU
..................((((((((.(....(((...((...(((((...))))).))....))).(((((.....))))).).)))))))) ( -19.60)
>DroSim_CAF1 23275 93 - 1
UGUCUCCACUUCCCUUUCGCAUUGCUGCAUCUAGCUACCAUUUAUGUAUGUUACAUUUGAAAUGCUCACGCCAACAUGGCGUAUGAGUAAUGU
..................((((((((.(((..(((...((...(((((...))))).))....))).(((((.....)))))))))))))))) ( -20.20)
>DroEre_CAF1 25009 87 - 1
--UCUCCACCGCCGUUUGGCAUUAUUGCAUCUAAUUACCAUUU----AUGUUACAUUUGAAAUGUUCACGCCAACAUGGCGUAUGAGUAAUGU
--.(((...(((((((((((......((((..(((....))).----)))).((((.....))))....))))).))))))...)))...... ( -18.40)
>DroYak_CAF1 23342 72 - 1
--UCUCCUCUCC---------------UCUCUAAUUGUCAUUU----AUGUUACAUUUGAAAUGUUCACGCCAACAUGGCGUAUGAGUAAUGU
--..........---------------................----(((((((....((.....))(((((.....)))))....))))))) ( -10.70)
>consensus
__UCUCCACUUCCCUUUCGCAUUACUGCAUCUAAUUACCAUUUAUGUAUGUUACAUUUGAAAUGCUCACGCCAACAUGGCGUAUGAGUAAUGU
..................((((((((............(((((....(((...)))...)))))...(((((.....)))))...)))))))) (-11.62 = -13.18 +   1.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:53:55 2006