Locus 2314

Sequence ID X_DroMel_CAF1
Location 6,248,021 – 6,248,136
Length 115
Max. P 0.979267
window3747 window3748

overview

Window 7

Location 6,248,021 – 6,248,136
Length 115
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 84.17
Mean single sequence MFE -42.65
Consensus MFE -32.99
Energy contribution -35.05
Covariance contribution 2.06
Combinations/Pair 1.03
Mean z-score -2.56
Structure conservation index 0.77
SVM decision value 1.83
SVM RNA-class probability 0.979267
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6248021 115 + 22224390
AAGGACCAGAGGACCAAAGGACCUGGAGCUUCUGCAUCCAUAUCGCAGUUUUGGCCCCAGGCGUCGCAUUUGUUGUGGCCCCCCCCCCUCUUUUGAUGCCUCCUUUGGUACUCAU-----
.((.(((((((((.((((((((((((.(((.((((.........))))....))).))))).((((((.....)))))).........))))))).....))))))))).))...----- ( -41.60)
>DroSec_CAF1 14846 112 + 1
AAGGACCAGAGGACCAAAGGACCUGGAGCUCCUGCAUCCAUAUCGCAGCUUUGGCCCCAGGCGUCGCAUUUGUUGUGGCGCCCCCCC---AUUUGAUGCCUCCUUUGGUACUCAC-----
........(((.(((((((((..((((((....)).))))....(((....(((.....(((((((((.....)))))))))...))---).....))).))))))))).)))..----- ( -44.90)
>DroEre_CAF1 9549 100 + 1
AAGGGGCAGAGGACCAAAGGACCUGGAGCUCCUGCAUCCAUAUCGCAGCUUAGGCCCCAGGCGUCGCAUUUGUUGCGGCGCC---CC---CUUUGAUGCC-CCUUUG-------------
((((((((......((((((...(((.(((.((((.........))))....))).)))(((((((((.....)))))))))---.)---))))).))))-))))..------------- ( -47.00)
>DroYak_CAF1 21941 116 + 1
GAGAAGCAGAGGACCAAAGGACCUGGAGCUCCUGCAUCCAUAUCGCAGUUUAGGCCCCAAGCGUCGCAUUUGUUGUGGCGCCCCCCC---CUUUGAUGCC-CCCUUGAUGCUCCCCUCGA
(((.((((((((..((((((...(((.(((.((((.........))))....))).))).((((((((.....)))))))).....)---))))).....-.))))..))))...))).. ( -37.10)
>consensus
AAGGACCAGAGGACCAAAGGACCUGGAGCUCCUGCAUCCAUAUCGCAGCUUAGGCCCCAGGCGUCGCAUUUGUUGUGGCGCCCCCCC___CUUUGAUGCC_CCUUUGGUACUCAC_____
........(((.((((((((..((((.(((.((((.........))))....))).))))((((((((.....))))))))....................)))))))).)))....... (-32.99 = -35.05 +   2.06)

alignment

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secondary structure

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dotplot

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Window 8

Location 6,248,021 – 6,248,136
Length 115
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 84.17
Mean single sequence MFE -42.54
Consensus MFE -33.58
Energy contribution -34.33
Covariance contribution 0.75
Combinations/Pair 1.10
Mean z-score -1.40
Structure conservation index 0.79
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6248021 115 - 22224390
-----AUGAGUACCAAAGGAGGCAUCAAAAGAGGGGGGGGGGCCACAACAAAUGCGACGCCUGGGGCCAAAACUGCGAUAUGGAUGCAGAAGCUCCAGGUCCUUUGGUCCUCUGGUCCUU
-----..(((.(((((((((.((((........((.......)).......))))....((((((((.....(((((.......)))))..))))))))))))))))).)))........ ( -39.56)
>DroSec_CAF1 14846 112 - 1
-----GUGAGUACCAAAGGAGGCAUCAAAU---GGGGGGGCGCCACAACAAAUGCGACGCCUGGGGCCAAAGCUGCGAUAUGGAUGCAGGAGCUCCAGGUCCUUUGGUCCUCUGGUCCUU
-----..(((.(((((((((.((((....(---(((......)).))....))))....((((((((.....(((((.......)))))..))))))))))))))))).)))........ ( -41.00)
>DroEre_CAF1 9549 100 - 1
-------------CAAAGG-GGCAUCAAAG---GG---GGCGCCGCAACAAAUGCGACGCCUGGGGCCUAAGCUGCGAUAUGGAUGCAGGAGCUCCAGGUCCUUUGGUCCUCUGCCCCUU
-------------..((((-((((......---.(---((((.((((.....)))).)))))((((((.(((....(((.((((.((....)))))).)))))).)))))).)))))))) ( -46.10)
>DroYak_CAF1 21941 116 - 1
UCGAGGGGAGCAUCAAGGG-GGCAUCAAAG---GGGGGGGCGCCACAACAAAUGCGACGCUUGGGGCCUAAACUGCGAUAUGGAUGCAGGAGCUCCAGGUCCUUUGGUCCUCUGCUUCUC
....((((((((....(((-(((..(((((---(......(((..........)))..(((((((((.....(((((.......)))))..))))))))))))))))))))))))))))) ( -43.50)
>consensus
_____GUGAGUACCAAAGG_GGCAUCAAAG___GGGGGGGCGCCACAACAAAUGCGACGCCUGGGGCCAAAACUGCGAUAUGGAUGCAGGAGCUCCAGGUCCUUUGGUCCUCUGCUCCUU
.......(((.((((((((.(((..(............)..)))..............(((((((((.....(((((.......)))))..))))))))))))))))).)))........ (-33.58 = -34.33 +   0.75)

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 10:31:18 2006