Locus 8690

Sequence ID X_DroMel_CAF1
Location 22,069,019 – 22,069,164
Length 145
Max. P 0.861075
window14284 window14285

overview

Window 4

Location 22,069,019 – 22,069,135
Length 116
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 89.40
Mean single sequence MFE -36.76
Consensus MFE -26.60
Energy contribution -26.32
Covariance contribution -0.28
Combinations/Pair 1.12
Mean z-score -2.39
Structure conservation index 0.72
SVM decision value 0.83
SVM RNA-class probability 0.861075
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 22069019 116 + 22224390
CUUAUGCUGUCAGCAUAACAUGGCAGGAAAAAAAUCGGUCCAAAGGCUGGCUGC----UCGAAAGACAAAUAAAAUUGCGGCCGGGACCCUGGAAUGUGGGUAAGUCCAGGGACCUGACU
....(.((((((........)))))).)........(((((...((((((((((----((....))...........)))))))).((((........))))....))..)))))..... ( -39.00)
>DroSec_CAF1 127002 111 + 1
CUUAUGCUGUCAGCAUAACAUGGCAGGAAAAAAAUCGGCCCAAAGGA----UGC----UCGAAAGACAAAUAAAAUUGCGGCCGGGACCCUGGUAUGUGGGUAAGUCCAGGGACCUGAC-
.((((((.....)))))).....((((.......(((((((((...(----(..----((....))...))....))).))))))..((((((.((........)))))))).))))..- ( -36.20)
>DroSim_CAF1 105774 111 + 1
CUUAUGCUGUCAGCAUAACAUGGCAGGAAAAAAAUCGGCCCAAAGGA----UGC----UCGAAAGACAAAUAAAAUUGCGGCCGGGACCCUGGUAUGUGGGUAAGUCCAGGGACCUGAC-
.((((((.....)))))).....((((.......(((((((((...(----(..----((....))...))....))).))))))..((((((.((........)))))))).))))..- ( -36.20)
>DroEre_CAF1 101442 116 + 1
CUUAUGCUGUCAGCAUAACAUGGCAGAAAAAAGUUCGGUCCAAAGGA----CGCUCGCUCGAAAGACAAAUAAAAUUGCGGCCGGGACCGUGGGAUGUGGGCUAGUCCAGGGACCUGACU
......((((((........)))))).....((((.(((((...(((----(((((((((....)).........(..(((......)))..)...))))))..))))..))))).)))) ( -42.00)
>DroYak_CAF1 110520 111 + 1
CUUAUGCUGUCAG-AUAACAUGGCAGAAAAAAGCUCAGUCCAAAGGA----CGC----UCAAAAGACAAAUAAAAUUGUGGCUGGGACCUUGGGAUGUGGGUUAGUCCAGGGAACUGACU
......((((((.-......)))))).....((((((((((.((((.----..(----(((....((((......))))...)))).)))).)))).))))))((((.((....)))))) ( -30.40)
>consensus
CUUAUGCUGUCAGCAUAACAUGGCAGGAAAAAAAUCGGUCCAAAGGA____UGC____UCGAAAGACAAAUAAAAUUGCGGCCGGGACCCUGGGAUGUGGGUAAGUCCAGGGACCUGACU
......((((((........)))))).........(((((..................((....))(((......))).)))))((.((((((.((........)))))))).))..... (-26.60 = -26.32 +  -0.28)

alignment

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secondary structure

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dotplot

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Window 5

Location 22,069,059 – 22,069,164
Length 105
Sequences 5
Columns 115
Reading direction forward
Mean pairwise identity 82.26
Mean single sequence MFE -30.67
Consensus MFE -17.28
Energy contribution -17.80
Covariance contribution 0.52
Combinations/Pair 1.11
Mean z-score -2.07
Structure conservation index 0.56
SVM decision value 0.20
SVM RNA-class probability 0.632588
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 22069059 105 + 22224390
CAAAGGCUGGCUGC----UCGAAAGACAAAUAAAAUUGCGGCCGGGACCCUGGAAUGUGGGUAAGUCCAGGGACCUGACUCCGUAGUUACUC------ACAUAAGCAUGGAACCA
...(((((((((((----((....))...........))))))))..(((((((.(.......).))))))).)))...(((((.(((....------.....)))))))).... ( -33.60)
>DroSec_CAF1 127042 89 + 1
CAAAGGA----UGC----UCGAAAGACAAAUAAAAUUGCGGCCGGGACCCUGGUAUGUGGGUAAGUCCAGGGACCUGAC-----------UC------ACAUAAGCAUG-AACCA
....((.----((.----((....))))........(((.(((((....)))))((((((((..(((....)))...))-----------))------))))..)))..-..)). ( -29.30)
>DroSim_CAF1 105814 89 + 1
CAAAGGA----UGC----UCGAAAGACAAAUAAAAUUGCGGCCGGGACCCUGGUAUGUGGGUAAGUCCAGGGACCUGAC-----------UC------ACAUAAGCAUG-AACCA
....((.----((.----((....))))........(((.(((((....)))))((((((((..(((....)))...))-----------))------))))..)))..-..)). ( -29.30)
>DroEre_CAF1 101482 105 + 1
CAAAGGA----CGCUCGCUCGAAAGACAAAUAAAAUUGCGGCCGGGACCGUGGGAUGUGGGCUAGUCCAGGGACCUGACUCCAUAGUCACUC------ACAUAAGCAUGGAACCA
....((.----(((....((....))...........))).))((..(((((..(((((((...(((....))).(((((....))))))))------))))...)))))..)). ( -32.36)
>DroYak_CAF1 110559 107 + 1
CAAAGGA----CGC----UCAAAAGACAAAUAAAAUUGUGGCUGGGACCUUGGGAUGUGGGUUAGUCCAGGGAACUGACUCCAUAGUCACUCAUAGUCACAUAAGCAUGGCACCA
....((.----.((----.((....((((......)))).(((.((((..((((.((((((((((((....).)))))).)))))....))))..))).)...))).)))).)). ( -28.80)
>consensus
CAAAGGA____UGC____UCGAAAGACAAAUAAAAUUGCGGCCGGGACCCUGGGAUGUGGGUAAGUCCAGGGACCUGACUCC_UAGU_ACUC______ACAUAAGCAUGGAACCA
....((.....(((....((....))................((((.((((((.((........)))))))).))))...........................))).....)). (-17.28 = -17.80 +   0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:10:24 2006