Locus 1466

Sequence ID X_DroMel_CAF1
Location 4,403,789 – 4,403,909
Length 120
Max. P 0.963702
window2338 window2339

overview

Window 8

Location 4,403,789 – 4,403,909
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 93.92
Mean single sequence MFE -45.37
Consensus MFE -40.32
Energy contribution -40.04
Covariance contribution -0.28
Combinations/Pair 1.11
Mean z-score -1.21
Structure conservation index 0.89
SVM decision value 0.23
SVM RNA-class probability 0.642303
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4403789 120 + 22224390
GCCCGCUGCCUUGGCUUUGCCCCUGCAAAGCCAGUCCACUGCUGCCCAUCUGAAUCAGGGAGUCAGUGUGGUCGCCAAUGCAGCCAGUCAUGCCAAUGUGGCCGAGGAUGCUGGCAUCGU
(((.((..((((((((((((....))))))))....(((((((.(((..........))))).))))).((((((....(((........)))....))))))))))..)).)))..... ( -48.10)
>DroSec_CAF1 6381 120 + 1
GCCCGCUGCCUUGGCUUUGCCCCUGCAAAGCCAGUCCACUGCCGCCCAUCUGAAUCAGGCAGUCAGUGUGGUCGCCAAUGCCGCCAGUCAUGCCCAUGUGGCGGAAGAUGCUGGCAUCGU
((((((((..((((((((((....))))))))))...((((((..............))))))))))).))).((((...((((((..(((....))))))))).......))))..... ( -48.14)
>DroSim_CAF1 6473 120 + 1
GCCCGCUGCCUUGGCUUUGCCCCUGCAAAGCCAGUCCACUGCCGCCCAUGUGAAUCAGGGAGUCAGUGUGGUCGCCAAUGCCGCCAGUCAUGCCAAUGUGGCCGAAGAUGCUGGCAUCGU
((..((.(((((((((((((....))))))))))..(((((.(.(((.((.....))))).).))))).))).))....)).(((((.((((((.....))).....))))))))..... ( -46.20)
>DroEre_CAF1 7093 120 + 1
GCCCGCUGCCUUGGCUUUGCCACUGCAAAGUCAAUCCACUGCUUCCCAUUUGAAUCAGGGAGUCAGUGUGGUCGCCAAUGCCGCCAGUCACGCCAAUGUGGCCGAAGAUGCAGGCAUCGU
...((.((((((((((((((....)))))))))((((((((.(((((..........))))).)))))((((.((....)).))))((((((....))))))....)))..))))).)). ( -43.60)
>DroYak_CAF1 6603 120 + 1
CCCCGCUGCCUUGGCUUUGCCCCUGCAAAGUCAAUCCACUGCUGCCCAUCUUAAUCAGGGAGUCAGUGUGGUCGCCAAUGCCGCCAGUCAUGCCAAUGUGGCCGAAGAUGCUGGUAUCGU
....((.(((((((((((((....))))))))))..(((((((.(((..........))))).))))).))).))..(((..(((((.((((((.....))).....))))))))..))) ( -40.80)
>consensus
GCCCGCUGCCUUGGCUUUGCCCCUGCAAAGCCAGUCCACUGCUGCCCAUCUGAAUCAGGGAGUCAGUGUGGUCGCCAAUGCCGCCAGUCAUGCCAAUGUGGCCGAAGAUGCUGGCAUCGU
....((.(((((((((((((....))))))))))..(((((.(.(((..........))).).))))).))).)).......(((((.((((((.....))).....))))))))..... (-40.32 = -40.04 +  -0.28)

alignment

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secondary structure

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dotplot

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Window 9

Location 4,403,789 – 4,403,909
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 93.92
Mean single sequence MFE -48.89
Consensus MFE -44.36
Energy contribution -45.32
Covariance contribution 0.96
Combinations/Pair 1.03
Mean z-score -1.56
Structure conservation index 0.91
SVM decision value 1.56
SVM RNA-class probability 0.963702
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4403789 120 - 22224390
ACGAUGCCAGCAUCCUCGGCCACAUUGGCAUGACUGGCUGCAUUGGCGACCACACUGACUCCCUGAUUCAGAUGGGCAGCAGUGGACUGGCUUUGCAGGGGCAAAGCCAAGGCAGCGGGC
.((((((.(((....((((((.....))).)))...)))))))))((..((.(((((.(((((..........))).)))))))...(((((((((....))))))))).))..)).... ( -50.80)
>DroSec_CAF1 6381 120 - 1
ACGAUGCCAGCAUCUUCCGCCACAUGGGCAUGACUGGCGGCAUUGGCGACCACACUGACUGCCUGAUUCAGAUGGGCGGCAGUGGACUGGCUUUGCAGGGGCAAAGCCAAGGCAGCGGGC
.(((((((.((.......(((.....))).......)))))))))((..((.(((((.((((((.........)))))))))))...(((((((((....))))))))).))..)).... ( -54.14)
>DroSim_CAF1 6473 120 - 1
ACGAUGCCAGCAUCUUCGGCCACAUUGGCAUGACUGGCGGCAUUGGCGACCACACUGACUCCCUGAUUCACAUGGGCGGCAGUGGACUGGCUUUGCAGGGGCAAAGCCAAGGCAGCGGGC
.(((((((.((....((((((.....))).)))...)))))))))((..((.(((((.(.(((((.....)).))).).)))))...(((((((((....))))))))).))..)).... ( -52.00)
>DroEre_CAF1 7093 120 - 1
ACGAUGCCUGCAUCUUCGGCCACAUUGGCGUGACUGGCGGCAUUGGCGACCACACUGACUCCCUGAUUCAAAUGGGAAGCAGUGGAUUGACUUUGCAGUGGCAAAGCCAAGGCAGCGGGC
.(((((((.((....((((((.....))).)))...)))))))))((..((.(((((..((((..........))))..)))))..(((.((((((....)))))).)))))..)).... ( -47.80)
>DroYak_CAF1 6603 120 - 1
ACGAUACCAGCAUCUUCGGCCACAUUGGCAUGACUGGCGGCAUUGGCGACCACACUGACUCCCUGAUUAAGAUGGGCAGCAGUGGAUUGACUUUGCAGGGGCAAAGCCAAGGCAGCGGGG
.((((.((.((....((((((.....))).)))...)))).))))((..((.(((((.(((((..........))).)))))))..(((.((((((....)))))).)))))..)).... ( -39.70)
>consensus
ACGAUGCCAGCAUCUUCGGCCACAUUGGCAUGACUGGCGGCAUUGGCGACCACACUGACUCCCUGAUUCAGAUGGGCAGCAGUGGACUGGCUUUGCAGGGGCAAAGCCAAGGCAGCGGGC
.(((((((.((....((((((.....))).)))...)))))))))((..((.(((((.(((((..........))).)))))))...(((((((((....))))))))).))..)).... (-44.36 = -45.32 +   0.96)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:10:06 2006