Locus 1086

Sequence ID 3L_DroMel_CAF1
Location 3,176,618 – 3,176,715
Length 97
Max. P 0.848511
window1682 window1683

overview

Window 2

Location 3,176,618 – 3,176,715
Length 97
Sequences 6
Columns 106
Reading direction forward
Mean pairwise identity 78.53
Mean single sequence MFE -28.28
Consensus MFE -17.94
Energy contribution -18.83
Covariance contribution 0.89
Combinations/Pair 1.10
Mean z-score -1.80
Structure conservation index 0.63
SVM decision value 0.78
SVM RNA-class probability 0.848511
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3176618 97 + 23771897
-------ACAACACUGAUCUACCCUAGUAUUCACAGGAAGUUGCAUCCCUGGCAUCCAGAAGCCUCUAGAAGUUUCUAGAGACUUCCA--GUUCGGGUCGGGUUUU
-------..(((.(((((((......((....)).((((((.......((((...))))....(((((((....))))))))))))).--....)))))))))).. ( -28.00)
>DroSec_CAF1 13663 97 + 1
-------ACAACACUGAUCUACCCUAGUAUUCACAGGAAGUUGCAUCCCUGGCAACCAGAAGCCUCUAGAAGUUUCUAGAGUCUUCGA--GUUCGGGUCGGUUUUU
-------.....((((((((..(((.((....)))))..(((((.......)))))..((((.(((((((....))))))).))))..--....)))))))).... ( -29.60)
>DroSim_CAF1 16909 97 + 1
-------ACAACACUGAUCUACCCCAGUAUUCACAGGAAGUUGCAUCCCUGGCAACCAGAAGCCUCUAGAAGUUUCUAGAGUCUUCGA--GUUCGGGUCGGUUUUU
-------........((((.((((....((((.......(((((.......)))))..((((.(((((((....))))))).))))))--))..)))).))))... ( -29.60)
>DroEre_CAF1 13769 97 + 1
-------ACAACACUGAUCUACGUUAAUAUUCACAGGAAAUUGCAUCCCUGGCAUCUGGAAGACUCUAGAAGUUUCUGGACGCUUCGA--UUUCGGGUCGGAUUUU
-------......(((((((..((........))..((((((((.(((..(((.((((((....)))))).)))...))).))...))--)))))))))))..... ( -24.20)
>DroYak_CAF1 13923 97 + 1
-------ACAACACUGAUCUCCCUGAGUACGCACAGGAAAUUGCAUCCCUGGCAUCUGGAAGCCUCUAGAAGUUUCUAGACUCUUCGA--GUUCGGGUCGGAUUUU
-------........(((((.((((((...((.((((..........))))))..((.((((..((((((....))))))..)))).)--)))))))..))))).. ( -29.50)
>DroPer_CAF1 14436 94 + 1
CUCGGUG-CAACUCUG-----UGCCA----GUACCGGAAAUAGCAGCCCUGGAUUCUCGUAGCCUCUAGAAACGUCUAGAAAAUUCUACGCUUGGGGUUGG--UUU
.((((((-(.......-----.....----)))))))......((((((..(.....(((((..((((((....)))))).....))))).)..)))))).--... ( -28.80)
>consensus
_______ACAACACUGAUCUACCCUAGUAUUCACAGGAAAUUGCAUCCCUGGCAUCCAGAAGCCUCUAGAAGUUUCUAGAGUCUUCGA__GUUCGGGUCGGAUUUU
.............(((((((.............((((..........)))).......((((..((((((....))))))..))))........)))))))..... (-17.94 = -18.83 +   0.89)

alignment

Postscript

secondary structure

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dotplot

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Window 3

Location 3,176,618 – 3,176,715
Length 97
Sequences 6
Columns 106
Reading direction reverse
Mean pairwise identity 78.53
Mean single sequence MFE -28.12
Consensus MFE -17.49
Energy contribution -18.43
Covariance contribution 0.95
Combinations/Pair 1.09
Mean z-score -1.48
Structure conservation index 0.62
SVM decision value 0.19
SVM RNA-class probability 0.627462
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3176618 97 - 23771897
AAAACCCGACCCGAAC--UGGAAGUCUCUAGAAACUUCUAGAGGCUUCUGGAUGCCAGGGAUGCAACUUCCUGUGAAUACUAGGGUAGAUCAGUGUUGU-------
........((((...(--..((((((((((((....))))))))))))..)....((((((......)))))).........)))).............------- ( -35.10)
>DroSec_CAF1 13663 97 - 1
AAAAACCGACCCGAAC--UCGAAGACUCUAGAAACUUCUAGAGGCUUCUGGUUGCCAGGGAUGCAACUUCCUGUGAAUACUAGGGUAGAUCAGUGUUGU-------
........((((.(((--(.((((.(((((((....))))))).)))).))))..((((((......)))))).........)))).............------- ( -29.60)
>DroSim_CAF1 16909 97 - 1
AAAAACCGACCCGAAC--UCGAAGACUCUAGAAACUUCUAGAGGCUUCUGGUUGCCAGGGAUGCAACUUCCUGUGAAUACUGGGGUAGAUCAGUGUUGU-------
......(((((.(...--.)((((.(((((((....))))))).)))).))))).((((((......))))))..((((((((......))))))))..------- ( -30.60)
>DroEre_CAF1 13769 97 - 1
AAAAUCCGACCCGAAA--UCGAAGCGUCCAGAAACUUCUAGAGUCUUCCAGAUGCCAGGGAUGCAAUUUCCUGUGAAUAUUAACGUAGAUCAGUGUUGU-------
......((((.(...(--((...(((((..(((((((...)))).)))..)))))((((((......))))))..............)))..).)))).------- ( -19.40)
>DroYak_CAF1 13923 97 - 1
AAAAUCCGACCCGAAC--UCGAAGAGUCUAGAAACUUCUAGAGGCUUCCAGAUGCCAGGGAUGCAAUUUCCUGUGCGUACUCAGGGAGAUCAGUGUUGU-------
......(((((.((.(--((((((..((((((....))))))..))))...((((((((((......)))))).)))).......))).)).).)))).------- ( -31.60)
>DroPer_CAF1 14436 94 - 1
AAA--CCAACCCCAAGCGUAGAAUUUUCUAGACGUUUCUAGAGGCUACGAGAAUCCAGGGCUGCUAUUUCCGGUAC----UGGCA-----CAGAGUUG-CACCGAG
...--.((((......(((((....(((((((....))))))).))))).....((((..(((.......)))..)----)))..-----....))))-....... ( -22.40)
>consensus
AAAAACCGACCCGAAC__UCGAAGACUCUAGAAACUUCUAGAGGCUUCUAGAUGCCAGGGAUGCAACUUCCUGUGAAUACUAGGGUAGAUCAGUGUUGU_______
......((((.(........((((.(((((((....))))))).)))).......((((((......))))))...................).))))........ (-17.49 = -18.43 +   0.95)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:58:42 2006