Locus 5782

Sequence ID X_DroMel_CAF1
Location 14,995,439 – 14,995,539
Length 100
Max. P 0.846406
window9381 window9382

overview

Window 1

Location 14,995,439 – 14,995,539
Length 100
Sequences 6
Columns 107
Reading direction forward
Mean pairwise identity 80.35
Mean single sequence MFE -15.54
Consensus MFE -10.73
Energy contribution -10.43
Covariance contribution -0.30
Combinations/Pair 1.27
Mean z-score -1.90
Structure conservation index 0.69
SVM decision value 0.77
SVM RNA-class probability 0.846406
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14995439 100 + 22224390
CAAAGGCAGCCGAAUUAAAAAUAAUACAAAUUAUAAAG-C----GUUGCCUUUGUUUCGAACCAGAACCGGAAAUCAAAA-AAAGCAACAAUCAGCCGAAA-AAAAU
(((((((((((..........................)-.----))))))))))(((((..((......)).........-...((........)))))))-..... ( -17.87)
>DroPse_CAF1 15763 92 + 1
CCAAAGUCACUGGACAAGAAA---UAUAAUUCA-AAAGUCGUCGGUUGCUUUUGUUUCGAACCAGAACCGGAAAUCAAAA--AACCAACAA--------AA-AAUGU
.....(((....)))..(((.---.....))).-......((.((((.......(((((.........))))).......--)))).))..--------..-..... ( -11.04)
>DroSec_CAF1 13363 100 + 1
CGAAGGCAGCCGAAUUAAAAAUAAUACAAAUUAUAAAG-C----GUUGCCUUUGUUUCGAACCAGAACCGGAAAUCAAAA-AAAGCAACAAUCAGCCGAAA-AAAAU
(((((((((((..........................)-.----))))))))))(((((..((......)).........-...((........)))))))-..... ( -17.57)
>DroEre_CAF1 13408 100 + 1
CAAAGGCAGCCGAAUUAAAAAUAAUACAAAUUAUAAAG-C----GUUGCCUUUGUUUCGAACCAGAACCGGAAAUCAAAA-AAAGCAAAAAUCAGCCGAAA-AAAAU
(((((((((((..........................)-.----))))))))))(((((..((......)).........-...((........)))))))-..... ( -17.87)
>DroYak_CAF1 13355 102 + 1
CAAAGGCAGCCGAAUUAAAAAUAAUACAAAUUAUAAAG-C----GUUGCCUUUGUUUCGAACCAGAACCGGAAAUCAAAAAAAAGCAACAAUCAGCCGAAAAAAAAU
(((((((((((..........................)-.----))))))))))(((((..((......)).............((........)))))))...... ( -17.87)
>DroPer_CAF1 16084 91 + 1
CCAAAGUCACUGGACAAGAAA---UAUAAUUCA-AAAGUCGUCGGUUGCUUUUGUUUCGAACCAGAACCGGAAAUCAAAA--AACCAACAA---------A-AAUGU
.....(((....)))..(((.---.....))).-......((.((((.......(((((.........))))).......--)))).))..---------.-..... ( -11.04)
>consensus
CAAAGGCAGCCGAAUUAAAAAUAAUACAAAUUAUAAAG_C____GUUGCCUUUGUUUCGAACCAGAACCGGAAAUCAAAA_AAAGCAACAAUCAGCCGAAA_AAAAU
((((((((((..................................))))))))))(((((.........))))).................................. (-10.73 = -10.43 +  -0.30)

alignment

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secondary structure

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dotplot

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Window 2

Location 14,995,439 – 14,995,539
Length 100
Sequences 6
Columns 107
Reading direction reverse
Mean pairwise identity 80.35
Mean single sequence MFE -20.95
Consensus MFE -11.32
Energy contribution -11.60
Covariance contribution 0.28
Combinations/Pair 1.06
Mean z-score -1.99
Structure conservation index 0.54
SVM decision value 0.07
SVM RNA-class probability 0.568754
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14995439 100 - 22224390
AUUUU-UUUCGGCUGAUUGUUGCUUU-UUUUGAUUUCCGGUUCUGGUUCGAAACAAAGGCAAC----G-CUUUAUAAUUUGUAUUAUUUUUAAUUCGGCUGCCUUUG
.....-...(((((((..((((((((-((((((...(((....))).)))))..)))))))))----.-....(((((....))))).......)))))))...... ( -23.60)
>DroPse_CAF1 15763 92 - 1
ACAUU-UU--------UUGUUGGUU--UUUUGAUUUCCGGUUCUGGUUCGAAACAAAAGCAACCGACGACUUU-UGAAUUAUA---UUUCUUGUCCAGUGACUUUGG
.((((-..--------..(((((((--((((((...(((....))).)))))).......)))))))(((...-.(((.....---.)))..))).))))....... ( -16.61)
>DroSec_CAF1 13363 100 - 1
AUUUU-UUUCGGCUGAUUGUUGCUUU-UUUUGAUUUCCGGUUCUGGUUCGAAACAAAGGCAAC----G-CUUUAUAAUUUGUAUUAUUUUUAAUUCGGCUGCCUUCG
.....-...(((((((..((((((((-((((((...(((....))).)))))..)))))))))----.-....(((((....))))).......)))))))...... ( -23.60)
>DroEre_CAF1 13408 100 - 1
AUUUU-UUUCGGCUGAUUUUUGCUUU-UUUUGAUUUCCGGUUCUGGUUCGAAACAAAGGCAAC----G-CUUUAUAAUUUGUAUUAUUUUUAAUUCGGCUGCCUUUG
.....-...(((((((...(((((((-((((((...(((....))).)))))..)))))))).----.-....(((((....))))).......)))))))...... ( -19.90)
>DroYak_CAF1 13355 102 - 1
AUUUUUUUUCGGCUGAUUGUUGCUUUUUUUUGAUUUCCGGUUCUGGUUCGAAACAAAGGCAAC----G-CUUUAUAAUUUGUAUUAUUUUUAAUUCGGCUGCCUUUG
.........(((((((..(((((((((((((((...(((....))).)))))).)))))))))----.-....(((((....))))).......)))))))...... ( -25.40)
>DroPer_CAF1 16084 91 - 1
ACAUU-U---------UUGUUGGUU--UUUUGAUUUCCGGUUCUGGUUCGAAACAAAAGCAACCGACGACUUU-UGAAUUAUA---UUUCUUGUCCAGUGACUUUGG
.((((-.---------..(((((((--((((((...(((....))).)))))).......)))))))(((...-.(((.....---.)))..))).))))....... ( -16.61)
>consensus
AUUUU_UUUCGGCUGAUUGUUGCUUU_UUUUGAUUUCCGGUUCUGGUUCGAAACAAAGGCAAC____G_CUUUAUAAUUUGUAUUAUUUUUAAUUCGGCUGCCUUUG
..................(((((((..((((((...(((....))).))))))...)))))))............................................ (-11.32 = -11.60 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:56:15 2006