Locus 1146

Sequence ID 3R_DroMel_CAF1
Location 3,426,699 – 3,426,802
Length 103
Max. P 0.954137
window1883 window1884

overview

Window 3

Location 3,426,699 – 3,426,802
Length 103
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 91.41
Mean single sequence MFE -31.48
Consensus MFE -28.94
Energy contribution -29.50
Covariance contribution 0.56
Combinations/Pair 1.07
Mean z-score -1.65
Structure conservation index 0.92
SVM decision value 1.44
SVM RNA-class probability 0.954137
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3426699 103 + 27905053
UCCGCUUGUUUUUCAUAAUCCUUACGCCACAGGCAACGGCCAGGACCAAUGUGCAGCCGUUGGA----------------ACAACAGCACCA-AAGUGCAAAGUGGCUGGCGGAAUUUAU
((((((((.....))..........(((((...(((((((..(.((....)).).)))))))..----------------......((((..-..))))...))))).))))))...... ( -34.30)
>DroSec_CAF1 24895 103 + 1
UCCGCUUGUUUUUCAUAAUCCUUACGCCACAGGCAACGACCAGGACCAAUGUGCAGCCGUUGGA----------------ACAACAGCACCA-AAGUGCAAAGUGGCUGGAGGAAUUUAU
..................(((((..(((((.(....).....(..((((((......)))))).----------------.)....((((..-..))))...)))))..)))))...... ( -28.90)
>DroSim_CAF1 39369 103 + 1
UCCGCUUGUUUUUCAUAAUCCUUACGCCACAGGCAACGGCCAGGACCAAUGUGCAGCCGUUGGA----------------ACAACAGCACCA-AAGUGCAAAGUGGCUGGCGGAAUUUAU
((((((((.....))..........(((((...(((((((..(.((....)).).)))))))..----------------......((((..-..))))...))))).))))))...... ( -34.30)
>DroEre_CAF1 35551 103 + 1
UCCGCUUGUUUUUCAUAAUCCUUACGCCACAGGCAACGGCCAGGACCAAUGUGCAGCCGUUGGA----------------ACAACAGCACCA-AAGUGCAAGGUGGCUGGCGGAAUUUAU
((((((((.....))..........(((((...(((((((..(.((....)).).)))))))..----------------......((((..-..))))...))))).))))))...... ( -34.10)
>DroYak_CAF1 42610 103 + 1
UCCGCUUGUUUUUCAUAAUCCUUACGCCACAGGCAACGGCCAGGACCAAUGUGCAGCCGUUGGA----------------ACAACAGCAGCA-AAGUGCAAAGUGGCUGGCGGAAUUUAU
((((((((.....))..........(((((.(((....)))........((..(.((.((((..----------------....)))).)).-..)..))..))))).))))))...... ( -31.70)
>DroAna_CAF1 24106 119 + 1
UCCGCUUGUUUUUCAUAAUCCUUACGCCGCAGGCAAUAGCCAGGACCAAUGUGCAGC-GUUGAAAAAAAUUGAACCAAAAACAAAAACACCAAAAGUGCAAAGUGGCUGGCGGAAUUUAU
((((((((.....))..........(((((.(((....))).((..(((((.....)-)))).......(((.........))).....))...........))))).))))))...... ( -25.60)
>consensus
UCCGCUUGUUUUUCAUAAUCCUUACGCCACAGGCAACGGCCAGGACCAAUGUGCAGCCGUUGGA________________ACAACAGCACCA_AAGUGCAAAGUGGCUGGCGGAAUUUAU
((((((((.....))..........(((((...(((((((..(.((....)).).)))))))........................((((.....))))...))))).))))))...... (-28.94 = -29.50 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 3,426,699 – 3,426,802
Length 103
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 91.41
Mean single sequence MFE -33.67
Consensus MFE -29.41
Energy contribution -29.83
Covariance contribution 0.42
Combinations/Pair 1.10
Mean z-score -1.64
Structure conservation index 0.87
SVM decision value 0.60
SVM RNA-class probability 0.793938
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3426699 103 - 27905053
AUAAAUUCCGCCAGCCACUUUGCACUU-UGGUGCUGUUGU----------------UCCAACGGCUGCACAUUGGUCCUGGCCGUUGCCUGUGGCGUAAGGAUUAUGAAAAACAAGCGGA
......((((((((((.....((((..-..)))).((((.----------------..)))))))))..(((.((((((.((((.......))))...)))))))))........))))) ( -34.90)
>DroSec_CAF1 24895 103 - 1
AUAAAUUCCUCCAGCCACUUUGCACUU-UGGUGCUGUUGU----------------UCCAACGGCUGCACAUUGGUCCUGGUCGUUGCCUGUGGCGUAAGGAUUAUGAAAAACAAGCGGA
......(((..(((((.....((((..-..)))).((((.----------------..)))))))))..(((.((((((...(((((....)))))..)))))))))..........))) ( -29.10)
>DroSim_CAF1 39369 103 - 1
AUAAAUUCCGCCAGCCACUUUGCACUU-UGGUGCUGUUGU----------------UCCAACGGCUGCACAUUGGUCCUGGCCGUUGCCUGUGGCGUAAGGAUUAUGAAAAACAAGCGGA
......((((((((((.....((((..-..)))).((((.----------------..)))))))))..(((.((((((.((((.......))))...)))))))))........))))) ( -34.90)
>DroEre_CAF1 35551 103 - 1
AUAAAUUCCGCCAGCCACCUUGCACUU-UGGUGCUGUUGU----------------UCCAACGGCUGCACAUUGGUCCUGGCCGUUGCCUGUGGCGUAAGGAUUAUGAAAAACAAGCGGA
......((((((((((.....((((..-..)))).((((.----------------..)))))))))..(((.((((((.((((.......))))...)))))))))........))))) ( -34.90)
>DroYak_CAF1 42610 103 - 1
AUAAAUUCCGCCAGCCACUUUGCACUU-UGCUGCUGUUGU----------------UCCAACGGCUGCACAUUGGUCCUGGCCGUUGCCUGUGGCGUAAGGAUUAUGAAAAACAAGCGGA
......(((((..(((((...(((...-(((.(((((((.----------------..))))))).)))....(((....)))..)))..)))))..........((.....)).))))) ( -33.50)
>DroAna_CAF1 24106 119 - 1
AUAAAUUCCGCCAGCCACUUUGCACUUUUGGUGUUUUUGUUUUUGGUUCAAUUUUUUUCAAC-GCUGCACAUUGGUCCUGGCUAUUGCCUGCGGCGUAAGGAUUAUGAAAAACAAGCGGA
......(((((..........((((.....))))..((((((((.((..(((((((....((-((((((((.((((....)))).))..))))))))))))))))).))))))))))))) ( -34.70)
>consensus
AUAAAUUCCGCCAGCCACUUUGCACUU_UGGUGCUGUUGU________________UCCAACGGCUGCACAUUGGUCCUGGCCGUUGCCUGUGGCGUAAGGAUUAUGAAAAACAAGCGGA
......((((((((((.....((((.....)))).((((...................)))))))))..(((.((((((.((((.......))))...)))))))))........))))) (-29.41 = -29.83 +   0.42)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:02:12 2006