Locus 1638

Sequence ID 2R_DroMel_CAF1
Location 6,188,067 – 6,188,161
Length 94
Max. P 0.796561
window2742 window2743

overview

Window 2

Location 6,188,067 – 6,188,161
Length 94
Sequences 6
Columns 97
Reading direction forward
Mean pairwise identity 83.44
Mean single sequence MFE -32.50
Consensus MFE -25.05
Energy contribution -26.05
Covariance contribution 1.00
Combinations/Pair 1.20
Mean z-score -2.23
Structure conservation index 0.77
SVM decision value 0.60
SVM RNA-class probability 0.796561
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6188067 94 + 20766785
GCUAUUCGGA-AGUAUUCGGACCACGUCAGCUGGCCAAAUGCGAGUUGUUGGCCAAA--CGACGAUGUCUUGGCCAACACCUUCCUGUAAGCUAUAA
(((...(((.-.(((((.((.((((....).))))).)))))(((.((((((((((.--.(((...))))))))))))).))).)))..)))..... ( -32.40)
>DroSec_CAF1 19256 94 + 1
GCUGUUCGGA-AGUAUUCGGACCACGUCAGCUGGCCAAAUGCGAGUUGUUGGCCAAA--CGACGAUGUCUUGGCCAACACCUUCCUGUAAGCUAUAA
(((...(((.-.(((((.((.((((....).))))).)))))(((.((((((((((.--.(((...))))))))))))).))).)))..)))..... ( -33.50)
>DroSim_CAF1 19170 94 + 1
GCUGUUCGGA-AGUAUUCGGACCACGUCAGCUGGCCAAAUGCGAGUUGUUGGCCAAA--CGACGAUGUCUUGGCCAACACCUUCCUGUAAGCUAUAA
(((...(((.-.(((((.((.((((....).))))).)))))(((.((((((((((.--.(((...))))))))))))).))).)))..)))..... ( -33.50)
>DroEre_CAF1 22317 96 + 1
GCCGUUCGGA-AGUAUUCGGCCCACGUCAGCUGGCCAAAUGCGAGUUGUUGGCCAAACACGAGGAUGUCUUGGCCAACACCUUCCUGUAAGCUAUAA
((....(((.-.(((((.((((..(....)..)))).)))))(((.(((((((((((((......))).)))))))))).))).)))...))..... ( -33.20)
>DroYak_CAF1 19903 94 + 1
GCUGUUCGGA-AGUAUUCGGACCACGUCAGCUGGCCAAAUGCGAGUUGUUGGCCAAA--CGACGAUGUCUUGGCCAACACCUUCCUGUAAGCUAUAA
(((...(((.-.(((((.((.((((....).))))).)))))(((.((((((((((.--.(((...))))))))))))).))).)))..)))..... ( -33.50)
>DroAna_CAF1 25269 74 + 1
GGCGUUCGACUCGGGUUCGGGUUACGUCAG-------GACCCGGGCUGUU----------------GUCUUGGCCAACACCUGGCUGUAGCCCAUAA
(((....(((...((((((((((.......-------))))))))))...----------------)))..(((((.....)))))...)))..... ( -28.90)
>consensus
GCUGUUCGGA_AGUAUUCGGACCACGUCAGCUGGCCAAAUGCGAGUUGUUGGCCAAA__CGACGAUGUCUUGGCCAACACCUUCCUGUAAGCUAUAA
(((...(((...(((((.((.((((....).))))).)))))(((.((((((((((.............)))))))))).))).)))..)))..... (-25.05 = -26.05 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 6,188,067 – 6,188,161
Length 94
Sequences 6
Columns 97
Reading direction reverse
Mean pairwise identity 83.44
Mean single sequence MFE -32.92
Consensus MFE -22.27
Energy contribution -23.63
Covariance contribution 1.36
Combinations/Pair 1.17
Mean z-score -2.42
Structure conservation index 0.68
SVM decision value 0.32
SVM RNA-class probability 0.686118
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6188067 94 - 20766785
UUAUAGCUUACAGGAAGGUGUUGGCCAAGACAUCGUCG--UUUGGCCAACAACUCGCAUUUGGCCAGCUGACGUGGUCCGAAUACU-UCCGAAUAGC
.....(((....(((((...(((((((......(((((--.((((((((..........)))))))).)))))))).))))...))-)))....))) ( -34.90)
>DroSec_CAF1 19256 94 - 1
UUAUAGCUUACAGGAAGGUGUUGGCCAAGACAUCGUCG--UUUGGCCAACAACUCGCAUUUGGCCAGCUGACGUGGUCCGAAUACU-UCCGAACAGC
.....(((....(((((...(((((((......(((((--.((((((((..........)))))))).)))))))).))))...))-)))....))) ( -34.20)
>DroSim_CAF1 19170 94 - 1
UUAUAGCUUACAGGAAGGUGUUGGCCAAGACAUCGUCG--UUUGGCCAACAACUCGCAUUUGGCCAGCUGACGUGGUCCGAAUACU-UCCGAACAGC
.....(((....(((((...(((((((......(((((--.((((((((..........)))))))).)))))))).))))...))-)))....))) ( -34.20)
>DroEre_CAF1 22317 96 - 1
UUAUAGCUUACAGGAAGGUGUUGGCCAAGACAUCCUCGUGUUUGGCCAACAACUCGCAUUUGGCCAGCUGACGUGGGCCGAAUACU-UCCGAACGGC
.....(((....(((((.(((((((((.(((((....))))))))))))))......((((((((.((....)).)))))))).))-)))....))) ( -40.30)
>DroYak_CAF1 19903 94 - 1
UUAUAGCUUACAGGAAGGUGUUGGCCAAGACAUCGUCG--UUUGGCCAACAACUCGCAUUUGGCCAGCUGACGUGGUCCGAAUACU-UCCGAACAGC
.....(((....(((((...(((((((......(((((--.((((((((..........)))))))).)))))))).))))...))-)))....))) ( -34.20)
>DroAna_CAF1 25269 74 - 1
UUAUGGGCUACAGCCAGGUGUUGGCCAAGAC----------------AACAGCCCGGGUC-------CUGACGUAACCCGAACCCGAGUCGAACGCC
.....(((....))).(((((((((......----------------....)))(((((.-------(.(.......).).))))).....)))))) ( -19.70)
>consensus
UUAUAGCUUACAGGAAGGUGUUGGCCAAGACAUCGUCG__UUUGGCCAACAACUCGCAUUUGGCCAGCUGACGUGGUCCGAAUACU_UCCGAACAGC
.....(((....(((.(((((((((((......(((((...((((((((..........)))))))).)))))))).)).)))))).)))....))) (-22.27 = -23.63 +   1.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:09:30 2006