Locus 6585

Sequence ID X_DroMel_CAF1
Location 16,439,480 – 16,439,606
Length 126
Max. P 0.985026
window10760 window10761 window10762

overview

Window 0

Location 16,439,480 – 16,439,579
Length 99
Sequences 5
Columns 99
Reading direction forward
Mean pairwise identity 86.06
Mean single sequence MFE -37.58
Consensus MFE -26.78
Energy contribution -26.98
Covariance contribution 0.20
Combinations/Pair 1.25
Mean z-score -3.20
Structure conservation index 0.71
SVM decision value 1.99
SVM RNA-class probability 0.985026
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16439480 99 + 22224390
GUGGGCAACUCUCUAGCGGGAGUAGGAGCUCCUGUAGCCACAACACCAGCGGCAACAGCUGCUGCUCCAUUGACCAACAUCUUUGGCAAUCCCACGCCA
(((((..((((((....)))))).(((((..((((.(((.(.......).))).)))).....)))))((((.((((.....))))))))))))).... ( -37.30)
>DroSec_CAF1 5171 99 + 1
GUGGGCAACUCUCUAGUGGGAGUAGGAGCUCCUGUAGCCACAACACCAGCGGCAACAGCCGCUGCUCCAUUGGCCAACUUUUUUGGCAAUCCCACGCCA
(((((..((((((....)))))).(((((...(((....))).....((((((....)))))))))))....(((((.....)))))...))))).... ( -41.40)
>DroSim_CAF1 6152 99 + 1
GUGGGCAACUCUCUAGUGGGAGUAGGAGCUCCUGUAGCCACAACACCAGCGCCAACAGCCGCUGCUCCAUUGGCCAACUUUUUUGGCAACCCCACGCCA
(((((..((((((....)))))).(((((...(((....))).....((((.(....).)))))))))....(((((.....)))))...))))).... ( -34.50)
>DroEre_CAF1 5219 90 + 1
GUGGGCAACUCUCUAGUGGCAGCAGGAACUCCUGCAGCUACAACGCCCGCGGCAACAGCCGCUG---------CCAACAUCUUUGGCAAUCACACGCCA
...(((.........(((((.(((((....))))).))))).......(((((....)))))((---------((((.....)))))).......))). ( -39.00)
>DroYak_CAF1 5250 99 + 1
GUUGGCAACUCCCUAGUGCCAGCAGGAACUCCUGCAGCUACAACACCCGCGGCAACAGCCGCUGCUCCGUUGGCCAGCAUCUUCGGUAAUCCCACGCCA
((((((.......((((....(((((....))))).))))((((..(.(((((....))))).)....))))))))))......(((........))). ( -35.70)
>consensus
GUGGGCAACUCUCUAGUGGGAGUAGGAGCUCCUGUAGCCACAACACCAGCGGCAACAGCCGCUGCUCCAUUGGCCAACAUCUUUGGCAAUCCCACGCCA
((.(((.........((((..(((((....)))))..)))).....(((((((....)))))))........))).))......(((........))). (-26.78 = -26.98 +   0.20)

alignment

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secondary structure

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dotplot

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Window 1

Location 16,439,515 – 16,439,606
Length 91
Sequences 4
Columns 91
Reading direction forward
Mean pairwise identity 90.29
Mean single sequence MFE -31.11
Consensus MFE -25.45
Energy contribution -26.01
Covariance contribution 0.56
Combinations/Pair 1.16
Mean z-score -2.01
Structure conservation index 0.82
SVM decision value 0.92
SVM RNA-class probability 0.881797
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16439515 91 + 22224390
AGCCACAACACCAGCGGCAACAGCUGCUGCUCCAUUGACCAACAUCUUUGGCAAUCCCACGCCAGUUGCUGCUGCCGCGCCUGUCUUCGGC
.(((...(((...((((((.((((.(((((...((((.((((.....)))))))).....).)))).)))).))))))...)))....))) ( -33.10)
>DroSec_CAF1 5206 91 + 1
AGCCACAACACCAGCGGCAACAGCCGCUGCUCCAUUGGCCAACUUUUUUGGCAAUCCCACGCCAGUUGCUGCGGCCGCCCCUGUCUUCGGC
.(((...(((...(((((..((((.(((((.......(((((.....)))))........).)))).))))..)))))...)))....))) ( -33.06)
>DroSim_CAF1 6187 91 + 1
AGCCACAACACCAGCGCCAACAGCCGCUGCUCCAUUGGCCAACUUUUUUGGCAACCCCACGCCAGUUGCUGCGGCCGCGCCUGUCUUCGGC
.(((...(((...((((.....(((((.((...((((((.........(((.....))).)))))).)).))))).)))).)))....))) ( -27.50)
>DroYak_CAF1 5285 91 + 1
AGCUACAACACCCGCGGCAACAGCCGCUGCUCCGUUGGCCAGCAUCUUCGGUAAUCCCACGCCAAUUGCUGCGGCUGCGCCCGUCUUCGGC
............((.(((..(((((((.((...((((((......(....).........)))))).)).))))))).)))))........ ( -30.76)
>consensus
AGCCACAACACCAGCGGCAACAGCCGCUGCUCCAUUGGCCAACAUCUUUGGCAAUCCCACGCCAGUUGCUGCGGCCGCGCCUGUCUUCGGC
.(((...(((...(((((..((((.(((((.......(((((.....)))))........).)))).))))..)))))...)))....))) (-25.45 = -26.01 +   0.56)

alignment

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secondary structure

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dotplot

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Window 2

Location 16,439,515 – 16,439,606
Length 91
Sequences 4
Columns 91
Reading direction reverse
Mean pairwise identity 90.29
Mean single sequence MFE -40.48
Consensus MFE -32.80
Energy contribution -33.42
Covariance contribution 0.63
Combinations/Pair 1.17
Mean z-score -2.28
Structure conservation index 0.81
SVM decision value 1.20
SVM RNA-class probability 0.929555
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16439515 91 - 22224390
GCCGAAGACAGGCGCGGCAGCAGCAACUGGCGUGGGAUUGCCAAAGAUGUUGGUCAAUGGAGCAGCAGCUGUUGCCGCUGGUGUUGUGGCU
((((..((((...(((((((((((...(((((......)))))....(((((.((....)).))))))))))))))))...)))).)))). ( -45.00)
>DroSec_CAF1 5206 91 - 1
GCCGAAGACAGGGGCGGCCGCAGCAACUGGCGUGGGAUUGCCAAAAAAGUUGGCCAAUGGAGCAGCGGCUGUUGCCGCUGGUGUUGUGGCU
((((..((((..((((((.(((((...(((((......))))).....((((.((...))..)))).))))).))))))..)))).)))). ( -41.20)
>DroSim_CAF1 6187 91 - 1
GCCGAAGACAGGCGCGGCCGCAGCAACUGGCGUGGGGUUGCCAAAAAAGUUGGCCAAUGGAGCAGCGGCUGUUGGCGCUGGUGUUGUGGCU
(((.......)))..((((((((((.(..((((......(((((.....)))))((((((........))))))))))..))))))))))) ( -40.10)
>DroYak_CAF1 5285 91 - 1
GCCGAAGACGGGCGCAGCCGCAGCAAUUGGCGUGGGAUUACCGAAGAUGCUGGCCAACGGAGCAGCGGCUGUUGCCGCGGGUGUUGUAGCU
(((((...(((((((((((((.((..(((((.(((.(((......))).))))))))....)).))))))).)))).))....)))..)). ( -35.60)
>consensus
GCCGAAGACAGGCGCGGCCGCAGCAACUGGCGUGGGAUUGCCAAAAAAGUUGGCCAAUGGAGCAGCGGCUGUUGCCGCUGGUGUUGUGGCU
(((...((((..((((((.(((((...(((((......))))).....((((.((...))..)))).))))).))))))..))))..))). (-32.80 = -33.42 +   0.63)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:17:37 2006