Locus 6916

Sequence ID X_DroMel_CAF1
Location 17,308,273 – 17,308,365
Length 92
Max. P 0.796968
window11311 window11312

overview

Window 1

Location 17,308,273 – 17,308,365
Length 92
Sequences 5
Columns 93
Reading direction forward
Mean pairwise identity 93.71
Mean single sequence MFE -19.80
Consensus MFE -17.40
Energy contribution -17.84
Covariance contribution 0.44
Combinations/Pair 1.05
Mean z-score -1.35
Structure conservation index 0.88
SVM decision value 0.60
SVM RNA-class probability 0.796968
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17308273 92 + 22224390
AAAAAAAGGCGGCCAAAAUGCAGCCAAAUCUCUUGGCUCAUUUCUAAGGCACACUUUCACGGCAGCCAA-AACGAAAAAUGACACGAACCGAG
.......(((.(((.(((((.((((((.....)))))))))))..(((.....)))....))).)))..-....................... ( -22.10)
>DroSec_CAF1 25662 89 + 1
---AAAGGGCGGCCAAAAUGCAGCCAAAUCUCUUGGCUCAUUUCUAAGGCACACUUUCACGGCAGCCAA-AACGAAAAAUGACACGAACCGAG
---....(((.(((.(((((.((((((.....)))))))))))..(((.....)))....))).)))..-....................... ( -21.90)
>DroSim_CAF1 15361 89 + 1
---AAAGGGCGGCCAAAAUGCAGCCAAAUCUCUUGGCUCAUUUCUAAGGCACACUUUCACGGCAGCCAA-AACGAAAAAUGACACGAACCGAG
---....(((.(((.(((((.((((((.....)))))))))))..(((.....)))....))).)))..-....................... ( -21.90)
>DroEre_CAF1 26798 89 + 1
---AAAGGGCGGCCCAAAUGCAGCCAAAUCUCUAGACUCAUUUCUAAAGCACACUUUCACGGCAGCCAA-AGCGAAAAAUGACACGAGCCGAG
---(((((((.((......)).)))....((.((((......)))).))....))))..((((.((...-.))(........)....)))).. ( -15.20)
>DroYak_CAF1 16251 90 + 1
---AAAGGGCGGCCAAAAUGCAGCCAAAUCUCUUGCCUCAUUUCUAAGGCACACUUUCACGGCAGCCAAAAGAGAAAAAUGACAUGAACCGAG
---....(((.((......)).)))...((((((((((........))))..........((...))..)))))).................. ( -17.90)
>consensus
___AAAGGGCGGCCAAAAUGCAGCCAAAUCUCUUGGCUCAUUUCUAAGGCACACUUUCACGGCAGCCAA_AACGAAAAAUGACACGAACCGAG
.......(((.(((.(((((.((((((.....)))))))))))..((((....))))...))).))).......................... (-17.40 = -17.84 +   0.44)

alignment

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secondary structure

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dotplot

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Window 2

Location 17,308,273 – 17,308,365
Length 92
Sequences 5
Columns 93
Reading direction reverse
Mean pairwise identity 93.71
Mean single sequence MFE -26.12
Consensus MFE -23.18
Energy contribution -23.34
Covariance contribution 0.16
Combinations/Pair 1.11
Mean z-score -1.30
Structure conservation index 0.89
SVM decision value 0.52
SVM RNA-class probability 0.766236
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17308273 92 - 22224390
CUCGGUUCGUGUCAUUUUUCGUU-UUGGCUGCCGUGAAAGUGUGCCUUAGAAAUGAGCCAAGAGAUUUGGCUGCAUUUUGGCCGCCUUUUUUU
(.((((....((((.........-.)))).)))).)...(((.(((...(((((((((((((...))))))).))))))))))))........ ( -26.20)
>DroSec_CAF1 25662 89 - 1
CUCGGUUCGUGUCAUUUUUCGUU-UUGGCUGCCGUGAAAGUGUGCCUUAGAAAUGAGCCAAGAGAUUUGGCUGCAUUUUGGCCGCCCUUU---
(.((((....((((.........-.)))).)))).)...(((.(((...(((((((((((((...))))))).)))))))))))).....--- ( -26.20)
>DroSim_CAF1 15361 89 - 1
CUCGGUUCGUGUCAUUUUUCGUU-UUGGCUGCCGUGAAAGUGUGCCUUAGAAAUGAGCCAAGAGAUUUGGCUGCAUUUUGGCCGCCCUUU---
(.((((....((((.........-.)))).)))).)...(((.(((...(((((((((((((...))))))).)))))))))))).....--- ( -26.20)
>DroEre_CAF1 26798 89 - 1
CUCGGCUCGUGUCAUUUUUCGCU-UUGGCUGCCGUGAAAGUGUGCUUUAGAAAUGAGUCUAGAGAUUUGGCUGCAUUUGGGCCGCCCUUU---
..(((((((.((((.....((((-((.((....)).))))))..(((((((......)))))))...))))......)))))))......--- ( -25.60)
>DroYak_CAF1 16251 90 - 1
CUCGGUUCAUGUCAUUUUUCUCUUUUGGCUGCCGUGAAAGUGUGCCUUAGAAAUGAGGCAAGAGAUUUGGCUGCAUUUUGGCCGCCCUUU---
((((((....((((...........)))).))).........(((((((....))))))).)))....(((.((......)).)))....--- ( -26.40)
>consensus
CUCGGUUCGUGUCAUUUUUCGUU_UUGGCUGCCGUGAAAGUGUGCCUUAGAAAUGAGCCAAGAGAUUUGGCUGCAUUUUGGCCGCCCUUU___
(.((((....((((...........)))).)))).)...(((.(((...(((((((((((((...))))))).))))))))))))........ (-23.18 = -23.34 +   0.16)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:25:53 2006