Locus 1720

Sequence ID 2R_DroMel_CAF1
Location 6,476,488 – 6,476,594
Length 106
Max. P 0.978669
window2871 window2872

overview

Window 1

Location 6,476,488 – 6,476,594
Length 106
Sequences 4
Columns 106
Reading direction forward
Mean pairwise identity 93.33
Mean single sequence MFE -28.55
Consensus MFE -25.64
Energy contribution -25.70
Covariance contribution 0.06
Combinations/Pair 1.03
Mean z-score -2.44
Structure conservation index 0.90
SVM decision value 1.82
SVM RNA-class probability 0.978669
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6476488 106 + 20766785
UGUCACACUUAUUUCUCGCUGUGUAAGCGCAUAAAGUCGGCCAGUAAGCAGGACAGCAUUAUCAUUGUAAUGCAUUUUGCUUAGCUCUGACUUGACUUUUAUGCAU
.................(((.....)))((((((((((((.((((((((((((..(((((((....))))))).)))))))))...))).).)))).))))))).. ( -31.60)
>DroSec_CAF1 44630 104 + 1
--UCAUACUUAUUUCUCCCGGUGUAAGCGCAUAAAGUCGGCCAGUAAGCAGGACAGCAUUAUCAUUGUAAUGCAUUUUGCUUAGCUCUGACUUGACUUUUAUGCAU
--.....(((((.((....)).))))).((((((((((((.((((((((((((..(((((((....))))))).)))))))))...))).).)))).))))))).. ( -30.50)
>DroEre_CAF1 42822 104 + 1
--CCACAAUUUUUUCUCGCGGUGUAGGCGCAUAAAGUCGGCCCGUAAGCAGGACAGCAUUAUCAUUGUAAUGCAUUUUGCUUAGCUCUGACUUGACUUUUAUGCAU
--...............((.......))((((((((((((..(.(((((((((..(((((((....))))))).))))))))))..))))))......)))))).. ( -27.90)
>DroYak_CAF1 47302 104 + 1
--CCACAAUCAUUUCUCCCCGUGUAAGCGCAUAAAGUCGGCCCGUAAGCACGACAGCAUUAUCAUUGUAAUGCAUUUUGCUUAGCUCUGACUUGACUUUUAUGCAU
--..................(((((((.(....(((((((..(.((((((.((..(((((((....))))))).)).)))))))..)))))))..).))))))).. ( -24.20)
>consensus
__CCACAAUUAUUUCUCCCGGUGUAAGCGCAUAAAGUCGGCCAGUAAGCAGGACAGCAUUAUCAUUGUAAUGCAUUUUGCUUAGCUCUGACUUGACUUUUAUGCAU
....................(((((((.(....(((((((....(((((((((..(((((((....))))))).)))))))))...)))))))..).))))))).. (-25.64 = -25.70 +   0.06)

alignment

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secondary structure

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dotplot

Postscript

Window 2

Location 6,476,488 – 6,476,594
Length 106
Sequences 4
Columns 106
Reading direction reverse
Mean pairwise identity 93.33
Mean single sequence MFE -30.12
Consensus MFE -24.71
Energy contribution -25.52
Covariance contribution 0.81
Combinations/Pair 1.06
Mean z-score -2.72
Structure conservation index 0.82
SVM decision value 1.24
SVM RNA-class probability 0.934926
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6476488 106 - 20766785
AUGCAUAAAAGUCAAGUCAGAGCUAAGCAAAAUGCAUUACAAUGAUAAUGCUGUCCUGCUUACUGGCCGACUUUAUGCGCUUACACAGCGAGAAAUAAGUGUGACA
..(((((((.(((..(((((...((((((....((((((......)))))).....))))))))))).))))))))))(.((((((....(....)..))))))). ( -31.00)
>DroSec_CAF1 44630 104 - 1
AUGCAUAAAAGUCAAGUCAGAGCUAAGCAAAAUGCAUUACAAUGAUAAUGCUGUCCUGCUUACUGGCCGACUUUAUGCGCUUACACCGGGAGAAAUAAGUAUGA--
..(((((((.(((..(((((...((((((....((((((......)))))).....))))))))))).))))))))))(((((...(....)...)))))....-- ( -29.60)
>DroEre_CAF1 42822 104 - 1
AUGCAUAAAAGUCAAGUCAGAGCUAAGCAAAAUGCAUUACAAUGAUAAUGCUGUCCUGCUUACGGGCCGACUUUAUGCGCCUACACCGCGAGAAAAAAUUGUGG--
..(((((((.(((..(((...(.((((((....((((((......)))))).....))))))).))).)))))))))).......((((((.......))))))-- ( -29.90)
>DroYak_CAF1 47302 104 - 1
AUGCAUAAAAGUCAAGUCAGAGCUAAGCAAAAUGCAUUACAAUGAUAAUGCUGUCGUGCUUACGGGCCGACUUUAUGCGCUUACACGGGGAGAAAUGAUUGUGG--
..(((((((.(((..(((...(.((((((....((((((......)))))).....))))))).))).)))))))))).....(((((..(....)..))))).-- ( -30.00)
>consensus
AUGCAUAAAAGUCAAGUCAGAGCUAAGCAAAAUGCAUUACAAUGAUAAUGCUGUCCUGCUUACGGGCCGACUUUAUGCGCUUACACCGCGAGAAAUAAGUGUGA__
..(((((((.(((..(((((...((((((....((((((......)))))).....))))))))))).))))))))))..((((((............)))))).. (-24.71 = -25.52 +   0.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:11:36 2006