Locus 5679

Sequence ID 2L_DroMel_CAF1
Location 16,147,692 – 16,147,828
Length 136
Max. P 0.841844
window8999 window9000

overview

Window 9

Location 16,147,692 – 16,147,802
Length 110
Sequences 6
Columns 113
Reading direction forward
Mean pairwise identity 81.11
Mean single sequence MFE -42.00
Consensus MFE -25.55
Energy contribution -26.53
Covariance contribution 0.98
Combinations/Pair 1.15
Mean z-score -2.43
Structure conservation index 0.61
SVM decision value 0.75
SVM RNA-class probability 0.841844
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16147692 110 + 22407834
CCGUUCAGCCCUCUCUUUGUCAUUUCCUUUUGGAA---GUGGGCGGAUCGCCCCCACGGGACUUGACAUUUAUAGCUGGGGCAUUAAAAGUCAAGAGUGGCAAAUGGGGGAGG
........(((((..((((((((((((....))))---(((((.((....)))))))....((((((.((((..((....))..)))).)))))).)))))))).)))))... ( -41.10)
>DroPse_CAF1 109173 102 + 1
CCU------CCGGUCUUUGUCAUUUCCUUCUGGGA-----GGGCGUGUCGCCCUCGCGGGACUUGACAUUUAUAGCAGGGACAUUAAAAGUCAAGAGUGGCAGACGGGGCUGG
...------(((((((((((((((...(((((.((-----(((((...))))))).)))))((((((.((((............)))).))))))))))))))...))))))) ( -42.00)
>DroEre_CAF1 72251 109 + 1
CCUUUCCGCCCUCUCUUUGUCAUUUCCUUUGGA-A---GUGGGCGUAUCGCCCCCACAGGACUUGACAUUUAUAGCUGGGGCAUUAAAAGUCAAGAGUGGCAAAUGGGGGAGG
(((..(((((((..((.(((((..((((.(((.-.---..(((((...)))))))).))))..))))).....))..))))).......((((....)))).....))..))) ( -44.60)
>DroYak_CAF1 79676 110 + 1
CCUUUCCGCCCUCUCUUUGUCAUUUCCUUUGGAAA---GUGGGCGGAUCGCCCCCAUGGGACUUGACAUUUAUAGCUGGGGCAUUAAAAGUCAAGAGUGGCAAAUGGGGUAGG
.....(((((((...(((((((((((((.(((...---..(((((...)))))))).))))((((((.((((..((....))..)))).))))))))))))))).))))).)) ( -40.90)
>DroAna_CAF1 68348 110 + 1
---UCGUGCCAGGUCUUUGUCAUCUACUUCUGGUAGACGGGGGCGUGGCAAGCCCGCGGGACUUGACAUUUAUAGCUUGGGCAUUAAAAGUCAAGAGCGCCAAAUGGGGGAGG
---...(((((.((((((((((((.......))).))))))))).)))))..(((((....((((((.((((..((....))..)))).)))))).)).((....)))))... ( -41.40)
>DroPer_CAF1 98279 102 + 1
CCU------CCGGUCUUUGUCAUUUCCUUCUGGGA-----GGGCGUGUCGCCCUCGCGGGACUUGACAUUUAUAGCAGGGACAUUAAAAGUCAAGAGUGGCAGACGGGGCUGG
...------(((((((((((((((...(((((.((-----(((((...))))))).)))))((((((.((((............)))).))))))))))))))...))))))) ( -42.00)
>consensus
CCUUUC_GCCCGCUCUUUGUCAUUUCCUUCUGGAA___GUGGGCGUAUCGCCCCCACGGGACUUGACAUUUAUAGCUGGGGCAUUAAAAGUCAAGAGUGGCAAAUGGGGGAGG
.........(((((((((((((((((((.(.((.......(((((...)))))))).))))((((((.((((..((....))..)))).))))))))))))))...))))))) (-25.55 = -26.53 +   0.98)

alignment

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secondary structure

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dotplot

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Window 0

Location 16,147,727 – 16,147,828
Length 101
Sequences 6
Columns 115
Reading direction reverse
Mean pairwise identity 78.75
Mean single sequence MFE -22.28
Consensus MFE -15.43
Energy contribution -15.43
Covariance contribution 0.00
Combinations/Pair 1.19
Mean z-score -1.53
Structure conservation index 0.69
SVM decision value 0.66
SVM RNA-class probability 0.814100
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16147727 101 - 22407834
UGUGAC-----CUCAAUC---------CCCUCCAGAAACUCCUCCCCCAUUUGCCACUCUUGACUUUUAAUGCCCCAGCUAUAAAUGUCAAGUCCCGUGGGGGCGAUCCGCCCAC
......-----.......---------..........................((((.((((((.((((..((....))..)))).))))))....))))(((((...))))).. ( -23.20)
>DroPse_CAF1 109202 97 - 1
UGUGAC-----CCCAAAC---------CC--CCAUCAGCCCCAGCCCCGUCUGCCACUCUUGACUUUUAAUGUCCCUGCUAUAAAUGUCAAGUCCCGCGAGGGCGACACGCCC--
......-----.......---------..--......((....(((((((........((((((.((((..((....))..)))).))))))....))).)))).....))..-- ( -18.70)
>DroEre_CAF1 72285 101 - 1
UGUGAC-----CUCAAUU---------CCCUCCAGAAACUCCUCCCCCAUUUGCCACUCUUGACUUUUAAUGCCCCAGCUAUAAAUGUCAAGUCCUGUGGGGGCGAUACGCCCAC
......-----.......---------..........................((((.((((((.((((..((....))..)))).))))))....))))(((((...))))).. ( -23.90)
>DroYak_CAF1 79711 101 - 1
UGUGAC-----CUUAAUU---------CCCUCCAGAAACUCCUACCCCAUUUGCCACUCUUGACUUUUAAUGCCCCAGCUAUAAAUGUCAAGUCCCAUGGGGGCGAUCCGCCCAC
.(((..-----.......---------.................((((((........((((((.((((..((....))..)))).))))))....))))))(((...))).))) ( -20.50)
>DroAna_CAF1 68383 115 - 1
CUUGACUGCCACACAAACACUUUCACACCCAUAUGGGACUCCUCCCCCAUUUGGCGCUCUUGACUUUUAAUGCCCAAGCUAUAAAUGUCAAGUCCCGCGGGCUUGCCACGCCCCC
.............................((.(((((........))))).))(((..((((((.((((..((....))..)))).))))))...)))((((.......)))).. ( -28.70)
>DroPer_CAF1 98308 97 - 1
UGUGAC-----CCCAAAC---------CC--CCAUCAGCCCCAGCCCCGUCUGCCACUCUUGACUUUUAAUGUCCCUGCUAUAAAUGUCAAGUCCCGCGAGGGCGACACGCCC--
......-----.......---------..--......((....(((((((........((((((.((((..((....))..)))).))))))....))).)))).....))..-- ( -18.70)
>consensus
UGUGAC_____CUCAAAC_________CCCUCCAGAAACUCCUCCCCCAUUUGCCACUCUUGACUUUUAAUGCCCCAGCUAUAAAUGUCAAGUCCCGCGGGGGCGACACGCCCAC
..............................................((((........((((((.((((..((....))..)))).))))))....))))(((((...))))).. (-15.43 = -15.43 +   0.00)

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 11:50:01 2006