Locus 1914

Sequence ID 3L_DroMel_CAF1
Location 5,360,941 – 5,361,076
Length 135
Max. P 0.938807
window2986 window2987

overview

Window 6

Location 5,360,941 – 5,361,036
Length 95
Sequences 5
Columns 101
Reading direction reverse
Mean pairwise identity 87.14
Mean single sequence MFE -26.78
Consensus MFE -16.19
Energy contribution -16.35
Covariance contribution 0.16
Combinations/Pair 1.36
Mean z-score -2.96
Structure conservation index 0.60
SVM decision value 0.31
SVM RNA-class probability 0.684884
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5360941 95 - 23771897
CUGCCUCCACCCACUUUUCCGCAUUUUCCUAGACUCCU--AGAAGUUUCCUA--UAUGGUGCUGGCACAAUUUCCCUCACCGGGCAUUUUAUA--UGCCUG
.((((..((((.................((((....))--)).((....)).--...))))..)))).............(((((((.....)--)))))) ( -22.10)
>DroSec_CAF1 10135 97 - 1
CUGCCUCCGCGCACUUUUCCGCAUUUUCCUAGACUCCU--AGGAUUUCCCUA--UGUGGUGCUGGCGCAAUUUCCCUCACCGGUCGUUUUAUAUAUGCCUG
........((((......((((((..((((((....))--)))).......)--))))).....)))).............((.(((.......))))).. ( -24.60)
>DroSim_CAF1 8194 97 - 1
CUGCCUCCGCCCACUUUUCCGCAUUUUCCUAGACUCCU--AGGAGUUCCCUA--UGUGGUGCUGGCGCAAUUUCCCUCACCGGGCGUUUUAUAUACGCCUG
..(((...((((((...........(((((((....))--))))).......--.)))).)).)))..............(((((((.......))))))) ( -30.61)
>DroEre_CAF1 8757 97 - 1
CUGCCUCCACCCAUUUUGCCGCAUUUUCCUAGGCUCCU--UGGAGUUCCCCCUGUAUGGAGCUGGCACAAUUUCCCACACCGGGCGUUUUAUA--UGCCUG
.((((.....(((....(((...........)))....--)))((((((........)))))))))).............(((((((.....)--)))))) ( -28.20)
>DroYak_CAF1 8551 97 - 1
CUGCCUCUCCCCAUUUUGCCGCAUUUUCCUAGACUCCUAUAGGAGUUUCCUA--UGUGUUGCUGGCAAAAUUUCCCUCACCGGGCGUUUUAUA--UGCCUG
............(((((((((((.......(((((((....)))))))....--.....))).)))))))).........(((((((.....)--)))))) ( -28.39)
>consensus
CUGCCUCCACCCACUUUUCCGCAUUUUCCUAGACUCCU__AGGAGUUCCCUA__UGUGGUGCUGGCACAAUUUCCCUCACCGGGCGUUUUAUA__UGCCUG
.((((..(((.(((.................((((((....))))))........))))))..)))).............((((((.........)))))) (-16.19 = -16.35 +   0.16)

alignment

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secondary structure

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dotplot

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Window 7

Location 5,360,971 – 5,361,076
Length 105
Sequences 5
Columns 109
Reading direction reverse
Mean pairwise identity 90.43
Mean single sequence MFE -32.18
Consensus MFE -25.16
Energy contribution -25.88
Covariance contribution 0.72
Combinations/Pair 1.11
Mean z-score -2.16
Structure conservation index 0.78
SVM decision value 1.27
SVM RNA-class probability 0.938807
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5360971 105 - 23771897
CCAGGUUGGAGAUUAACAAACGUUCACGCCUGACGUUUGACUGCCUCCACCCACUUUUCCGCAUUUUCCUAGACUCCU--AGAAGUUUCCUA--UAUGGUGCUGGCACA
...((.(((((.....((((((((.......)))))))).....))))).))........((......((((....))--)).(((..((..--...)).))).))... ( -25.70)
>DroSec_CAF1 10167 105 - 1
CCAGGUUGGAGAUUAACAAACGUUCACGCCUGACGUUUGACUGCCUCCGCGCACUUUUCCGCAUUUUCCUAGACUCCU--AGGAUUUCCCUA--UGUGGUGCUGGCGCA
.......((((.....((((((((.......)))))))).....))))((((......((((((..((((((....))--)))).......)--))))).....)))). ( -35.60)
>DroSim_CAF1 8226 105 - 1
CCAGGUUGGAGAUUAACAAACGUUCACGCCUGACGUUUGACUGCCUCCGCCCACUUUUCCGCAUUUUCCUAGACUCCU--AGGAGUUCCCUA--UGUGGUGCUGGCGCA
.......((((.....((((((((.......)))))))).....))))(((((.....((((((.(((((((....))--)))))......)--)))))...))).)). ( -33.50)
>DroEre_CAF1 8787 107 - 1
CCAGGUUGGAGAUUAACAAACGUUCUCGCCUGACGUUUGACUGCCUCCACCCAUUUUGCCGCAUUUUCCUAGGCUCCU--UGGAGUUCCCCCUGUAUGGAGCUGGCACA
...((.(((((.....((((((((.......)))))))).....))))).))....((((......(((.((....))--.)))(((((........))))).)))).. ( -33.60)
>DroYak_CAF1 8581 107 - 1
CCAGGUUGGAGAUUAACAAACGUUCACGCCUGACGUUUGACUGCCUCUCCCCAUUUUGCCGCAUUUUCCUAGACUCCUAUAGGAGUUUCCUA--UGUGUUGCUGGCAAA
...((..((((.....((((((((.......)))))))).....))))..))..(((((((((.......(((((((....)))))))....--.....))).)))))) ( -32.49)
>consensus
CCAGGUUGGAGAUUAACAAACGUUCACGCCUGACGUUUGACUGCCUCCACCCACUUUUCCGCAUUUUCCUAGACUCCU__AGGAGUUCCCUA__UGUGGUGCUGGCACA
((((..(((((.....((((((((.......)))))))).....))))).........(((((........((((((....)))))).......)))))..)))).... (-25.16 = -25.88 +   0.72)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:19:52 2006