Locus 3446

Sequence ID 3L_DroMel_CAF1
Location 10,108,944 – 10,109,044
Length 100
Max. P 0.770989
window5378

overview

Window 8

Location 10,108,944 – 10,109,044
Length 100
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 79.12
Mean single sequence MFE -27.43
Consensus MFE -18.45
Energy contribution -18.95
Covariance contribution 0.50
Combinations/Pair 1.10
Mean z-score -1.55
Structure conservation index 0.67
SVM decision value 0.53
SVM RNA-class probability 0.770989
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10108944 100 + 23771897
--A----AAA----------AAGUAGCAAGCAGAA--GACACAAAACGGGGUUAACUCGUGCACUUAACGGCAACUCGAGC--GCCUCGAGGACGAGGACAACAUUAUAAAUCCUUGGCA
--.----...----------((((.((.....(..--....)...(((((.....)))))))))))....((..((((((.--..))))))..((((((............)))))))). ( -23.00)
>DroPse_CAF1 52648 110 + 1
CAAGGAGACC-----AA---GGAGACCAAGGAGAC--GGUAUAAAAUGAGGUUAACUCGUGCACUUAACGGCAACUCGAGCGCGCCUCGAGGACGAGGACAACAUUAUAAAUCCUUGGCA
......(.((-----((---(((.(((..(....)--)))....((((..(((..(((((((........))..((((((.....)))))).))))))))..)))).....)))))))). ( -33.80)
>DroEre_CAF1 52589 101 + 1
AAA-----AA----------AAGGAGCAGGCAUAA--GACACAAAACGGGGUUAACUCGUGCACUUAACGGCAGCUCGAGC--GCCUCGAGGACGAGGACAACAUUAUAAAUCCUUGGCA
...-----..----------(((((((.(((....--........(((((.....)))))((........)).)))...))--((((((....))))).)...........))))).... ( -23.60)
>DroWil_CAF1 146485 111 + 1
-------AAAAGCCGAAGGAAAAUAUUAUGCAGGGGGGAAAAGAAAUGAGGUUAACGCGUGCACUUAACGGCAACUCGAGC--GCCCCCAGCACGAGGACAACAUUAUAAAUCCUUGGCA
-------....(((.(((((.....(..(((.((((((....((..((..(((((.(......))))))..))..))...)--.))))).)))..)(.....)........)))))))). ( -29.20)
>DroAna_CAF1 46049 99 + 1
-------AAA----------AAGGAGCAAGCUCUA--CAGACAAAAUGGGGUUAACUCGUGCACUUAACGGCAACUCGAGC--GCCUCGAGGACGAGGACAACAUUAUAAAUCCUUGGCA
-------...----------(((((...(((((((--.........)))))))..(((((((........))..((((((.--..)))))).)))))..............))))).... ( -24.50)
>DroPer_CAF1 52965 101 + 1
CAA-----------------GGAGACCAAGGAGAC--GGUAUAAAAUGAGGUUAACUCGUGCACUUAACGGCAACUCGAGCGCGCCUCGAGGACGAGGACAACAUUAUAAAUCCUUGGCA
...-----------------...(.(((((((...--..(((((.(((((.....)))))((.((..(.(....))..)).))((((((....))))).)....)))))..)))))))). ( -30.50)
>consensus
__A____AAA__________AAAGAGCAAGCAGAA__GACACAAAAUGAGGUUAACUCGUGCACUUAACGGCAACUCGAGC__GCCUCGAGGACGAGGACAACAUUAUAAAUCCUUGGCA
.............................((...............((((((...(((((((........)))...))))...))))))....((((((............)))))))). (-18.45 = -18.95 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:58:15 2006