Locus 2620

Sequence ID 2R_DroMel_CAF1
Location 9,241,491 – 9,241,599
Length 108
Max. P 0.784678
window4324

overview

Window 4

Location 9,241,491 – 9,241,599
Length 108
Sequences 6
Columns 116
Reading direction reverse
Mean pairwise identity 78.13
Mean single sequence MFE -40.22
Consensus MFE -27.15
Energy contribution -28.10
Covariance contribution 0.95
Combinations/Pair 1.24
Mean z-score -1.46
Structure conservation index 0.68
SVM decision value 0.57
SVM RNA-class probability 0.784678
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9241491 108 - 20766785
--------CAUCCGGCUUACGCUUACCUUGAGGGCACUGCAGGGUAACCGCUCCGCCCAGCUGCACUUCCAGCUGGCCCUUGUUGGGAUUGUGCGAGGCAGCUGCCACGGAAACAU
--------..((((((....))..........((((((((.((....)).(((((((((((((......)))))))(((.....)))...))).))))))).)))).))))..... ( -42.90)
>DroGri_CAF1 152247 115 - 1
AUUUUUGUUUU-GAAAAUGUGCUUACCUUGUGGACACUGCAAAGUGACGGCGCCACCGAGUUGCACUUCCAGCUGUCCCUUGUUGGGAUUGUGUGAGGCAGCAGCCACGGAGACAU
.....(((((.-......(((((..((....)).((((....))))..)))))..(((.(((((.((((..((.(((((.....))))).))..))))..)))))..)))))))). ( -35.50)
>DroWil_CAF1 164033 100 - 1
----------------UGUGUCUUACCUUGAGGACAUUGCAGGGUAACAGCUCCGCCCAAUUGCACUUCCAGUUGUCCCUUAUUGGGAUUAUGUGAGGCAGCUGCCACCGACACAU
----------------((((((((((((((.........))))))))(((((((((......))...((((...(((((.....)))))..)).)))).))))).....)))))). ( -35.50)
>DroYak_CAF1 118193 108 - 1
--------AGUAGGAAGUUGGCUUACCUUGUGGACACUGCAGGGUUACCGCUCCGCCCAGCUGCACUUCCAGCUGGCCCUUGUUGGGAUUGUGCGAGGCAGCUGCCACGGAAACAU
--------.((.((.((((((...((((((..(...)..))))))..))((..((((((((((......)))))))(((.....))).....)))..)))))).))))(....).. ( -43.60)
>DroAna_CAF1 125229 108 - 1
--------CCUAAAAGGGAAGCUUACCUUGCGGACACUGCAACGUUACGGCGCCACCCAGCUGCACUUCCAGCUGCCCCUUGUUGGGAUUGUGCGAGGCAGCUGCCACGGAAACAU
--------((((((((((..(((.((.((((((...)))))).))...)))......((((((......)))))).))))).)))))..(((.((.(((....))).))...))). ( -36.20)
>DroPer_CAF1 100947 98 - 1
---------------GGGGGUCUUACCUUGCGGACACUGCAGGGUGACGGCGCCGCCGAGCUGCACUUCCAGCUGGCCCU---UGGGAUUGUGCGAGGCGGCUGCCACGGACACAU
---------------....((((((((((((((...))))))))))).(((((((((..((.(((.((((((.......)---))))).)))))..)))))).)))...))).... ( -47.60)
>consensus
__________U___AAGGAGGCUUACCUUGAGGACACUGCAGGGUAACGGCGCCGCCCAGCUGCACUUCCAGCUGGCCCUUGUUGGGAUUGUGCGAGGCAGCUGCCACGGAAACAU
......................(((((((((((...))))))))))).....(((..(((((((.(((...((...(((.....)))...))..))))))))))...)))...... (-27.15 = -28.10 +   0.95)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:34:47 2006