Locus 1356

Sequence ID 3R_DroMel_CAF1
Location 3,997,887 – 3,998,004
Length 117
Max. P 0.850406
window2225

overview

Window 5

Location 3,997,887 – 3,998,004
Length 117
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 94.49
Mean single sequence MFE -29.88
Consensus MFE -25.23
Energy contribution -25.85
Covariance contribution 0.62
Combinations/Pair 1.03
Mean z-score -2.13
Structure conservation index 0.84
SVM decision value 0.79
SVM RNA-class probability 0.850406
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3997887 117 - 27905053
AAUUCCUCAAAAACAAAAAAAGAUGUGUAAUAAAAAAACAUAUAUUUUCCAGGGCGGUGCGUUGUGCAACGGCAUAACUUACAAGACGCUGCUGGUG---CUCCAGCUACUUGAGUUAUU
(((..(((((.......((((.((((((.........)))))).))))....(((((((.(((((((....))))))).)))....))))(((((..---..)))))...)))))..))) ( -29.00)
>DroSec_CAF1 3558 116 - 1
AAUUCCUCAAAAACAAA-AAAGAUGUGUAAUAAAAAAACAUAUAUUUUCCAGGGCGGUUCGUUGUGCAACGGCAUAACUUACAAGUCGCUGCUGCUG---CUCCAGCUACUUGAGUUAUU
(((..(((((......(-(((.((((((.........)))))).)))).((((((.((..(((((((....)))))))..))..))).)))..((((---...))))...)))))..))) ( -24.80)
>DroSim_CAF1 3606 116 - 1
AAUUCCUCAAAAACAAA-AAAGAUGUGUAAUAAAAAAACAUAUAUUUUCCAGGGCGGUGCGUUGUGCAACGGCAUAACUUACAAGUCGCUGCUGCUG---CUCCAGCUACUUGAGUUAUU
(((..(((((......(-(((.((((((.........)))))).))))....(((((.(((((((((....))))))).........((....)).)---).)).)))..)))))..))) ( -26.00)
>DroYak_CAF1 3187 118 - 1
AAUUCCUCAAUGGAAAA-AAAGAUGUGUAAUAAA-AAACAUAUAUUUUCCAGGGCGGUGCGUUGUGCAACGGCAUAACUUACAAGUCGCUGCUGCUGCCGCUGCAGCUACUUGAGUUAUU
....((.(..(((((((-....((((((......-..)))))).)))))))..).))...(((((((....)))))))...(((((.(((((.((....)).))))).)))))....... ( -39.70)
>consensus
AAUUCCUCAAAAACAAA_AAAGAUGUGUAAUAAAAAAACAUAUAUUUUCCAGGGCGGUGCGUUGUGCAACGGCAUAACUUACAAGUCGCUGCUGCUG___CUCCAGCUACUUGAGUUAUU
(((..(((((............((((((.........)))))).........(((((((.(((((((....))))))).)))....))))(((((.......)))))...)))))..))) (-25.23 = -25.85 +   0.62)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:07:46 2006