Locus 1274

Sequence ID 3R_DroMel_CAF1
Location 3,786,396 – 3,786,516
Length 120
Max. P 0.584340
window2083

overview

Window 3

Location 3,786,396 – 3,786,516
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 96.83
Mean single sequence MFE -45.32
Consensus MFE -43.00
Energy contribution -43.28
Covariance contribution 0.28
Combinations/Pair 1.05
Mean z-score -1.12
Structure conservation index 0.95
SVM decision value 0.10
SVM RNA-class probability 0.584340
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3786396 120 + 27905053
CAGUUCGGUGGUGUCCUCGGCGAAAUCGAGCUGCCGCUGGAACUGGAGGCUCCGCCACAGACGUCGUUCUUUGAGUCGAUCAUGUCCGAGUCGGACAUCGUGUCGCUAUUCCAGUUCUCC
(((((((((..(((.....)))..))))))))).....((((((((((....((.(((.(((.(((.....))))))....(((((((...))))))).))).))...)))))))))).. ( -46.00)
>DroSec_CAF1 15755 120 + 1
CAGUUGGGUGGCGUUCUCGGCGAAAUCGAGCUGCCGCUUGAACUGGAGGCUCCGCCACAGACGUCGUUCUUUGAGUCGAUCAUGUCCGAGUCGGACAUCGUGUCGCUAUUCCAGUUCUCC
.....((((((((..(((((.....))))).))))))))(((((((((....((.(((.(((.(((.....))))))....(((((((...))))))).))).))...)))))))))... ( -45.30)
>DroSim_CAF1 19509 120 + 1
CAGUUGGGUGGCGUUCUCGGCGAAAUCGAGCUGCCGCUGGAACUGGAGGCUCCGCCACAGACGUCGUUCUUUGAGUCGAUCAUGUCCGAGUCGGACAUCGUGUCGCUAUUCCAGUUCUCC
......(((((((..(((((.....))))).)))))))((((((((((....((.(((.(((.(((.....))))))....(((((((...))))))).))).))...)))))))))).. ( -45.70)
>DroEre_CAF1 6426 120 + 1
CAGUUGGGUGGCGUCCUCGGCGAAAUCGAGCUGCCGCUGGAACUGGAGGCUCCUCCACAGACGUCGUUCUUUGAGUCGAUCAUGUCCGAGUCGGACAUCGUGUCGCUAUUCCAGUUCUCC
......(((((((..(((((.....))))).)))))))((((((((((((.........(((.(((.....))))))(((((((((((...))))))).).))))))..))))))))).. ( -44.50)
>DroYak_CAF1 18723 120 + 1
CAGUUGGGUGGCGUCCUCGGUGAAAUCGAGCUGCCACUGGAACUGGAGGCACCGCCACAUACGUCGUUCUUUGAGUCGAUCAUGUCCGAGUCGGACAUCGUGUCGCUAUUCCAGUUCUCC
......(((((((..((((((...)))))).)))))))((((((((((....((.(((....(((((((...))).)))).(((((((...))))))).))).))...)))))))))).. ( -45.10)
>consensus
CAGUUGGGUGGCGUCCUCGGCGAAAUCGAGCUGCCGCUGGAACUGGAGGCUCCGCCACAGACGUCGUUCUUUGAGUCGAUCAUGUCCGAGUCGGACAUCGUGUCGCUAUUCCAGUUCUCC
......(((((((..(((((.....))))).)))))))((((((((((....((.(((.(((.(((.....))))))....(((((((...))))))).))).))...)))))))))).. (-43.00 = -43.28 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:05:24 2006