Locus 4523

Sequence ID 3R_DroMel_CAF1
Location 12,014,491 – 12,014,589
Length 98
Max. P 0.511043
window7383

overview

Window 3

Location 12,014,491 – 12,014,589
Length 98
Sequences 6
Columns 101
Reading direction forward
Mean pairwise identity 82.19
Mean single sequence MFE -16.68
Consensus MFE -10.67
Energy contribution -12.28
Covariance contribution 1.61
Combinations/Pair 1.05
Mean z-score -1.63
Structure conservation index 0.64
SVM decision value -0.04
SVM RNA-class probability 0.511043
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12014491 98 + 27905053
AUUUUUUCUCAAAUAUUAAUUGCUUUGAGCAACAGUAGAAGCCCUUGGCUACUGCUCCAAACCCAAUCACUUCGAAUUUCCGA-AAAUUCCCCAAGCAG--
....................(((((.(......(((((.((((...)))).)))))..............((((......)))-)......).))))).-- ( -16.50)
>DroGri_CAF1 135206 83 + 1
----AUUUGAAAAUUUUAAUUGCUUUGGGCAACGCGUUGCGCCCUUUGCC---------AACACAGU--UUUUGAAGUAGAAC-CAAUUCCCUUAG--ACA
----........(((((((..(((.(((((((.(((...)))...)))))---------..)).)))--..))))))).....-............--... ( -14.40)
>DroSec_CAF1 119777 100 + 1
AUUUUUUCUCAAAUAUUAAUUGCUUUGAGCAACAGUAGAAGCCCUUGGCUACUGCUCCAAACCCAAUCACUUCGAAUUUCCGA-AAAUUCCCCAAGCAGCA
...................((((((.(......(((((.((((...)))).)))))..............((((......)))-)......).)))))).. ( -16.90)
>DroSim_CAF1 120021 100 + 1
AUUUUUUCUCAAAUAUUAAUUGCUUUGAGCAACAGUAGAAGCCCUUGGCUACUGCUCCAAACCCAAUCACUUCGAAUUUCCGA-AAAUUCCCCAAGCAGCA
...................((((((.(......(((((.((((...)))).)))))..............((((......)))-)......).)))))).. ( -16.90)
>DroEre_CAF1 119616 100 + 1
AUUUUUUCUAAAAUAUUAAUUGCUUUGAGCAACAGUAGAAGCCCUUGGCUACUGCUCCAAACCCAAUCUUUUCGAAUUUCCGA-AAAUUCCCCAAGCAACA
...................((((((.(......(((((.((((...)))).)))))............((((((......)))-)))....).)))))).. ( -18.80)
>DroYak_CAF1 122696 101 + 1
AUUUUUUCUCAAAUAUUAAUUGCUUUGAGCAACAGUAGAAGCCCUUGGCUACUGCUUCAAACCCAAUCUUUUCGAAUUUCCAAAAAAUUCCCCAAGCAGCA
...................((((((.(......(((((.((((...)))).))))).................((((((.....)))))).).)))))).. ( -16.60)
>consensus
AUUUUUUCUCAAAUAUUAAUUGCUUUGAGCAACAGUAGAAGCCCUUGGCUACUGCUCCAAACCCAAUCACUUCGAAUUUCCGA_AAAUUCCCCAAGCAGCA
...................((((((.(......(((((.(((.....))).))))).................((((((.....)))))).).)))))).. (-10.67 = -12.28 +   1.61)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:31:20 2006