Locus 6270

Sequence ID 2R_DroMel_CAF1
Location 19,681,977 – 19,682,079
Length 102
Max. P 0.839316
window10031

overview

Window 1

Location 19,681,977 – 19,682,079
Length 102
Sequences 5
Columns 116
Reading direction forward
Mean pairwise identity 80.97
Mean single sequence MFE -24.14
Consensus MFE -18.02
Energy contribution -18.90
Covariance contribution 0.88
Combinations/Pair 1.05
Mean z-score -1.85
Structure conservation index 0.75
SVM decision value 0.74
SVM RNA-class probability 0.839316
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19681977 102 + 20766785
UAAUUUAAGAGUUUAG-AAAAAUAAACAACCGGUUGGGAAACACAGCUGGUAGAUCACUGGCGAUAGUAUCGAUUGGGCCUGGAACUAUCAAUAUUUCGAUAU-------------
........(((((((.-.....))))).(((((((((....).))))))))...))......((((((.(((........))).)))))).............------------- ( -24.40)
>DroSec_CAF1 2054 102 + 1
UAAUUUAAGAGUUUAG-AAAAAUAAACAACCGGUUGGAAAACACAGCUGGUAGAUCGCUGGCGAUAGUAUCGAUUGGGCCUGGAGCUAUCAAUAUUUCGAUAU-------------
..........(((((.-.....))))).((((((((.......))))))))..((((....)))).(((((((((((((.....)))..)))....)))))))------------- ( -24.20)
>DroSim_CAF1 2672 102 + 1
UAAUUUAAGAGUUUAG-AAAAAUAAACAACCGGUUGGAAAACACAGCUGGUAGAUCGCUGGCGAUAGUAUCGAUUGGGCCUGGAACUAUCGAUAUUUCGAUAU-------------
........(((((((.-.....))))).((((((((.......))))))))...)).....(((.(((((((((.((........))))))))))))))....------------- ( -26.40)
>DroEre_CAF1 2075 106 + 1
UAAUUUAAAAGUUUAG-AAAAAUAAACAACCGGUUGGAAAAUACAGCUGGUAGAUUAAUCGCGAUAGUAUCGAUUGCGUUUGGGACUAUCAAUUUUUCGAUAGAAAG---------
((((((....(((((.-.....))))).((((((((.......)))))))))))))).....((((((..(((......)))..))))))....((((....)))).--------- ( -26.10)
>DroYak_CAF1 2722 103 + 1
UGAUUUAAAAGUUUAGCAAAAAUAAACAACCGGUUGAAAGCGACAGCUGGUCGAUCACUCGCGAUAGUAUCGA-------------UAUCAAUAUUUCGAUUGAAACUAUAAGUUC
(((((.....(((((.......))))).((((((((.......)))))))).)))))......(((((.((((-------------(............))))).)))))...... ( -19.60)
>consensus
UAAUUUAAGAGUUUAG_AAAAAUAAACAACCGGUUGGAAAACACAGCUGGUAGAUCACUGGCGAUAGUAUCGAUUGGGCCUGGAACUAUCAAUAUUUCGAUAU_____________
..........(((((.......))))).((((((((.......))))))))...........((((((.(((........))).)))))).......................... (-18.02 = -18.90 +   0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:07:04 2006