Locus 7283

Sequence ID X_DroMel_CAF1
Location 18,125,066 – 18,125,184
Length 118
Max. P 0.531226
window11934

overview

Window 4

Location 18,125,066 – 18,125,184
Length 118
Sequences 4
Columns 118
Reading direction forward
Mean pairwise identity 95.76
Mean single sequence MFE -33.95
Consensus MFE -30.58
Energy contribution -30.82
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -1.51
Structure conservation index 0.90
SVM decision value -0.00
SVM RNA-class probability 0.531226
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18125066 118 + 22224390
CCUGCCCCCGUCUUCCGACGGCUCCGCUGUCCUCGUCGAAGAAUGUAGUGCGAUGGUCGCCUAAAUCAAGCGUACUUAGCGAAUGAUUUACAUUCCGAGAGACAGCAAACACACUGCU
...((..(((((....)))))....((((((((((.....((((((((.(((.....)))))((((((..(((.....)))..)))))))))))))))).)))))).........)). ( -39.90)
>DroSec_CAF1 7553 118 + 1
CCAUCCCCUCUCUUCCGACGGCUCCGCUGUCCUCGUCGAAGAAUGUAGUGCGAUGGUCGCCUAAAUCAAGCGUACUUAGCGAAUGAUUUACAUUCCGAGAGACAGCAAACACACUGCU
.....((.((......)).))....((((((((((.....((((((((.(((.....)))))((((((..(((.....)))..)))))))))))))))).))))))............ ( -33.60)
>DroSim_CAF1 8240 118 + 1
CCAUCCCCUCUCUUCCGACGGCUCCGCUGUCCUCGUCGAAGAAUGUAGUGCGAUGGUCGCCUAAAUCAAGCGUACUUAGCGAAUGAUUUACAUUCCGAGAGACAGCAAACACACUGCU
.....((.((......)).))....((((((((((.....((((((((.(((.....)))))((((((..(((.....)))..)))))))))))))))).))))))............ ( -33.60)
>DroEre_CAF1 7625 114 + 1
CCUUACCC-CUCCUCCGACGGCU---CUGUCCUCGUCGAAGAAUGUAGUGCGAUGGUCGCCUAAAUCAAGCGUACUUAGCGAAUGAUUUACAUUCCGAGAGACAGCAAACACACUGCU
........-(((.((((((((..---......))))))..((((((((.(((.....)))))((((((..(((.....)))..)))))))))))).)))))..((((.......)))) ( -28.70)
>consensus
CCAUCCCCUCUCUUCCGACGGCUCCGCUGUCCUCGUCGAAGAAUGUAGUGCGAUGGUCGCCUAAAUCAAGCGUACUUAGCGAAUGAUUUACAUUCCGAGAGACAGCAAACACACUGCU
.........................((((((((((.....((((((((.(((.....)))))((((((..(((.....)))..)))))))))))))))).))))))............ (-30.58 = -30.82 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:35:07 2006