Locus 257

Sequence ID X_DroMel_CAF1
Location 859,563 – 859,656
Length 93
Max. P 0.900330
window388

overview

Window 8

Location 859,563 – 859,656
Length 93
Sequences 5
Columns 102
Reading direction forward
Mean pairwise identity 73.51
Mean single sequence MFE -20.10
Consensus MFE -12.36
Energy contribution -13.24
Covariance contribution 0.88
Combinations/Pair 1.13
Mean z-score -1.79
Structure conservation index 0.61
SVM decision value 1.01
SVM RNA-class probability 0.900330
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 859563 93 + 22224390
GCCCCCCCCCCCCCCCCCA---AAACAC-CAGUGGGCAGC---GAAAGUGUUCAGCACCUGCUCCACUUGUCAGCACCUCGUUCAAGGACACCACCCCCU--
...................---......-..((((...((---..(((((...(((....))).)))))....)).(((......)))...)))).....-- ( -17.00)
>DroSec_CAF1 62399 96 + 1
GCCCCCCGCCCCUCCCCCAUUCCAACAA-AAGUGGGCAGC---AAAAGUGGGCAGCACCUGCUCCACUUGUCAGCACCUCGUCCAAGGACAUCAGCCCCU--
............................-.((.((((.((---..((((((((((...)))).))))))....)).....(((....)))....))))))-- ( -27.30)
>DroSim_CAF1 58589 94 + 1
ACCCCCCUCCCCACCC---UUCCAACAACAAGUGGGCAGC---AAAAGUGGGCAGCACCUGCUCCACUUGUCAGCACCUCGUCCAAGGACAUCAGCCCCU--
................---...........((.((((.((---..((((((((((...)))).))))))....)).....(((....)))....))))))-- ( -27.30)
>DroEre_CAF1 65590 80 + 1
GC------------CCCCA---AAACAC-CAGA----ACCGAAAAAAGUGGGCAGCACCUGCUCCACUCGUCAGCACCUCGUCCAAGGACACCACCUCCU--
..------------.....---......-....----...((....(((((((((...)))).)))))..))........(((....)))..........-- ( -16.10)
>DroYak_CAF1 61805 79 + 1
GC------------CCCCA---AAUCGC-CAAA----CCC---AAAAGUGGGCAGCACCUGCUCCAUUCGUCAGCACCUCGUCCAAGGACACCACCUCCCCU
..------------.....---......-....----...---....((((((((...))))..................(((....))).))))....... ( -12.80)
>consensus
GCCCCCC_CCCC_CCCCCA___AAACAC_CAGUGGGCAGC___AAAAGUGGGCAGCACCUGCUCCACUUGUCAGCACCUCGUCCAAGGACACCACCCCCU__
......................................((.....((((((((((...)))).))))))....)).....(((....)))............ (-12.36 = -13.24 +   0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:40:08 2006