Locus 8222

Sequence ID	X_DroMel_CAF1
Location	20,422,727 – 20,422,823
Length	96
Max. P	0.701255

overview

Window 9

Location	20,422,727 – 20,422,823
Length	96
Sequences	4
Columns	115
Reading direction	forward
Mean pairwise identity	79.63
Mean single sequence MFE	-18.41
Consensus MFE	-12.27
Energy contribution	-13.15
Covariance contribution	0.88
Combinations/Pair	1.10
Mean z-score	-1.76
Structure conservation index	0.67
SVM decision value	0.35
SVM RNA-class probability	0.701255
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20422727 96 + 22224390
CUAUUU------AUAAGCAA-AAGCAAAAUAU------AGAUACUCCAUUGUCCCCCCUUGUU-----UCUGGGUGGUCUUCUU-CGCCGCCUUUGAUACAUAUCAUAUUUUUAA
......------....((..-..))(((((((------.(((((......)........(((.-----((.(((((((......-.)))))))..)).))))))))))))))... ( -16.60)
>DroSec_CAF1 11888 96 + 1
CUAUUU------UUAAGCAA-AGGCAAAAUAU------AGACACUCCAUUGUCCCCCCUUGUU-----UCUGGGUGGUCUCCUU-CGCCGCCUUUGAUACAUAUCAUAUUUUUAA
......------.....(((-((((.......------.((((......))))(((((.....-----...))).)).......-....)))))))................... ( -20.60)
>DroEre_CAF1 11268 110 + 1
CUUUUUUUCCUUUUACGCAAAAAGCAAAAUAUACGCGUAGAUAUCCCAUUGUGUCCCCCUUUU-----ACUGGGUGGUCUCCACCCGCCGCCUUUGAUACAAAUCAUAUUUUUAA
...........(((((((................))))))).......(((((((........-----..(((((((...)))))))........)))))))............. ( -21.66)
>DroYak_CAF1 8164 104 + 1
CUCUUUU-----UUAAGCA---AGCAAAAUAUAC--AUAGGUAUUCCAUUGUGCCCCCUUAUUCCCCUUCUGGGUGGUCUUCAU-CGCCGCCUUUGAUACAUAUCACAUUUUUAA
.......-----.((((..---.(((....((((--....)))).......)))...)))).......((.(((((((......-.)))))))..)).................. ( -14.80)
>consensus
CUAUUU______UUAAGCAA_AAGCAAAAUAU______AGAUACUCCAUUGUCCCCCCUUGUU_____UCUGGGUGGUCUCCAU_CGCCGCCUUUGAUACAUAUCAUAUUUUUAA
................((.....))(((((((.......(((((......)))))................(((((((........)))))))............)))))))... (-12.27 = -13.15 +   0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:58:45 2006