Locus 3705

Sequence ID	X_DroMel_CAF1
Location	9,869,971 – 9,870,163
Length	192
Max. P	0.858125

overview

Window 9

Location	9,869,971 – 9,870,083
Length	112
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	80.52
Mean single sequence MFE	-22.57
Consensus MFE	-15.66
Energy contribution	-15.77
Covariance contribution	0.11
Combinations/Pair	1.04
Mean z-score	-1.99
Structure conservation index	0.69
SVM decision value	0.82
SVM RNA-class probability	0.858125
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9869971 112 - 22224390
UUUCGAACCAUCUUUGGAUCUUAGAUCUCAACUCGCAUCUUCUCGUGAUCAAUGUCAAUGCCCAUACAUUCAUUUACUU-----CACGGCAACAU--CAUCAUCAU-UGCCUGCAUCGAU
..((((.......(((((((...)))).)))...(((.......((((.....((.((((......)))).)).....)-----)))(((((...--........)-))))))).)))). ( -19.90)
>DroSec_CAF1 14674 109 - 1
UUUCGGUCCAUCUUUGGAUCUCAGAUCUCAACACGCAUCUUCUCGUGAUCAAUGUCAAUGCUCAUACAUUAAUUUACUA-----CUUGGCAACAU--CAUCA---U-CGCCUGCAUCGAU
....((((((....))))))...........((((........))))(((.((((.((((......)))).........-----...(((.....--.....---.-.))).)))).))) ( -17.10)
>DroYak_CAF1 14311 111 - 1
UUUCGAUCCAUCUUUGGAUCACAACU------UCGCAUCUUCUCGUGAUCAAUGUCAAUGCCCAUACAUUCAUUUACUAUGCCACUCGGCAGCAGGCGAUGA---UGUGCCUGCAUCGAU
....((((((....))))))......------((((........)))).....(((.((((...(((((.((((..((.((((....))))..))..)))))---))))...)))).))) ( -30.70)
>consensus
UUUCGAUCCAUCUUUGGAUCUCAGAUCUCAACUCGCAUCUUCUCGUGAUCAAUGUCAAUGCCCAUACAUUCAUUUACUA_____CUCGGCAACAU__CAUCA___U_UGCCUGCAUCGAU
..((((((((....))))))..............(((.......((((..(((((..........)))))...))))..........(((..................))))))...)). (-15.66 = -15.77 +   0.11)

alignment

secondary structure

dotplot

Window 0

Location	9,870,043 – 9,870,163
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	82.58
Mean single sequence MFE	-26.51
Consensus MFE	-16.79
Energy contribution	-17.73
Covariance contribution	0.95
Combinations/Pair	1.04
Mean z-score	-2.22
Structure conservation index	0.63
SVM decision value	0.41
SVM RNA-class probability	0.724065
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9870043 120 - 22224390
GUGAAAAAUGGAGACAGUGCCUGUCAAGGCCGGGUACACACACGCCAAUAAAAUAGAAAACCCCACUCGAAAUCAAACGAUUUCGAACCAUCUUUGGAUCUUAGAUCUCAACUCGCAUCU
(((.....((....))(((((((.......))))))).)))..((.....................((((((((....)))))))).......(((((((...)))).)))...)).... ( -28.60)
>DroSec_CAF1 14743 105 - 1
GUGAAAAAUGGAGACAGUGCCUGUCAAGGC---------------CAAUAAAAUAGAAAACGCCACUCCAAAUCAAACGAUUUCGGUCCAUCUUUGGAUCUCAGAUCUCAACACGCAUCU
(((.....(((((((((...)))))..(((---------------................)))..))))........(((((.((((((....))))))..)))))....)))...... ( -25.09)
>DroYak_CAF1 14388 110 - 1
GUGAAAAAUAGAGACAGUGCCUGUCAAGGCCGGGUAC----ACGCCAAUAAAAUAGAAAACCCCACUCCAAAUCAAACGAUUUCGAUCCAUCUUUGGAUCACAACU------UCGCAUCU
(((((.....(((...(.((((....)))))((((..----..................))))..))).(((((....))))).((((((....)))))).....)------)))).... ( -25.85)
>consensus
GUGAAAAAUGGAGACAGUGCCUGUCAAGGCCGGGUAC____ACGCCAAUAAAAUAGAAAACCCCACUCCAAAUCAAACGAUUUCGAUCCAUCUUUGGAUCUCAGAUCUCAACUCGCAUCU
((((......(((.....((((....))))..(((........)))...................))).(((((....))))).((((((....))))))............)))).... (-16.79 = -17.73 +   0.95)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:06:08 2006