Locus 7287

Sequence ID	X_DroMel_CAF1
Location	18,130,396 – 18,130,540
Length	144
Max. P	0.889041

overview

Window 8

Location	18,130,396 – 18,130,500
Length	104
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	82.85
Mean single sequence MFE	-26.90
Consensus MFE	-22.95
Energy contribution	-22.73
Covariance contribution	-0.22
Combinations/Pair	1.06
Mean z-score	-1.37
Structure conservation index	0.85
SVM decision value	0.21
SVM RNA-class probability	0.633275
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18130396 104 - 22224390
GCUGCGCCGAACGGACCUCCUUCUCCGCCGGACUUGGACUCCGUUCCUAAAUGGAGCGACAACACACACACGGCAAUA--GACUCUUAGCCGAGACAAAA--------------AGAAAA
.....((((...(((..(((...(((...)))...))).)))(((((.....))))).............))))....--..(((......)))......--------------...... ( -24.80)
>DroSec_CAF1 12697 101 - 1
GCUGCGCCGAACGGACCUCCUCCUCCGCCGGACUUGGACUCCGUUCCUAAAUGGAGCGACAACACACACACGGCAAUAGAGACUCUCAGCCGAGACAAA-------------------AA
(((..((((...(((((...(((......)))...))..)))(((((.....))))).............))))....(((...)))))).........-------------------.. ( -25.60)
>DroEre_CAF1 12512 116 - 1
GCUGCGCCGAGCGGACCUCCUCCUCCGCUGCACUUGGACUCCGUUCCUAAAUGGAGCGACACCAC--ACACGGCAAUA--GACUCUCAGCCGAGACAAAAAACAAAAAAAACAAAAAAAA
.....((((((((((........)))))).....(((....((((((.....))))))...))).--...))))....--...((((....))))......................... ( -30.30)
>consensus
GCUGCGCCGAACGGACCUCCUCCUCCGCCGGACUUGGACUCCGUUCCUAAAUGGAGCGACAACACACACACGGCAAUA__GACUCUCAGCCGAGACAAAA______________A_AAAA
.....((((..((((........))))..............((((((.....))))))............)))).........((((....))))......................... (-22.95 = -22.73 +  -0.22)

alignment

secondary structure

dotplot

Window 9

Location	18,130,422 – 18,130,540
Length	118
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	94.97
Mean single sequence MFE	-31.77
Consensus MFE	-28.10
Energy contribution	-28.10
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-2.53
Structure conservation index	0.88
SVM decision value	0.95
SVM RNA-class probability	0.889041
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18130422 118 - 22224390
CACAUUAGCAGCGCAAUGCAACAAAUAAUUUCCAUAAACUGCUGCGCCGAACGGACCUCCUUCUCCGCCGGACUUGGACUCCGUUCCUAAAUGGAGCGACAACACACACACGGCAAUA--
.......((((((..(((.((........)).)))....))))))((((...(((..(((...(((...)))...))).)))(((((.....))))).............))))....-- ( -30.20)
>DroSec_CAF1 12718 120 - 1
CACAUUAGCAGCGCAAUGCAACAAAUAAUUUCCAUAAACUGCUGCGCCGAACGGACCUCCUCCUCCGCCGGACUUGGACUCCGUUCCUAAAUGGAGCGACAACACACACACGGCAAUAGA
.......((((((..(((.((........)).)))....))))))((((...(((((...(((......)))...))..)))(((((.....))))).............))))...... ( -30.20)
>DroEre_CAF1 12552 116 - 1
CACAUUAGCAGCGCAAUGCAACAAAUAAUUUCCAUAAACUGCUGCGCCGAGCGGACCUCCUCCUCCGCUGCACUUGGACUCCGUUCCUAAAUGGAGCGACACCAC--ACACGGCAAUA--
.......((((((..(((.((........)).)))....))))))((((((((((........)))))).....(((....((((((.....))))))...))).--...))))....-- ( -34.90)
>consensus
CACAUUAGCAGCGCAAUGCAACAAAUAAUUUCCAUAAACUGCUGCGCCGAACGGACCUCCUCCUCCGCCGGACUUGGACUCCGUUCCUAAAUGGAGCGACAACACACACACGGCAAUA__
.......((((((..(((.((........)).)))....))))))((((..((((........))))..............((((((.....))))))............))))...... (-28.10 = -28.10 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:35:11 2006