Locus 5532

Sequence ID	X_DroMel_CAF1
Location	14,315,811 – 14,315,913
Length	102
Max. P	0.992982

overview

Window 3

Location	14,315,811 – 14,315,913
Length	102
Sequences	5
Columns	109
Reading direction	forward
Mean pairwise identity	83.11
Mean single sequence MFE	-31.67
Consensus MFE	-25.29
Energy contribution	-25.53
Covariance contribution	0.24
Combinations/Pair	1.05
Mean z-score	-2.76
Structure conservation index	0.80
SVM decision value	2.37
SVM RNA-class probability	0.992982
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14315811 102 + 22224390
UGAAUAUACCCCCUGUAAGUGUAUGCAUGAAAUCCGAAUAUUCGCACAACCCAGUCGCAAGUCGCCAG-------ACGCCAUCCAUUUGGCGACUGGUGACCCUCUUCC
.((((((...........(((....))).........))))))((((......)).))..((((((((-------.(((((......))))).))))))))........ ( -29.15)
>DroSec_CAF1 28499 102 + 1
UGCAUGUACCCCCUGUAAGGGUAUGAAUGAAAUCCGAAUAUUCGCACAACCCAGUCGCAAGUCGCCAG-------ACGCCAUCCAUUUGGCGACUGGUGACCCUCUUCC
(((..((((((.......))))))(((((.........))))).............))).((((((((-------.(((((......))))).))))))))........ ( -33.80)
>DroSim_CAF1 25735 102 + 1
UGCAUAUACCCCCUGUAAGGGUAUGAAUGAAAUCCGAAUAUUCGCACAACCCAGUCGCAAGUCGCCAG-------ACGCCAUCCAUUUGGCGACUGGUGACCCUCUUCC
(((.(((((((.......))))))).........(((....)))............))).((((((((-------.(((((......))))).))))))))........ ( -34.40)
>DroEre_CAF1 25097 85 + 1
UGAGUAUACCCCCUGUUAGGGUAUGCCUGGAAUC-----------------CAUUCGCAAGUCGCCAG-------ACGCCUUCCAUUUGGCGACUAGUGACCCCCUUGC
...((((((((.......))))))))........-----------------...((((.(((((((((-------(.(.....).)))))))))).))))......... ( -30.00)
>DroYak_CAF1 29763 106 + 1
---CUAUACCCGUUGUUAGGGUAUGAAUGAAAUCCGAAUAUUCGCACAACCCAGUCGCAAGUCGCCAGACGACAGACGCCAUCCAUUUGGCGACUAGUGACCCUCUUCC
---.(((((((.......))))))).........(((....))).........(((((.((((((((((.(............).)))))))))).)))))........ ( -31.00)
>consensus
UGAAUAUACCCCCUGUAAGGGUAUGAAUGAAAUCCGAAUAUUCGCACAACCCAGUCGCAAGUCGCCAG_______ACGCCAUCCAUUUGGCGACUGGUGACCCUCUUCC
....(((((((.......)))))))............................(((((.(((((((((..................))))))))).)))))........ (-25.29 = -25.53 +   0.24)

alignment

secondary structure

dotplot

Window 4

Location	14,315,811 – 14,315,913
Length	102
Sequences	5
Columns	109
Reading direction	reverse
Mean pairwise identity	83.11
Mean single sequence MFE	-35.48
Consensus MFE	-24.42
Energy contribution	-25.21
Covariance contribution	0.79
Combinations/Pair	1.07
Mean z-score	-1.90
Structure conservation index	0.69
SVM decision value	0.45
SVM RNA-class probability	0.740268
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14315811 102 - 22224390
GGAAGAGGGUCACCAGUCGCCAAAUGGAUGGCGU-------CUGGCGACUUGCGACUGGGUUGUGCGAAUAUUCGGAUUUCAUGCAUACACUUACAGGGGGUAUAUUCA
.((((..((((.((((.(((((......))))).-------)))).))))..)..((((((((((((((.........)))..))))).)))..)))........))). ( -31.80)
>DroSec_CAF1 28499 102 - 1
GGAAGAGGGUCACCAGUCGCCAAAUGGAUGGCGU-------CUGGCGACUUGCGACUGGGUUGUGCGAAUAUUCGGAUUUCAUUCAUACCCUUACAGGGGGUACAUGCA
......(((((.((((.(((((......))))).-------)))).)))))((((.((((..((.(((....))).)))))).)).((((((.....))))))...)). ( -37.00)
>DroSim_CAF1 25735 102 - 1
GGAAGAGGGUCACCAGUCGCCAAAUGGAUGGCGU-------CUGGCGACUUGCGACUGGGUUGUGCGAAUAUUCGGAUUUCAUUCAUACCCUUACAGGGGGUAUAUGCA
......(((((.((((.(((((......))))).-------)))).)))))((((.((((..((.(((....))).)))))).))(((((((.....)))))))..)). ( -38.30)
>DroEre_CAF1 25097 85 - 1
GCAAGGGGGUCACUAGUCGCCAAAUGGAAGGCGU-------CUGGCGACUUGCGAAUG-----------------GAUUCCAGGCAUACCCUAACAGGGGGUAUACUCA
((...((((((...((((((((.(((.....)))-------.))))))))........-----------------))))))..))(((((((.....)))))))..... ( -33.70)
>DroYak_CAF1 29763 106 - 1
GGAAGAGGGUCACUAGUCGCCAAAUGGAUGGCGUCUGUCGUCUGGCGACUUGCGACUGGGUUGUGCGAAUAUUCGGAUUUCAUUCAUACCCUAACAACGGGUAUAG---
.(((...((((.(.((((((((....((((((....)))))))))))))).).))))..(..((.(((....))).))..).)))((((((.......))))))..--- ( -36.60)
>consensus
GGAAGAGGGUCACCAGUCGCCAAAUGGAUGGCGU_______CUGGCGACUUGCGACUGGGUUGUGCGAAUAUUCGGAUUUCAUUCAUACCCUUACAGGGGGUAUAUGCA
(((.(((((((.(.((((((((....................)))))))).).))))........(((....)))...))).)))(((((((.....)))))))..... (-24.42 = -25.21 +   0.79)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:50:20 2006