Locus 712

Sequence ID	3L_DroMel_CAF1
Location	2,155,662 – 2,155,862
Length	200
Max. P	0.706412

overview

Window 9

Location	2,155,662 – 2,155,782
Length	120
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	90.00
Mean single sequence MFE	-47.05
Consensus MFE	-36.15
Energy contribution	-36.77
Covariance contribution	0.62
Combinations/Pair	1.04
Mean z-score	-1.62
Structure conservation index	0.77
SVM decision value	0.18
SVM RNA-class probability	0.622470
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2155662 120 + 23771897
UGGGCCAACUCGGGUGUCACCGAAUUCAGCGUGCCAUUGGCGACAGCCAUUCCCAAUUUCGGCAGCUUGUAACUGGGUGGCUCCCGCAGAGAUCCGCUCGCCAGGAUCUCAUCCUGCGCC
..(((((...((((.((((((.(.((((((.(((((((((.((.......)))))))...)))))).)).)).).)))))).))))..(((((((........)))))))....)).))) ( -47.30)
>DroSec_CAF1 207461 120 + 1
UGGGCCAAAUCGGGGGUCACCGAACUCAGCGUGCCAUUGGCGACUGCCAUUUCCAAUUUCGGCAGCUUGUAACUGGGUGGCUCCCGCAGAUUGCCGCUCGCCAGGAUCUCAUCCUGCACC
.((((..((((((((((((((.(...((((.(((((((((.((......)).)))))...)))))).))....).))))))))))...))))...))))((.(((((...)))))))... ( -44.00)
>DroSim_CAF1 207742 120 + 1
UGGGCCAACUCGGGGGUCACCGAGCUCAGCGUGCCAUUGGCGACUGCCAUUUCCAAUUUCGGCAGCUUGUAACUGGGUGGCUCCCGCAGAUUGCCGCUCGCCAGGAUCUCAUCCUGCACC
.((((((((((((((((((((.((..((((.(((((((((.((......)).)))))...)))))).))...)).))))))))))).)).)))..))))((.(((((...)))))))... ( -49.60)
>DroYak_CAF1 205650 120 + 1
UGGGCCAACUCGGGGGUCACCGAACCCAGCGAGCCAUUGGCCAGUGCCAUUUCCAUUUUCGGCACCGUGUAGCUGGGUGGCUCGCGCAAAUUGCCACUCGCCAGGAUCUCUUCCUGAAUC
..((((((((((.((((......))))..))))...)))))).(((((............)))))......((.(((((((...........)))))))))(((((.....))))).... ( -47.30)
>consensus
UGGGCCAACUCGGGGGUCACCGAACUCAGCGUGCCAUUGGCGACUGCCAUUUCCAAUUUCGGCAGCUUGUAACUGGGUGGCUCCCGCAGAUUGCCGCUCGCCAGGAUCUCAUCCUGCACC
..(((.....(((((((((((...........(((...)))..(((((............)))))..........)))))))))))......)))......(((((.....))))).... (-36.15 = -36.77 +   0.62)

alignment

secondary structure

dotplot

Window 0

Location	2,155,742 – 2,155,862
Length	120
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	91.39
Mean single sequence MFE	-40.85
Consensus MFE	-32.65
Energy contribution	-34.15
Covariance contribution	1.50
Combinations/Pair	1.09
Mean z-score	-1.75
Structure conservation index	0.80
SVM decision value	0.36
SVM RNA-class probability	0.706412
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2155742 120 + 23771897
CUCCCGCAGAGAUCCGCUCGCCAGGAUCUCAUCCUGCGCCAUGUGCUGGUCCAGGUUUCUGCGGAAGCUUUCGAGAGCAAUGUCACUGUCGAACUUCGGCAUCAGCACACAGUCUAUGCA
.....((((((((((........))))))).......((..(((((((((((((((....((....))..((((.((........)).)))))))).)).)))))))))..))...))). ( -43.60)
>DroSec_CAF1 207541 120 + 1
CUCCCGCAGAUUGCCGCUCGCCAGGAUCUCAUCCUGCACCAUGUGCUGUUCCAGGUUUCUGCGGAAGCUUUCGAGGGCAACGUCACUGUCGAAUUUCGGCAGCAGCACACAGUCUAUGCA
.....((((((((......((.(((((...)))))))....(((((((....(((((((....)))))))..((.(....).)).((((((.....))))))))))))))))))..))). ( -41.40)
>DroSim_CAF1 207822 120 + 1
CUCCCGCAGAUUGCCGCUCGCCAGGAUCUCAUCCUGCACCAUGUGCUGAUCCAGGUUUCUGCGAAAGCUUUCGAGGGCAAUGUCACUGUCGAAUUUCGGCAGCAGCACACAGUCUAUGCA
.....(((.((((((.((((((.(((((.......((((...)))).))))).)))....((....))....)))))))))((..((((((.....))))))..))..........))). ( -42.30)
>DroYak_CAF1 205730 120 + 1
CUCGCGCAAAUUGCCACUCGCCAGGAUCUCUUCCUGAAUCAUGUGCUGAUCAAGGUUUCUGCGGAAGCUUUCGAGGGCAAUAUCAACGUCGAAUUUCGGCAGCAGCACACAGUCUAUGCA
...((((..((((((.((((.(((((.....)))))...............((((((((....))))))))))))))))))......((((.....)))).)).)).............. ( -36.10)
>consensus
CUCCCGCAGAUUGCCGCUCGCCAGGAUCUCAUCCUGCACCAUGUGCUGAUCCAGGUUUCUGCGGAAGCUUUCGAGGGCAAUGUCACUGUCGAAUUUCGGCAGCAGCACACAGUCUAUGCA
.....((((((((........(((((.....))))).....(((((((((((........((....)).(((((.((........)).)))))....)).))))))))))))))..))). (-32.65 = -34.15 +   1.50)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:49:12 2006