Locus 5092

Sequence ID 3R_DroMel_CAF1
Location 13,424,771 – 13,424,893
Length 122
Max. P 0.999932
window8299 window8300

overview

Window 9

Location 13,424,771 – 13,424,881
Length 110
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 77.80
Mean single sequence MFE -28.22
Consensus MFE -14.06
Energy contribution -15.42
Covariance contribution 1.36
Combinations/Pair 1.10
Mean z-score -4.42
Structure conservation index 0.50
SVM decision value 2.73
SVM RNA-class probability 0.996666
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13424771 110 - 27905053
UCCUCAUCGGAAUAAUGCAAAUUUCAGCUCAUUAAUAUCAAUCAAAUGAUUGAUAGCACUUAGGGCCAACACCACAGUUGGUCCGCACCC----CUCGAUUC------CGAUUCCACUCC
.....((((((((..(((.................((((((((....)))))))).......((((((((......)))))))))))...----....))))------))))........ ( -33.10)
>DroSec_CAF1 50395 110 - 1
UCCUCAUCGGAAUAAUGCAAAUUUCAGCUCAUUAAUAUCAAUCAAAUGAUUGAUAGCACUUAGGGCCAACACCGCAGUUGGUCCGCACCC----CUCGAAUC------GGAUUCCACUCC
........(((((..(((.................((((((((....)))))))).......((((((((......)))))))))))..(----(.......------)))))))..... ( -31.00)
>DroSim_CAF1 53213 116 - 1
UCCUCAUCGGAAUAAUGCAAAUUUCAGCUCAUUAAUAUCAAUCAAAUGAUUGAUAGCACUUAGGGCCAACACCACAGUUGGUCCGCACCC----CUCGAUUCCGAUUCCGAUUCCACUCC
.....(((((((...(((.................((((((((....)))))))).......((((((((......)))))))))))...----.(((....))))))))))........ ( -34.20)
>DroEre_CAF1 50671 90 - 1
UCCUCAACGGAAUAAUGCAAAUUUCAGCUCAUUAAUAUCAAUCAAAUGAUUGAUAGCACUUAGAGCCACCACCACAGUUGCUCCGCACCC------------------------------
.......((((.((((..........((((.....((((((((....)))))))).......))))..........)))).)))).....------------------------------ ( -19.85)
>DroYak_CAF1 55539 104 - 1
UCCUCAUCGGAAUAAUGCAAAUUUCAGCUCAUUAAUAUCAAUCAAAUGAUUGAUAGCACUUAGAGCCACCACCACAGUGGCUCCGCACCC----CUCGA------------UUUCACCCC
.....(((((.....(((.................((((((((....)))))))).......(((((((.......))))))).)))...----.))))------------)........ ( -25.60)
>DroPer_CAF1 51471 99 - 1
UCAUCGUUGAAUUAAUGCAAAUUUCGGCUCAUUAAUAUCAAUCAAAUGAUUGAUAGCA----------A-----CAGCCUAGCCGCACCCUGGCCUGUGCUC------UGAGUCCCAACC
.....((((((((......))))..((((((....((((((((....))))))))(((----------.-----(((.((((.......)))).))))))..------)))))).)))). ( -25.60)
>consensus
UCCUCAUCGGAAUAAUGCAAAUUUCAGCUCAUUAAUAUCAAUCAAAUGAUUGAUAGCACUUAGGGCCAACACCACAGUUGGUCCGCACCC____CUCGA_UC_______GAUUCCACUCC
.......((((.((((..........((((.....((((((((....)))))))).......))))..........)))).))))................................... (-14.06 = -15.42 +   1.36)

alignment

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secondary structure

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dotplot

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Window 0

Location 13,424,801 – 13,424,893
Length 92
Sequences 5
Columns 92
Reading direction reverse
Mean pairwise identity 96.96
Mean single sequence MFE -19.54
Consensus MFE -19.50
Energy contribution -19.30
Covariance contribution -0.20
Combinations/Pair 1.09
Mean z-score -2.54
Structure conservation index 1.00
SVM decision value 4.64
SVM RNA-class probability 0.999932
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13424801 92 - 27905053
UAAAACAUGUGAUCCUCAUCGGAAUAAUGCAAAUUUCAGCUCAUUAAUAUCAAUCAAAUGAUUGAUAGCACUUAGGGCCAACACCACAGUUG
...(((.((((.(((.....)))...............((((.....((((((((....)))))))).......))))......))))))). ( -19.40)
>DroSec_CAF1 50425 92 - 1
UAAAACAUGUGAUCCUCAUCGGAAUAAUGCAAAUUUCAGCUCAUUAAUAUCAAUCAAAUGAUUGAUAGCACUUAGGGCCAACACCGCAGUUG
...(((.((((.(((.....)))...............((((.....((((((((....)))))))).......))))......))))))). ( -19.00)
>DroSim_CAF1 53249 92 - 1
UAAAACAUGUGAUCCUCAUCGGAAUAAUGCAAAUUUCAGCUCAUUAAUAUCAAUCAAAUGAUUGAUAGCACUUAGGGCCAACACCACAGUUG
...(((.((((.(((.....)))...............((((.....((((((((....)))))))).......))))......))))))). ( -19.40)
>DroEre_CAF1 50681 92 - 1
UAAAACAUGUGAUCCUCAACGGAAUAAUGCAAAUUUCAGCUCAUUAAUAUCAAUCAAAUGAUUGAUAGCACUUAGAGCCACCACCACAGUUG
...(((.((((.(((.....)))...............((((.....((((((((....)))))))).......))))......))))))). ( -20.30)
>DroYak_CAF1 55563 91 - 1
UA-AACAUGUGAUCCUCAUCGGAAUAAUGCAAAUUUCAGCUCAUUAAUAUCAAUCAAAUGAUUGAUAGCACUUAGAGCCACCACCACAGUGG
..-..((((((.(((.....)))...............((((.....((((((((....)))))))).......))))......)))).)). ( -19.60)
>consensus
UAAAACAUGUGAUCCUCAUCGGAAUAAUGCAAAUUUCAGCUCAUUAAUAUCAAUCAAAUGAUUGAUAGCACUUAGGGCCAACACCACAGUUG
...(((.((((.(((.....)))...............((((.....((((((((....)))))))).......))))......))))))). (-19.50 = -19.30 +  -0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:45:58 2006