Locus 1775

Sequence ID X_DroMel_CAF1
Location 4,891,983 – 4,892,099
Length 116
Max. P 0.902461
window2902 window2903

overview

Window 2

Location 4,891,983 – 4,892,079
Length 96
Sequences 5
Columns 116
Reading direction reverse
Mean pairwise identity 70.34
Mean single sequence MFE -17.91
Consensus MFE -7.02
Energy contribution -7.70
Covariance contribution 0.68
Combinations/Pair 1.15
Mean z-score -1.91
Structure conservation index 0.39
SVM decision value 0.76
SVM RNA-class probability 0.844680
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4891983 96 - 22224390
GGUGAGAGAGGUGCACCAUAAGAAAUUAGUGCGCUGCCCCUUCAAA--ACUUAAUAGAAUAAUAACAUAAAACU----------------GAGGAUCAACUUAAUCCUUUUUUU--
((.(.(...(((((((..(((....)))))))))).))))......--.....................(((..----------------((((((.......))))))..)))-- ( -16.90)
>DroSec_CAF1 43101 92 - 1
GGUGAGAGAGGUGCACCAUAAGAAAUUGGUG--CUGCCUUUUAAAA--ACCUAAAAGAAGAAUAAAAUAAGACA----------------GA-GAUCAACUAAAUACUUU-UAU--
(((..(((((((((((((........)))))--).)))))))....--))).......................----------------..-.................-...-- ( -20.70)
>DroSim_CAF1 44327 93 - 1
GGUGAGAGAGCUGCACCAUAAGAAAUUGGUG--CUGCCUUUUAAAA--ACCUAAAAGAAGAAUAAAAUAAGACA----------------GA-AAUCAACUUAAUACUUUUUCU--
((((((((.((.((((((........)))))--).)))))))....--)))....(((((((.....((((...----------------..-......))))....)))))))-- ( -21.00)
>DroEre_CAF1 46000 76 - 1
GGUGAGAGAGGUGCACUAUAAGAAAAAAGUG--CUGCCUUUUCAGA--UCAUAAUAAAAGGAAAACA-----------------------------------AACACUUUUUAU-G
.((((((((((((((((..........))))--).)))))))....--)))).((((((((......-----------------------------------....))))))))-. ( -17.30)
>DroYak_CAF1 44060 113 - 1
GGUGAGAGAGGUGCACCAUAAGAAAAUAGUG--CUGCCUUUUCAGAUAUCGUAAUAAAAGAAAAACAUAAGAAAUAAGAAAUAAUAAUAUGA-AAUAAACCUAAUACUUUUCUUCU
((((.(((((((((((.((......)).)))--).)))))))....)))).......(((((((..((.((.........(((....)))..-.......)).))..))))))).. ( -13.67)
>consensus
GGUGAGAGAGGUGCACCAUAAGAAAUUAGUG__CUGCCUUUUCAAA__ACCUAAUAGAAGAAUAACAUAAGACA________________GA_AAUCAACUUAAUACUUUUUAU__
.....(((((((((((((........)))))...)))))))).......................................................................... ( -7.02 =  -7.70 +   0.68)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 4,892,007 – 4,892,099
Length 92
Sequences 5
Columns 96
Reading direction reverse
Mean pairwise identity 82.90
Mean single sequence MFE -21.94
Consensus MFE -10.48
Energy contribution -11.12
Covariance contribution 0.64
Combinations/Pair 1.07
Mean z-score -3.02
Structure conservation index 0.48
SVM decision value 1.02
SVM RNA-class probability 0.902461
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4892007 92 - 22224390
AAAACGAAGCCUCGUUCGCAGGUGAGAGAGGUGCACCAUAAGAAAUUAGUGCGCUGCCCCUUCAAA--ACUUAAUAGAAUAAUAACAUAAAACU--
.....((((.(((.((((....)))).)))((((((..(((....))))))))).....))))...--..........................-- ( -18.00)
>DroSec_CAF1 43123 90 - 1
AAAACGAAGCCUCGUUCGCAGGUGAGAGAGGUGCACCAUAAGAAAUUGGUG--CUGCCUUUUAAAA--ACCUAAAAGAAGAAUAAAAUAAGACA--
..(((((....)))))...((((..(((((((((((((........)))))--).)))))))....--))))......................-- ( -24.80)
>DroSim_CAF1 44350 90 - 1
AAAACGAAGCCUCGUUCGCAGGUGAGAGAGCUGCACCAUAAGAAAUUGGUG--CUGCCUUUUAAAA--ACCUAAAAGAAGAAUAAAAUAAGACA--
..(((((....)))))...(((((((((.((.((((((........)))))--).)))))))....--))))......................-- ( -22.60)
>DroEre_CAF1 46013 83 - 1
AAAACGAAGCCUCUUUCGCAGGUGAGAGAGGUGCACUAUAAGAAAAAAGUG--CUGCCUUUUCAGA--UCAUAAUAAAAGGAAAACA---------
........((((((((((....))))))))))(((((..........))))--)..((((((....--.......))))))......--------- ( -22.30)
>DroYak_CAF1 44099 94 - 1
AAAACGAAGCCUCUUUCGCAGGUGAGAGAGGUGCACCAUAAGAAAAUAGUG--CUGCCUUUUCAGAUAUCGUAAUAAAAGAAAAACAUAAGAAAUA
...((((.((((((((((....))))))))))((((.((......)).)))--)..............))))........................ ( -22.00)
>consensus
AAAACGAAGCCUCGUUCGCAGGUGAGAGAGGUGCACCAUAAGAAAUUAGUG__CUGCCUUUUCAAA__ACCUAAUAGAAGAAUAACAUAAGACA__
........(((((.((((....)))).))))).(((((........)))))............................................. (-10.48 = -11.12 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:18:38 2006