Locus 815

Sequence ID X_DroMel_CAF1
Location 2,255,085 – 2,255,189
Length 104
Max. P 0.999997
window1317 window1318

overview

Window 7

Location 2,255,085 – 2,255,189
Length 104
Sequences 3
Columns 119
Reading direction forward
Mean pairwise identity 67.84
Mean single sequence MFE -28.10
Consensus MFE -12.85
Energy contribution -15.50
Covariance contribution 2.65
Combinations/Pair 1.19
Mean z-score -3.03
Structure conservation index 0.46
SVM decision value 2.77
SVM RNA-class probability 0.996908
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2255085 104 + 22224390
UCCCUCAACUCAAUCCUGAAUC--CUCAAUUCAGAAUCCUUUU---------CAGCCGCAGAACUUCCUCUUUCUGCGGCCAGCUGUUGAUUAACUAACUGCAUAAUGAAGGA----GU
.......((((....((((((.--....))))))......(((---------(((((((((((........)))))))))..((.((((......)))).))....)))))))----)) ( -30.40)
>DroGri_CAF1 24785 105 + 1
UCAAUCU-GGCAGUACGGGUUCUUUUCCAUUUAGCGUCGCCUCGAGCUGUGGCAGCC-----ACUUCCUUU--CUGCGGCCAGCUGUUGAUUAA----GUGCAUAAUAACUACACAC--
..((((.-((((((..(((......))).....(.(((((...(((..((((...))-----))...))).--..)))))).))))))))))..----(((...........)))..-- ( -23.50)
>DroSec_CAF1 17933 104 + 1
UCCCUCAACUCAAUCCUGAAUC--CUCAAUUCAGAAUCCUUUU---------CAGCCGCAGAACUUCCUCUUUCUGCGGCCAGCUGUUGAUUAACUAACUGCAUAAUGAAGGA----GU
.......((((....((((((.--....))))))......(((---------(((((((((((........)))))))))..((.((((......)))).))....)))))))----)) ( -30.40)
>consensus
UCCCUCAACUCAAUCCUGAAUC__CUCAAUUCAGAAUCCUUUU_________CAGCCGCAGAACUUCCUCUUUCUGCGGCCAGCUGUUGAUUAACUAACUGCAUAAUGAAGGA____GU
.........((.....(((......))).....)).((((((............(((((((((........)))))))))..((.((((......)))).)).....))))))...... (-12.85 = -15.50 +   2.65)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 2,255,085 – 2,255,189
Length 104
Sequences 3
Columns 119
Reading direction reverse
Mean pairwise identity 67.84
Mean single sequence MFE -34.10
Consensus MFE -20.92
Energy contribution -23.23
Covariance contribution 2.31
Combinations/Pair 1.19
Mean z-score -2.93
Structure conservation index 0.61
SVM decision value 6.16
SVM RNA-class probability 0.999997
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2255085 104 - 22224390
AC----UCCUUCAUUAUGCAGUUAGUUAAUCAACAGCUGGCCGCAGAAAGAGGAAGUUCUGCGGCUG---------AAAAGGAUUCUGAAUUGAG--GAUUCAGGAUUGAGUUGAGGGA
..----(((((((.....(((((.(((....))))))))(((((((((........)))))))))..---------.....(((((((((((...--)))))))))))....))))))) ( -38.10)
>DroGri_CAF1 24785 105 - 1
--GUGUGUAGUUAUUAUGCAC----UUAAUCAACAGCUGGCCGCAG--AAAGGAAGU-----GGCUGCCACAGCUCGAGGCGACGCUAAAUGGAAAAGAACCCGUACUGCC-AGAUUGA
--((((((((...))))))))----........((((((((.....--......(((-----(..((((.(.....).)))).))))..((((........))))...)))-)).))). ( -26.10)
>DroSec_CAF1 17933 104 - 1
AC----UCCUUCAUUAUGCAGUUAGUUAAUCAACAGCUGGCCGCAGAAAGAGGAAGUUCUGCGGCUG---------AAAAGGAUUCUGAAUUGAG--GAUUCAGGAUUGAGUUGAGGGA
..----(((((((.....(((((.(((....))))))))(((((((((........)))))))))..---------.....(((((((((((...--)))))))))))....))))))) ( -38.10)
>consensus
AC____UCCUUCAUUAUGCAGUUAGUUAAUCAACAGCUGGCCGCAGAAAGAGGAAGUUCUGCGGCUG_________AAAAGGAUUCUGAAUUGAG__GAUUCAGGAUUGAGUUGAGGGA
.......(((((..........................((((((((((........))))))))))...............(((((((((((.....))))))))))).....))))). (-20.92 = -23.23 +   2.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:54:26 2006