Locus 7242

Sequence ID X_DroMel_CAF1
Location 18,084,783 – 18,084,878
Length 95
Max. P 0.876449
window11851 window11852

overview

Window 1

Location 18,084,783 – 18,084,878
Length 95
Sequences 4
Columns 105
Reading direction forward
Mean pairwise identity 85.81
Mean single sequence MFE -36.42
Consensus MFE -25.33
Energy contribution -25.82
Covariance contribution 0.50
Combinations/Pair 1.04
Mean z-score -2.26
Structure conservation index 0.70
SVM decision value 0.89
SVM RNA-class probability 0.876449
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18084783 95 + 22224390
GUCGUCGUCGAG-CUGAGACUGCUGGGCGGCU-AGAGAAGAGGCAUUUCUUGUCUCUGGGGAAAAGUCGAAGUUUUUCCCGGC--------CCAUUGGCUAUUUU
...((((((.((-(.......))).)))))).-.....(((((((.....))))))).((((((((......))))))))(((--------(....))))..... ( -36.70)
>DroSec_CAF1 7222 94 + 1
GUCGUCGUCGAG-CUGAGACUGCUGGGCGGCU-AGAAAAGAGACUUUUCUUGUCUCUGGAGAAAAGUCGAAGUUUUUCCCGA---------CCACUGGCUAUUUU
(((((((((.((-(.......))).)))))).-.((((((.((((((((((.......))))))))))....))))))..))---------)............. ( -31.80)
>DroSim_CAF1 6998 94 + 1
GUCGUCGUCGAG-CUGAGACUGCUGGGCGGCU-AGAGAAGAGACUUUUCUUGUCUCUUGGGAAAAGUCGAAGUUUUUCCCGA---------CCACUGGCUAUUUU
.....((((.((-(.......))).))))(((-((..(((((((.......)))))))((((((((......))))))))..---------...)))))...... ( -35.00)
>DroYak_CAF1 5830 105 + 1
GUCGUCGUCGAGACUGAGACUGCUGGGCGGCAGCGAGAAGAGGCUUUUCUUGUCUCUGGGGAAAAGCCAGAGUUUUCCCCGCCCCUCGAUGGCGCUGUCUAUUUU
(.((((((((((...(((((.((((.....))))((((((...))))))..))))).((((((((.......))))))))....))))))))))).......... ( -42.20)
>consensus
GUCGUCGUCGAG_CUGAGACUGCUGGGCGGCU_AGAGAAGAGACUUUUCUUGUCUCUGGGGAAAAGUCGAAGUUUUUCCCGA_________CCACUGGCUAUUUU
(((((((((.((.(.......))).)))))).......((((((.......)))))).((((((((......))))))))................)))...... (-25.33 = -25.82 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 18,084,783 – 18,084,878
Length 95
Sequences 4
Columns 105
Reading direction reverse
Mean pairwise identity 85.81
Mean single sequence MFE -28.45
Consensus MFE -17.98
Energy contribution -17.97
Covariance contribution -0.00
Combinations/Pair 1.17
Mean z-score -1.85
Structure conservation index 0.63
SVM decision value 0.08
SVM RNA-class probability 0.575885
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18084783 95 - 22224390
AAAAUAGCCAAUGG--------GCCGGGAAAAACUUCGACUUUUCCCCAGAGACAAGAAAUGCCUCUUCUCU-AGCCGCCCAGCAGUCUCAG-CUCGACGACGAC
......((...(((--------((.(((((((........))))))).(((((..((......))..)))))-....))))))).(((((..-...)).)))... ( -26.70)
>DroSec_CAF1 7222 94 - 1
AAAAUAGCCAGUGG---------UCGGGAAAAACUUCGACUUUUCUCCAGAGACAAGAAAAGUCUCUUUUCU-AGCCGCCCAGCAGUCUCAG-CUCGACGACGAC
..........((.(---------(((((((((........))))).)).(((((.(((((((...)))))))-.((......)).)))))..-...))).))... ( -25.20)
>DroSim_CAF1 6998 94 - 1
AAAAUAGCCAGUGG---------UCGGGAAAAACUUCGACUUUUCCCAAGAGACAAGAAAAGUCUCUUCUCU-AGCCGCCCAGCAGUCUCAG-CUCGACGACGAC
......((..((((---------(.(((((((........)))))))(((((((.......)))))))....-.)))))...)).(((((..-...)).)))... ( -27.30)
>DroYak_CAF1 5830 105 - 1
AAAAUAGACAGCGCCAUCGAGGGGCGGGGAAAACUCUGGCUUUUCCCCAGAGACAAGAAAAGCCUCUUCUCGCUGCCGCCCAGCAGUCUCAGUCUCGACGACGAC
.....((((.((.((.....)).))(((((((((....).)))))))).(((((((((......))))...((((.....)))).))))).)))).......... ( -34.60)
>consensus
AAAAUAGCCAGUGG_________UCGGGAAAAACUUCGACUUUUCCCCAGAGACAAGAAAAGCCUCUUCUCU_AGCCGCCCAGCAGUCUCAG_CUCGACGACGAC
......((..((((...........(((((((........)))))))..((((..((......))..))))....))))...)).(((((......)).)))... (-17.98 = -17.97 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:33:56 2006