Locus 5610

Sequence ID X_DroMel_CAF1
Location 14,470,046 – 14,470,240
Length 194
Max. P 0.997813
window9112 window9113

overview

Window 2

Location 14,470,046 – 14,470,149
Length 103
Sequences 4
Columns 103
Reading direction forward
Mean pairwise identity 98.06
Mean single sequence MFE -31.85
Consensus MFE -28.89
Energy contribution -29.45
Covariance contribution 0.56
Combinations/Pair 1.03
Mean z-score -1.76
Structure conservation index 0.91
SVM decision value 0.02
SVM RNA-class probability 0.542929
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14470046 103 + 22224390
GCUUUCCCUUUUUCCGAGUUGCCGCUUCGAUGACUUAAUCUCGUCGUCUUUUGGCGCCUGUCAGCCGGCGAAAAGAGUUGAGAAAUCUCGACAAGAUAGUCCC
(((.((.(((((((((.(((((((((..((((((........))))))....))))...).))))))).)))))).((((((....))))))..)).)))... ( -31.80)
>DroSec_CAF1 693 103 + 1
GCUUUCCCUUUUUCCGAGUUGCCGCUUCGAUGACUUAAUCUCGUCGUCUUUUGGCGCCUGUCAGCCGGCGAAAAGAGUCGAAAAAUCUCGACAAGAUAGUCCC
(((.((.(((((((((.(((((((((..((((((........))))))....))))...).))))))).)))))).(((((......)))))..)).)))... ( -30.40)
>DroSim_CAF1 7194 103 + 1
GCUUUCCCUUUUUCCGAGUUGCCGCUUCGAUGACUUAAUCUCGUCGUCUUUUGGCGCCUGUCAGCCGGCGAAAAGAGUCGAGAAAUCUCGACAAGAUAGUCCC
(((.((.(((((((((.(((((((((..((((((........))))))....))))...).))))))).)))))).((((((....))))))..)).)))... ( -33.90)
>DroYak_CAF1 3307 103 + 1
GCUUUCCCUUUUUCCGAGUUGCCGCUUCGAUGACUUAAUCUCGUCGUCUUUUGGCGCCUGUCAGGCUGCGAAAAGAGUCGAGAAAUCUCGACAAGAUAGUCCC
(((.((.((((((.((....((((....((((((........))))))...))))(((.....))))).)))))).((((((....))))))..)).)))... ( -31.30)
>consensus
GCUUUCCCUUUUUCCGAGUUGCCGCUUCGAUGACUUAAUCUCGUCGUCUUUUGGCGCCUGUCAGCCGGCGAAAAGAGUCGAGAAAUCUCGACAAGAUAGUCCC
(((.((.(((((((((.(((((((((..((((((........))))))....))))...).))))))).)))))).((((((....))))))..)).)))... (-28.89 = -29.45 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 14,470,149 – 14,470,240
Length 91
Sequences 4
Columns 92
Reading direction forward
Mean pairwise identity 84.76
Mean single sequence MFE -17.02
Consensus MFE -16.29
Energy contribution -16.10
Covariance contribution -0.19
Combinations/Pair 1.06
Mean z-score -2.81
Structure conservation index 0.96
SVM decision value 2.94
SVM RNA-class probability 0.997813
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14470149 91 + 22224390
AACCCU-UUCGGGGUCUUACCUUUCGAACAGGUGACCAUUUGUCAGGACCCAGAAAAUUCCCAUUCCCCAUCCCAAAAACAAAAAACUCCAA
.....(-(((.(((((((((((.......))))(((.....)))))))))).)))).................................... ( -17.70)
>DroSec_CAF1 796 89 + 1
AACCCU-UUCGGGGUCUUACCUUUCGAACAGGUGACCAUUUGUCAGGACCCAGAAAAUCCCCAU-CCCCAUCCCAU-CCCAAAAAACUCCAA
.....(-(((.(((((((((((.......))))(((.....)))))))))).))))........-...........-............... ( -17.70)
>DroSim_CAF1 7297 84 + 1
AACCCU-UUCGGGGUCUUACCUUUCGAACAGGUGACCAUUUGUCAGGACCCAGAAAAUCCCCAU-CCCCA-----U-CCCAAAAAACUCCAA
.....(-(((.(((((((((((.......))))(((.....)))))))))).))))........-.....-----.-............... ( -17.70)
>DroYak_CAF1 3410 78 + 1
AACCCUUUUCGGGGUCUUACCUUUCGAACAGGUGACCAUUUGUCAGGAUCCAGAAAUC-----U-UCCCA-----U-CCCAAA--GCAUCAA
......((((.(((((((((((.......))))(((.....)))))))))).))))..-----.-.....-----.-......--....... ( -15.00)
>consensus
AACCCU_UUCGGGGUCUUACCUUUCGAACAGGUGACCAUUUGUCAGGACCCAGAAAAUCCCCAU_CCCCA_____U_CCCAAAAAACUCCAA
.......(((.(((((((((((.......))))(((.....)))))))))).)))..................................... (-16.29 = -16.10 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:52:14 2006