Locus 3211

Sequence ID 3R_DroMel_CAF1
Location 8,558,860 – 8,558,975
Length 115
Max. P 0.617421
window5198

overview

Window 8

Location 8,558,860 – 8,558,975
Length 115
Sequences 5
Columns 116
Reading direction forward
Mean pairwise identity 73.80
Mean single sequence MFE -31.96
Consensus MFE -13.48
Energy contribution -13.72
Covariance contribution 0.24
Combinations/Pair 1.24
Mean z-score -1.78
Structure conservation index 0.42
SVM decision value 0.17
SVM RNA-class probability 0.617421
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8558860 115 + 27905053
CCCCUUGACCUGUGCUCUUUCAGCCAUUUGCCUGCCCCAUUGGGAUGCCUUGGCGGAGAAUUGGCAG-CCAUUGCCAAUCGGGAGCACUUUGCCACUCAAAUGCCAAACAAUUUCA
....(((....((((((((((.((((...((...(((....)))..))..)))).))((.(((((((-...)))))))))))))))))((((.((......)).)))))))..... ( -32.70)
>DroPse_CAF1 25303 95 + 1
-------------GCCCUU--UGCCAUUUGCCUGCUCAAUCAGGGU-CGAUGG-----CAGUGGCAGUCCCUAGCCAAUGGGGAGCACUUUGCCACUCAAGUGCCAAACAAUUUCA
-------------(((..(--(((((((.((((.........))))-.)))))-----))).)))..((((((.....))))))((((((........))))))............ ( -35.10)
>DroYak_CAF1 20333 115 + 1
CCCCUUGACCUGUGCUCUUUCAGCCAUUUGCCUGCCCCAUUGGGAUGCCUUGGUGGAGAAUUGGCAG-CCAUUGCCAAUCGGGGGCACUUUGCCACUCAAAUGCCAAACAAUUUCA
.(((.............((((.((((...((...(((....)))..))..)))).))))((((((((-...)))))))).)))((((.((((.....))))))))........... ( -32.10)
>DroAna_CAF1 19924 102 + 1
CUUCUUGUGCUCUGCCCUUUUUGCGAUUUGCCUUUUCCAAGAGGAUGCCAUAG----------CCAG-CAA---CCAAUGGGGAGCACUUUGCCACUCAAGUGCCAAACAAUUUCA
......((((((..(((.(((((.((.........)))))))((.(((.....----------...)-)).---))...)))))))))((((.(((....))).))))........ ( -24.80)
>DroPer_CAF1 33084 95 + 1
-------------GCCCUU--UGCCAUUUGCCUGCUCAAUCAGGGU-CGAUGG-----CAGUGGCAGUCCCUAGCCAAUGGGGAGCACUUUGCCACUCAAGUGCCAAACAAUUUCA
-------------(((..(--(((((((.((((.........))))-.)))))-----))).)))..((((((.....))))))((((((........))))))............ ( -35.10)
>consensus
C__CUUG__CU_UGCCCUUU_UGCCAUUUGCCUGCUCCAUCAGGAUGCCAUGG_____AAGUGGCAG_CCAUAGCCAAUGGGGAGCACUUUGCCACUCAAGUGCCAAACAAUUUCA
..............(((.............((((......)))).................((((........))))...))).((((((........))))))............ (-13.48 = -13.72 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:55:47 2006