Locus 1034

Sequence ID 3R_DroMel_CAF1
Location 3,228,746 – 3,228,860
Length 114
Max. P 0.705092
window1673

overview

Window 3

Location 3,228,746 – 3,228,860
Length 114
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 77.00
Mean single sequence MFE -41.90
Consensus MFE -21.33
Energy contribution -22.72
Covariance contribution 1.39
Combinations/Pair 1.15
Mean z-score -1.92
Structure conservation index 0.51
SVM decision value 0.36
SVM RNA-class probability 0.705092
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3228746 114 + 27905053
GCC-GAUUUUAAUGCAGCCCAC-----UGGCGGGCAAGGACGACAGCCCGGAAAAUGGGAGUUGGCGGCUAAGCCCGCCAAAGGCCGCAGGAGUGGUCGUAAUGAGAGCUGGCACAUCGA
(((-(.(((((.(((.......-----((((((((..((.((.((((((........)).)))).)).))..))))))))..((((((....))))))))).)))))..))))....... ( -47.40)
>DroSec_CAF1 53340 108 + 1
GCC-GAUUUU-----------UUGGCGUGGCGGGCGUGGACGACAGCCCGGAAAAUGGGAGUUGGCGGCUAAGCCCGCCAAAGGCCGCAGGAGUGGUCGUAAUGAGAGCUGGCACAUCGA
(((-(.((((-----------(..((.((((((((.(((.((.((((((........)).)))).)).))).))))))))..((((((....))))))))...))))).))))....... ( -48.20)
>DroSim_CAF1 54726 119 + 1
GCC-GAUUUUAAUGCAGCCCACUGGCGUGGCGGCCGAGGACGACAGCCCGGAAAAUGGGAGUUGGCGGCUAAGCCCGCCAAAGGCCGCAGGAGUGGUCGUAAUGAGAGCUGGCACAUCGA
(((-(.(((((.(((.......(((((.((((((((....((((..((((.....)))).)))).)))))..))))))))..((((((....))))))))).)))))..))))....... ( -50.80)
>DroEre_CAF1 47732 110 + 1
GCC-GAUUUUAAUGCAGCCCA---------CGGACGAGGACGACAGCCCGGAAAAUGGGAGUUGGCGGCUAAGCCCGCUAAAGGCCGCAGGAGUGGCCGUAAUGAGAGCUGGCACAACGA
(((-(.(((((.(((..((((---------....((.((.(....))))).....))))..(((((((......))))))).((((((....))))))))).)))))..))))....... ( -40.20)
>DroYak_CAF1 39197 110 + 1
GCC-GAUUUUAAUGCUGCCCA---------CGGACGAGGACGACAGCCCGGAAAAUGGGAGUUGGCGGCUAAGCCCGCCAAAGGACGCAGGAGUGGCCGUAAUGAGAGCUGGCACAUCGA
(((-(.(((((.(((.(((.(---------(...(..(..(.....((((.....))))..(((((((......))))))).)..)...)..))))).))).)))))..))))....... ( -36.00)
>DroMoj_CAF1 67415 88 + 1
GCCAGAUUUUAAUGCUGGCUG---------C-----UGAAGGACAGCCGGCAAAAUGGAGAUUGGCGAGCA---------------CCAACAAUGUUCAUAAUGAGAGC---AACAUCAA
(((((.(((((.(((((((((---------(-----.....).)))))))))...))))).)))))(((((---------------.......)))))....(((....---....))). ( -28.80)
>consensus
GCC_GAUUUUAAUGCAGCCCA_________CGGACGAGGACGACAGCCCGGAAAAUGGGAGUUGGCGGCUAAGCCCGCCAAAGGCCGCAGGAGUGGUCGUAAUGAGAGCUGGCACAUCGA
(((...(((((.............................((((..((((.....)))).))))(((((((..((.((........)).))..)))))))..)))))...)))....... (-21.33 = -22.72 +   1.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:58:52 2006