Locus 4314

Sequence ID 2R_DroMel_CAF1
Location 14,178,871 – 14,178,977
Length 106
Max. P 0.942242
window6921

overview

Window 1

Location 14,178,871 – 14,178,977
Length 106
Sequences 5
Columns 116
Reading direction reverse
Mean pairwise identity 82.66
Mean single sequence MFE -26.76
Consensus MFE -21.12
Energy contribution -21.92
Covariance contribution 0.80
Combinations/Pair 1.00
Mean z-score -2.17
Structure conservation index 0.79
SVM decision value 1.32
SVM RNA-class probability 0.942242
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14178871 106 - 20766785
---AAAAAAAAAACAAAAAAAUGAAAAUACCCGCGUGGUGGAAAGUCUCGAGAUAUUU--CAGAGCUUCAGGCGGUCCACAGCGGGAAAGUCAAUUUUAUUAA-----AAAAUGGA
---.............((((.(((.....(((((...(((((..((((.(((......--.....))).))))..))))).)))))....))).)))).....-----........ ( -28.10)
>DroSec_CAF1 23069 104 - 1
---AAAUAAAAAGCAUU-CGAUUACGAUAGCCGCGUGGUGGAAAGUCUAGAGAUAUUU--CAGAGCUUCAGGCGGUCCACAGCGGGAAAGUCAAUUUC-CUAA-----AAAAUGGA
---.........((..(-((....)))..))(((...(((((..((((..((......--.....))..))))..))))).)))(((((.....))))-)...-----........ ( -27.00)
>DroSim_CAF1 23226 107 - 1
AAAAAAUAAAAAGCAUU-CGAUUACGAUAGCCGCGUGGUGGAAAGUCUAGAGAUAUUU--CAGAGCUUCAGGCGGUCCACAGCGGGAAAGUCAAUUUC-CUAA-----AAAAUGGA
............((..(-((....)))..))(((...(((((..((((..((......--.....))..))))..))))).)))(((((.....))))-)...-----........ ( -27.00)
>DroEre_CAF1 23965 98 - 1
--------AAAGGCAUU-GAAUUACGAUACCCGCUUUGUGGAAAGUCUCGAGAUAUUU--GAGAGCUUCAGGAGGUCCCCAGCGGGAAAGGCAGUUUC-AUAA------AAAUGGA
--------....(((((-(.....)))).((((((.....(((..(((((((...)))--))))..))).((......))))))))....))...(((-((..------..))))) ( -22.40)
>DroYak_CAF1 23533 111 - 1
--AAAAU-AAAAGCAUU-GAAUUACGAUACCCGCGUGGUGGAAAGUCUUGAGAUAUUUUCUAGAGCUUCAGGCGGUCCACAGCGGGAAAGUCAAAUGG-AUAAAGUUUAAAAUGGA
--.....-.......((-(((((......(((((...(((((..((((.(((...((.....)).))).))))..))))).)))))...(((.....)-))..)))))))...... ( -29.30)
>consensus
___AAAUAAAAAGCAUU_CAAUUACGAUACCCGCGUGGUGGAAAGUCUAGAGAUAUUU__CAGAGCUUCAGGCGGUCCACAGCGGGAAAGUCAAUUUC_AUAA_____AAAAUGGA
.............................(((((...(((((..((((.(((...((.....)).))).))))..))))).))))).............................. (-21.12 = -21.92 +   0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:16:51 2006