Locus 4286

Sequence ID 2R_DroMel_CAF1
Location 14,090,392 – 14,090,482
Length 90
Max. P 0.969292
window6880

overview

Window 0

Location 14,090,392 – 14,090,482
Length 90
Sequences 6
Columns 110
Reading direction reverse
Mean pairwise identity 76.49
Mean single sequence MFE -26.57
Consensus MFE -11.55
Energy contribution -11.99
Covariance contribution 0.45
Combinations/Pair 1.32
Mean z-score -2.72
Structure conservation index 0.43
SVM decision value 1.64
SVM RNA-class probability 0.969292
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14090392 90 - 20766785
-----AGAAGCCCCAAAGUGAA---CGGAUUGGUG-GACGCGAAAGCGACG-CAAGAUAAUGGCCAGUGGAUUUAGAAUGGCGAACAA--------AAGAAGUUCAA--C
-----....(((((........---.))((((((.-(.(((....))).(.-...)....).))))))...........)))((((..--------.....))))..--. ( -22.80)
>DroSec_CAF1 5590 93 - 1
-----AGAAGCCCCAAAGUGAA---CGGAUUGGGGCGACGCGAAAGCGG-G-CAAGAUAAUGGCCAGUGGAUUUAGAAUGGCGAACAAAAA-----AAGAAGUUCAA--C
-----....(((((((.(....---)...)))))))..(((....))).-.-..........((((............))))((((.....-----.....))))..--. ( -28.30)
>DroSim_CAF1 16309 91 - 1
-----AGAAGCCCCAAAGUGAA---CGGAUUGGGGCGACGCGAAAGCGGGG-CAAGAUAAUGGCCAGUGGAUUUAGAAUGGCGAACAA--------AAGAAGUUCAA--C
-----....(((((((.(....---)...)))))))..(((....)))((.-((......)).))..(((((((....((.....)).--------...))))))).--. ( -29.60)
>DroEre_CAF1 825 90 - 1
-----AGAAGCCCCAAAGUGAA---CGGAUUGGGG-GACGCGAAAGCGACGCCCAGAUAAUGGC-AUUGGACUUAGAAUGGCGAACAA--------AAGAAGUUCAA--C
-----.....((((((.(....---)...))))))-..(((....)))..(((........)))-.((((((((....((.....)).--------...))))))))--. ( -28.40)
>DroYak_CAF1 16071 97 - 1
ACCAAAGAAGCCCCAAAGUGAA---CGGAUUGGGG-GUU-UGGGGGCGACGCCAAGAUAAUGGCCAGUGGAUUUAGAAUGGCGAACAA--------AAGAAGUUCAAUGC
.((...(((.((((((.(....---)...))))))-.))-)..))(((..((((...(((...((...))..)))...))))((((..--------.....))))..))) ( -26.90)
>DroPer_CAF1 7090 94 - 1
-----AUUGAGCCCAAAAUGAAGCUCGGGUUCGGGAGCUGCCAGAGAA-----CCGAUUAUGGAUA--GGA--UAGAAUGGCAGAUAAAGACGGGCGGGAAGUUCAA--U
-----(((((((((........(((((...((.....((((((.....-----((...........--)).--.....)))))).....))))))).))..))))))--) ( -23.40)
>consensus
_____AGAAGCCCCAAAGUGAA___CGGAUUGGGG_GACGCGAAAGCGACG_CAAGAUAAUGGCCAGUGGAUUUAGAAUGGCGAACAA________AAGAAGUUCAA__C
..........((((((..((.....))..))))))...(((....)))..............((((............))))((((...............))))..... (-11.55 = -11.99 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:16:12 2006