Locus 9699

Sequence ID 3R_DroMel_CAF1
Location 25,654,824 – 25,654,922
Length 98
Max. P 0.842747
window15495

overview

Window 5

Location 25,654,824 – 25,654,922
Length 98
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 74.16
Mean single sequence MFE -29.31
Consensus MFE -4.21
Energy contribution -5.01
Covariance contribution 0.80
Combinations/Pair 1.00
Mean z-score -1.75
Structure conservation index 0.14
SVM decision value 0.76
SVM RNA-class probability 0.842747
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25654824 98 - 27905053
AAAGGGCUCGGC---------AGCCAUUUGCUGCCAGCUGCUGCGAUU------------UAUAGUGCCCUUCCCAGCGUCAAAGUAUUUCAAAUAGCAGAUUUAUGUACGUAG-CUGCA
.((((((.((((---------(((.....)))))).((....))....------------....).))))))..((((......(((..((........))..))).......)-))).. ( -30.62)
>DroSec_CAF1 1353 98 - 1
AAAGGGCUCGGC---------AGCCAUUGGUUGCCAGCUGCUGCGAUU------------UAUAGUGCUCUUCCCAGCGCCAAAGUAUUUCAAAUAUCAGAUUUAUGUAUGUAG-CUGCA
.....((..(((---------((((...)))))))(((((((((....------------....(((((......)))))....(((..((........))..)))))).))))-)))). ( -29.70)
>DroSim_CAF1 1383 110 - 1
CAAGGGCUCGGC---------AGCCAUUGGUUGUCAGCUGCUGCGAUUUAUAGUGCGAUUUAUAGUGCUCUUCCCAGCGCCAAAGUAUUUCAAAUAGCAGAUUUAAGUAUGUAG-CUGCA
....((((.(((---------((((...)))))))))))(((((((((((...(((.((((..((((((..............))))))..)))).)))....))))).)))))-).... ( -29.54)
>DroEre_CAF1 1227 94 - 1
AAAGAUCUGCGC---------AGCUAUUGUCUGCCAGCUGCUGGCAUU------------UAUAGUUGCCUCCUCAGCUGCUUAGUAUUUAAGACAGCAGAUUUAUGUAG-----CUGCA
..........((---------((((((.((((((((((((..((((..------------......))))....))))))(((((...)))))...))))))....))))-----)))). ( -36.80)
>DroYak_CAF1 1301 108 - 1
ACAGAUCUCUGCCAUUGCAAUUGCCAUUGCCUGACAGUUGCUGCGAUU------------UAUAGUGCCCUUCCCAGCUGCUAACUAUUCGAAACAACAGAUUUAUGUACGUUGUCUGGA
.(((((..((((....(((((((.((.....)).)))))))..(((..------------..((((((........)).)))).....)))...............))).)..))))).. ( -19.90)
>consensus
AAAGGGCUCGGC_________AGCCAUUGGCUGCCAGCUGCUGCGAUU____________UAUAGUGCCCUUCCCAGCGCCAAAGUAUUUCAAAUAGCAGAUUUAUGUACGUAG_CUGCA
.......................................((((.((.........................)).))))..................((((...............)))). ( -4.21 =  -5.01 +   0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:40:09 2006