Locus 2305

Sequence ID 2R_DroMel_CAF1
Location 8,489,090 – 8,489,209
Length 119
Max. P 0.980243
window3794

overview

Window 4

Location 8,489,090 – 8,489,209
Length 119
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 81.57
Mean single sequence MFE -41.66
Consensus MFE -27.62
Energy contribution -31.00
Covariance contribution 3.38
Combinations/Pair 1.03
Mean z-score -2.62
Structure conservation index 0.66
SVM decision value 1.86
SVM RNA-class probability 0.980243
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8489090 119 + 20766785
CAAGGGGAGCGCCAGCGGGUGGUUUUCUAUACAGACUCCCAUUAAAGUUGUCGAGGGGGGGGGGAGGGGAUGGGGUGGCCCAAGGCUUAAAUAGAUAUACUAUUCGCUGGUUCAGCUC-U
.....((((((((((((((((((..(((((....((.((((((....((.((.......)).))....))))))))((((...))))...)))))...)))))))))))))...))))-) ( -44.10)
>DroSec_CAF1 1394 106 + 1
CAAGGGGAGCGCCAGCGGGUGGUUUUCUAUACAGACUCCCAUUAAAGUUGUUGG----UUGGGGAGGGGAGGC---G-------GCUUAAAUAGAUAUACUAUUCGCUGGUUCAGCUCCU
....(((((((((((((((((((..(((((.....((((((((((.....))))----)..)))))..(((..---.-------.)))..)))))...)))))))))))))...)))))) ( -42.40)
>DroSim_CAF1 1323 113 + 1
CAAGGGGAGCGCCAGCGGGUGGUUUUCUAUACAGACUUCCAUUAAAGUUGUCGG----UGGGGGAGGGGAGGG---GGCCCAAGGCUUAAAUAGAUAUACUAUUCGCUGGUUCAGCUCCU
....(((((((((((((((((((..(((((.....(((((((..(.....)..)----))))))..(((....---..))).........)))))...)))))))))))))...)))))) ( -46.40)
>DroYak_CAF1 1380 97 + 1
CGGGGGUAGCGCCAGCGGGUGGUUUUCUAUACAGACUCCCAUUAAAGUUGUCCGG----------------GG---GCCACAAGGCUUAAAUAGAUAU---AUUCGCUGGUUCAGCUC-U
..(((((.(.(((((((((((....(((((.......(((.............))----------------)(---(((....))))...)))))..)---)))))))))).).))))-) ( -33.72)
>consensus
CAAGGGGAGCGCCAGCGGGUGGUUUUCUAUACAGACUCCCAUUAAAGUUGUCGG____UGGGGGAGGGGAGGG___GGCCCAAGGCUUAAAUAGAUAUACUAUUCGCUGGUUCAGCUC_U
....(((((((((((((((((((..(((((.....(((((.....................)))))..........(((.....)))...)))))...)))))))))))))...)))))) (-27.62 = -31.00 +   3.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:26:20 2006