Locus 7538

Sequence ID 3L_DroMel_CAF1
Location 20,239,857 – 20,239,954
Length 97
Max. P 0.842035
window12252

overview

Window 2

Location 20,239,857 – 20,239,954
Length 97
Sequences 6
Columns 102
Reading direction forward
Mean pairwise identity 78.66
Mean single sequence MFE -25.04
Consensus MFE -14.92
Energy contribution -15.65
Covariance contribution 0.73
Combinations/Pair 1.33
Mean z-score -1.95
Structure conservation index 0.60
SVM decision value 0.75
SVM RNA-class probability 0.842035
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20239857 97 + 23771897
CCACCUAC---GAAUGGCACACAUCCCCUGCCCCAAAUG--UCUCUACUACUCACUGAAAAGUGCUAGGAGCGCUGAGUAAAUCAGUGCCACGUUGAGGCAG
........---....((((.........)))).....((--((((.((....((((....))))...(..(((((((.....)))))))..))).)))))). ( -28.80)
>DroSec_CAF1 9434 100 + 1
CCACCUACGACGAAUGGCACACAUCCCCUGCCCCAAAUG--UCUCUACUACUCACUGAAAAGUGCUAGCAGCGCUGAGUAAAUCAGUGUCACGUUGAGGCAG
...............((((.........)))).....((--((((.((....((((....))))...(..(((((((.....)))))))..))).)))))). ( -25.80)
>DroSim_CAF1 10690 100 + 1
CCACCUACGACGAAUGGCACACAUCCCCUGCCCCAAAUG--UCUCUACUACUCACUGAAAAGUGCUAGCAGCGCUGAGUAAAUCAGUGCCACGUUGAGGCAG
...(((.(((((...((((.........)))).......--......(((..((((....)))).)))..(((((((.....)))))))..))))))))... ( -27.60)
>DroEre_CAF1 10126 95 + 1
CCACCUAC---GAAU--CCCACAUCCCCUGCCCCAAAUA--UAUCUAAUACUCACUCAAAAGUGCUAGGAGCGUUGAGUAAAUCAGCGCUACGUUUAGGCAA
........---....--...........((((..((((.--..((((.((((........)))).))))((((((((.....))))))))..)))).)))). ( -21.10)
>DroYak_CAF1 14651 95 + 1
CCACCUAC---GAAU--CCCACAUCUCCUGCCCCAAAUG--UCUCUACUACUCACUCAGAAGUGCUAGGAGCACUGAGUAAAUCAGUGCUACGUUGAGGCAA
........---....--...........((((...((((--(.((((.((((........)))).))))((((((((.....)))))))))))))..)))). ( -24.40)
>DroPer_CAF1 9273 100 + 1
CCACGCAUAACGAAA--CUCGUGGCCCCCACUCUAAGCCUUCUUCUGUUACUUACCCAAAAAAACAAGGAGCGCCGAGUAGGCUAAUGCUCCAUUCAGGCAA
....((...(((...--..))).))...........((((.....((((.............)))).((((((((.....)))....)))))....)))).. ( -22.52)
>consensus
CCACCUAC___GAAU__CACACAUCCCCUGCCCCAAAUG__UCUCUACUACUCACUCAAAAGUGCUAGGAGCGCUGAGUAAAUCAGUGCCACGUUGAGGCAA
............................((((.(((........(((.((((........)))).)))..(((((((.....)))))))....))).)))). (-14.92 = -15.65 +   0.73)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:49:42 2006