Locus 7116

Sequence ID 3R_DroMel_CAF1
Location 18,753,280 – 18,753,394
Length 114
Max. P 0.598753
window11514

overview

Window 4

Location 18,753,280 – 18,753,394
Length 114
Sequences 5
Columns 114
Reading direction forward
Mean pairwise identity 94.59
Mean single sequence MFE -24.26
Consensus MFE -22.90
Energy contribution -23.34
Covariance contribution 0.44
Combinations/Pair 1.03
Mean z-score -1.08
Structure conservation index 0.94
SVM decision value 0.13
SVM RNA-class probability 0.598753
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18753280 114 + 27905053
UUUUUUUUUGGCAUAAAAACUUAUUGACAUUUCUCUGAGUGCAAGUGCCAUUCGAUUCCGGACCGGAAAGCCUUUUCGUGUUCAUCCGUUCAAUCAACUCAAUUAAUAUUGAUG
........((((((....(((((..((....))..)))))....))))))...((((.((((...(((.((......)).))).))))...))))...(((((....))))).. ( -23.00)
>DroSec_CAF1 11948 112 + 1
UUC--UUUAGGCAUAAAAACUUAUUGACAUUUCUCUGAGUGCAAGUGCCAUUCGAUUGCGGACCGGAAAGCCUUUUCGUGUUCAUCCGUUCAAUCAACUCAAUUAAUAUUGAUG
...--....(((((....(((((..((....))..)))))....)))))....(((((((((...(((.((......)).))).))))..)))))...(((((....))))).. ( -25.20)
>DroSim_CAF1 12058 112 + 1
UUU--UUUAGGCAUAAAAACUUAUUGACAUUUCUCUGAGUGCAAGUGCCAUUCGAUUGCGGACCGGAAAGCCUUUUCGUGUUCAUCCGUUCAAUCAACUCAAUUAAUAUUGAUG
...--....(((((....(((((..((....))..)))))....)))))....(((((((((...(((.((......)).))).))))..)))))...(((((....))))).. ( -25.20)
>DroEre_CAF1 12011 109 + 1
UCU--UUGAGGCAU---AACUUAUUGAGAUUUCUCUGAGUGCAAGUGCCAUUCGAUUCCGGACCGGAAAGCCUUUUCGUGUUCAUCCGUUCAAUCAACUCAAUUAAUAUUGAUG
...--(((((((((---.(((((..(((....))))))))....)))))..........(((((((((.....))))).))))......)))).....(((((....))))).. ( -23.60)
>DroYak_CAF1 6082 112 + 1
UUU--UUUAGGCAUUAAAACUUAUUGACAUUUUUCUGAGUGCAAGUGCCAUUCGUUUGCGGAGCGGAAAGCCUUUUCGUGUUCAUCCGUUCAAUCAACUCAAUUAAUAUUGAUG
...--....((((((...(((((..((....))..)))))...))))))....(((....(((((((.((((.....).)))..)))))))....)))(((((....))))).. ( -24.30)
>consensus
UUU__UUUAGGCAUAAAAACUUAUUGACAUUUCUCUGAGUGCAAGUGCCAUUCGAUUGCGGACCGGAAAGCCUUUUCGUGUUCAUCCGUUCAAUCAACUCAAUUAAUAUUGAUG
.........(((((....(((((..((....))..)))))....)))))....(((((((((...(((.((......)).))).))))..)))))...(((((....))))).. (-22.90 = -23.34 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:37:49 2006