Locus 3537

Sequence ID	2R_DroMel_CAF1
Location	11,826,686 – 11,826,777
Length	91
Max. P	0.999468

overview

Window 2

Location	11,826,686 – 11,826,777
Length	91
Sequences	5
Columns	93
Reading direction	forward
Mean pairwise identity	95.63
Mean single sequence MFE	-21.58
Consensus MFE	-19.24
Energy contribution	-19.44
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-2.56
Structure conservation index	0.89
SVM decision value	3.56
SVM RNA-class probability	0.999386
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11826686 91 + 20766785
ACGCAAACACUAAUCAAAAUAAUUUGGCAUUCGCGACUGCCAAGUGCUGAUGGAGUACACAUGUAAAUCAGCAAAUGGAAUCAGUAAAGAU--
.(((.((..((((..........))))..)).)))(((((((..(((((((....(((....))).)))))))..)))...))))......-- ( -22.30)
>DroSec_CAF1 17239 93 + 1
ACGCAAACACUAAUCAAAAUAAUUUGGCAUUCGCGACUGCCAAGUGCUGAUGGAGUACACAUGUAAAUCAGCAAAUGGAAUCAGUAAAGAUGG
.(((.((..((((..........))))..)).)))(((((((..(((((((....(((....))).)))))))..)))...))))........ ( -22.30)
>DroSim_CAF1 16094 91 + 1
ACGCAAACACUAAUCAAAAUAAUUUGGCAUUCGCGACUGCCAAGUGCUGAUGGAGUACACAUGUAAAUCAGCAAAUGGAAUCAGUAAAGAU--
.(((.((..((((..........))))..)).)))(((((((..(((((((....(((....))).)))))))..)))...))))......-- ( -22.30)
>DroEre_CAF1 17056 89 + 1
ACGCAAACACAAAUCAAAAUAAUUUGGCAUUCGC--CUGCCAAGUGCUGAUGGAGUACACAUGUAAAUCAGCAAAUGGAAUCACCAAAGAU--
............(((......((((((((.....--.))))))))((((((....(((....))).))))))...(((.....)))..)))-- ( -20.90)
>DroYak_CAF1 17446 89 + 1
ACGCAAACACUAAUCAAAGUAAUAUGGCAUUCGC--CUGCCAAGUGCUGAUGGAGUACACAUGUAAAUCAGCAAAUGGAAUCAGUAAAGAU--
........(((..............(((....))--)..(((..(((((((....(((....))).)))))))..)))....)))......-- ( -20.10)
>consensus
ACGCAAACACUAAUCAAAAUAAUUUGGCAUUCGCGACUGCCAAGUGCUGAUGGAGUACACAUGUAAAUCAGCAAAUGGAAUCAGUAAAGAU__
............(((......((((((((........))))))))((((((....(((....))).))))))................))).. (-19.24 = -19.44 +   0.20)

alignment

secondary structure

dotplot

Window 3

Location	11,826,686 – 11,826,777
Length	91
Sequences	5
Columns	93
Reading direction	reverse
Mean pairwise identity	95.63
Mean single sequence MFE	-24.12
Consensus MFE	-21.26
Energy contribution	-22.26
Covariance contribution	1.00
Combinations/Pair	1.00
Mean z-score	-2.75
Structure conservation index	0.88
SVM decision value	3.63
SVM RNA-class probability	0.999468
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11826686 91 - 20766785
--AUCUUUACUGAUUCCAUUUGCUGAUUUACAUGUGUACUCCAUCAGCACUUGGCAGUCGCGAAUGCCAAAUUAUUUUGAUUAGUGUUUGCGU
--.........(((((((..(((((((.(((....)))....)))))))..))).))))((((((((((((....))))....)))))))).. ( -25.30)
>DroSec_CAF1 17239 93 - 1
CCAUCUUUACUGAUUCCAUUUGCUGAUUUACAUGUGUACUCCAUCAGCACUUGGCAGUCGCGAAUGCCAAAUUAUUUUGAUUAGUGUUUGCGU
...........(((((((..(((((((.(((....)))....)))))))..))).))))((((((((((((....))))....)))))))).. ( -25.30)
>DroSim_CAF1 16094 91 - 1
--AUCUUUACUGAUUCCAUUUGCUGAUUUACAUGUGUACUCCAUCAGCACUUGGCAGUCGCGAAUGCCAAAUUAUUUUGAUUAGUGUUUGCGU
--.........(((((((..(((((((.(((....)))....)))))))..))).))))((((((((((((....))))....)))))))).. ( -25.30)
>DroEre_CAF1 17056 89 - 1
--AUCUUUGGUGAUUCCAUUUGCUGAUUUACAUGUGUACUCCAUCAGCACUUGGCAG--GCGAAUGCCAAAUUAUUUUGAUUUGUGUUUGCGU
--.............(((..(((((((.(((....)))....)))))))..)))...--((((((((.(((((.....))))))))))))).. ( -22.40)
>DroYak_CAF1 17446 89 - 1
--AUCUUUACUGAUUCCAUUUGCUGAUUUACAUGUGUACUCCAUCAGCACUUGGCAG--GCGAAUGCCAUAUUACUUUGAUUAGUGUUUGCGU
--.....(((((((((((..(((((((.(((....)))....)))))))..)))..(--((....)))..........))))))))....... ( -22.30)
>consensus
__AUCUUUACUGAUUCCAUUUGCUGAUUUACAUGUGUACUCCAUCAGCACUUGGCAGUCGCGAAUGCCAAAUUAUUUUGAUUAGUGUUUGCGU
...........(((((((..(((((((.(((....)))....)))))))..))).))))((((((((((((....))))....)))))))).. (-21.26 = -22.26 +   1.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:57:58 2006