Locus 5680

Sequence ID	2R_DroMel_CAF1
Location	18,016,553 – 18,016,659
Length	106
Max. P	0.985972

overview

Window 6

Location	18,016,553 – 18,016,659
Length	106
Sequences	5
Columns	106
Reading direction	forward
Mean pairwise identity	96.98
Mean single sequence MFE	-30.38
Consensus MFE	-28.12
Energy contribution	-28.52
Covariance contribution	0.40
Combinations/Pair	1.00
Mean z-score	-1.76
Structure conservation index	0.93
SVM decision value	2.03
SVM RNA-class probability	0.985972
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18016553 106 + 20766785
UAGCCCGAGGAGCCUUUUUGUGUGUGGCAUGGAUUUUAAAUUAAGUUUUAAUAUUCAUACUGAGCCGCAGUGAGUCCGCUUUAGCUCUUGCCAUUUUUCUGGGCCC
..((((((((((((.....).))(((((((((((.(((((......))))).))))))...((((...((((....))))...))))..)))))))))).)))).. ( -30.40)
>DroSec_CAF1 30470 106 + 1
UAGCCCGAGGAGCCUUUUUGUGUGUGGCAUGGAUUUUAAAUUAAGUUUUAAUAUUCAUACUGAUCCGCAGUGAGUCCGCUUUAGCUCUUGCCAUUUUUCUGGGCCC
..(((((.((((((...........)))((((((.(((((......))))).)))))).....)))((((.((((........))))))))........))))).. ( -28.70)
>DroSim_CAF1 29461 106 + 1
UAGCCCGAGGAGCCUUUUUGUGUGUGGCAUGGAUUUUAAAUUAAGUUUUAAUAUUCAUACUGAGCCGCAGUGAGUCCGCUUUAGCUCUUGCCAUUUUUCUGGGCCC
..((((((((((((.....).))(((((((((((.(((((......))))).))))))...((((...((((....))))...))))..)))))))))).)))).. ( -30.40)
>DroEre_CAF1 31979 106 + 1
UAGCCCGAGGAGCCUUUUUGUGUGUGGCAUGGAUUUUAAAUUAAGUUUUAAUAUUCAUACUGAGACGCAGUGAGUCCGCUUUAGCUCUCGCCAUUUUUCAGGGCCC
..(((((((....)))..((...(((((((((((.(((((......))))).))))))...((((.((((((....))))...)))))))))))....)))))).. ( -31.40)
>DroYak_CAF1 29829 106 + 1
UUGCCCGAGGAGCCUUUUUGUGUGUGGCAUGGAUUUUAAAUUAAGUUUUAAUAUUCAUACUGAGCCGCAGUGAAACCGCUUUAGCUCUCGCCAUUUUUCAGGGCCC
..(((((((....)))..((...(((((((((((.(((((......))))).))))))...((((...((((....))))...))))..)))))....)))))).. ( -31.00)
>consensus
UAGCCCGAGGAGCCUUUUUGUGUGUGGCAUGGAUUUUAAAUUAAGUUUUAAUAUUCAUACUGAGCCGCAGUGAGUCCGCUUUAGCUCUUGCCAUUUUUCUGGGCCC
..((((((((((((.....).))(((((((((((.(((((......))))).))))))...((((...((((....))))...))))..)))))))))).)))).. (-28.12 = -28.52 +   0.40)

alignment

secondary structure

dotplot

Window 7

Location	18,016,553 – 18,016,659
Length	106
Sequences	5
Columns	106
Reading direction	reverse
Mean pairwise identity	96.98
Mean single sequence MFE	-26.10
Consensus MFE	-23.52
Energy contribution	-24.12
Covariance contribution	0.60
Combinations/Pair	1.00
Mean z-score	-1.84
Structure conservation index	0.90
SVM decision value	1.92
SVM RNA-class probability	0.982613
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18016553 106 - 20766785
GGGCCCAGAAAAAUGGCAAGAGCUAAAGCGGACUCACUGCGGCUCAGUAUGAAUAUUAAAACUUAAUUUAAAAUCCAUGCCACACACAAAAAGGCUCCUCGGGCUA
.(((((.......((((..(((((...((((.....)))))))))...(((.((.(((((......))))).)).))))))).........((....)).))))). ( -27.00)
>DroSec_CAF1 30470 106 - 1
GGGCCCAGAAAAAUGGCAAGAGCUAAAGCGGACUCACUGCGGAUCAGUAUGAAUAUUAAAACUUAAUUUAAAAUCCAUGCCACACACAAAAAGGCUCCUCGGGCUA
.(((((.(........)..(((((...((((.....))))......(((((.((.(((((......))))).)).)))))............)))))...))))). ( -23.80)
>DroSim_CAF1 29461 106 - 1
GGGCCCAGAAAAAUGGCAAGAGCUAAAGCGGACUCACUGCGGCUCAGUAUGAAUAUUAAAACUUAAUUUAAAAUCCAUGCCACACACAAAAAGGCUCCUCGGGCUA
.(((((.......((((..(((((...((((.....)))))))))...(((.((.(((((......))))).)).))))))).........((....)).))))). ( -27.00)
>DroEre_CAF1 31979 106 - 1
GGGCCCUGAAAAAUGGCGAGAGCUAAAGCGGACUCACUGCGUCUCAGUAUGAAUAUUAAAACUUAAUUUAAAAUCCAUGCCACACACAAAAAGGCUCCUCGGGCUA
.((((((((....((((....))))..((((.....))))...)))(((((.((.(((((......))))).)).)))))....................))))). ( -25.20)
>DroYak_CAF1 29829 106 - 1
GGGCCCUGAAAAAUGGCGAGAGCUAAAGCGGUUUCACUGCGGCUCAGUAUGAAUAUUAAAACUUAAUUUAAAAUCCAUGCCACACACAAAAAGGCUCCUCGGGCAA
(((((........((((....))))..((((.....))))))))).(((((.((.(((((......))))).)).))))).............(((.....))).. ( -27.50)
>consensus
GGGCCCAGAAAAAUGGCAAGAGCUAAAGCGGACUCACUGCGGCUCAGUAUGAAUAUUAAAACUUAAUUUAAAAUCCAUGCCACACACAAAAAGGCUCCUCGGGCUA
.(((((.......((((..(((((...((((.....)))))))))...(((.((.(((((......))))).)).))))))).........((....)).))))). (-23.52 = -24.12 +   0.60)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:51:39 2006