Locus 272

Sequence ID	2L_DroMel_CAF1
Location	782,111 – 782,310
Length	199
Max. P	0.997308

overview

Window 4

Location	782,111 – 782,230
Length	119
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	90.50
Mean single sequence MFE	-26.64
Consensus MFE	-23.34
Energy contribution	-23.94
Covariance contribution	0.60
Combinations/Pair	1.12
Mean z-score	-2.27
Structure conservation index	0.88
SVM decision value	2.83
SVM RNA-class probability	0.997308
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 782111 119 + 22407834
GAAAUCCGAAAGGUACAUCAACUGCAAUGCAUUCGGAACUGCAAGUCGCGCUCUUUCCGACGCUCUGCAGGUAAAA-UAACAUAUUAUCAGUGCUCAAUUACAAAAUUACUAAACUGAAA
((...((....))....))..(((((..((..((((((..((.......))...)))))).))..)))))......-..........(((((....((((....)))).....))))).. ( -27.30)
>DroSec_CAF1 42502 120 + 1
GAAAUCCGAAAGGUACAUCAACUGCAAUGCAUUCGGAACUGCAAGUCGCGCUCUUUCCGACGCUCUGCAGGUAAAAUUAACAUAUAAUCAGUGCUCAAUUGAAAAAUUACAAAACUGAAA
((...((....))....))..(((((..((..((((((..((.......))...)))))).))..))))).................(((((....((((....)))).....))))).. ( -29.70)
>DroSim_CAF1 46503 120 + 1
GAAAUCCGAAAGGUACAUCAACUGCAAUGCAUUCGGAACUGCAAGUCGCGCUCUUUCCGACGCUCUGCAGGUAAAAUUAACAUAUAAUCAGUGCUCAAUUGAAAAAUUACUAAACUGAAA
((...((....))....))..(((((..((..((((((..((.......))...)))))).))..))))).................(((((....((((....)))).....))))).. ( -29.70)
>DroEre_CAF1 42141 120 + 1
AUAAUCCGAAAGGUACAUCAACUGCAAUGCAUUUGGAACUGCAAGUCGCGCUCUUUCCGACGCUCUGCAGGUAAGACAAACAUAAUUUCAUUGCACAAUUACAAAGUUACAAAAAUUAAG
.....((....))........(((((..((..((((((..((.......))...)))))).))..)))))((((((...........)).)))).......................... ( -20.90)
>DroYak_CAF1 46108 120 + 1
GAAAUCCGAAAGGUACAUAAACUGCAACGCAUUCGGAACUGCAAGUCGCGCUCUCUCCGACGCUCUGCAGGUAAAACAAACAUAUUUUCAUUGCUAAAUUGCAAAAUUACAAAAACUAAA
((((.((....))........(((((..((..(((((...((.......))....))))).))..)))))...............)))).((((......))))................ ( -25.60)
>consensus
GAAAUCCGAAAGGUACAUCAACUGCAAUGCAUUCGGAACUGCAAGUCGCGCUCUUUCCGACGCUCUGCAGGUAAAACUAACAUAUUAUCAGUGCUCAAUUGCAAAAUUACAAAACUGAAA
.....((....))........(((((..((..((((((..((.......))...)))))).))..))))).................(((((....((((....)))).....))))).. (-23.34 = -23.94 +   0.60)

alignment

secondary structure

dotplot

Window 5

Location	782,190 – 782,310
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	89.17
Mean single sequence MFE	-29.48
Consensus MFE	-22.32
Energy contribution	-22.56
Covariance contribution	0.24
Combinations/Pair	1.15
Mean z-score	-1.84
Structure conservation index	0.76
SVM decision value	0.51
SVM RNA-class probability	0.764500
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 782190 120 + 22407834
CAUAUUAUCAGUGCUCAAUUACAAAAUUACUAAACUGAAACAUCCAGACAACCAUCCGGGGCGAGAAGCCCGCCCAAAAACUCACUGAGUACCGCCAUCUAUGGGUGGAUCUGAGCCACA
..........(((((((.................(((.......)))....((((((((((((.......)))))....((((...))))...........)))))))...)))).))). ( -31.40)
>DroSec_CAF1 42582 120 + 1
CAUAUAAUCAGUGCUCAAUUGAAAAAUUACAAAACUGAAACAUUCAGACAACCAUCCGGGGCGAAAAGCCCGCCCAAAAACUCACCGAGUACCGCCAUCUGUGGGUGGACCUGAGCCACA
..........(((((((.................((((.....))))....((((((((((((.......)))))....((((...))))...........)))))))...)))).))). ( -32.80)
>DroSim_CAF1 46583 120 + 1
CAUAUAAUCAGUGCUCAAUUGAAAAAUUACUAAACUGAAACAAACAGACAACCAUCCGGGGCGAGAAGCCCGCCCAAAAACUCACCGAGUACCGCCAUCUGUGGGUGGACUUGAGUCACA
.......(((((....((((....)))).....)))))........(((.........(((((.......)))))..........(((((.(((((.......)))))))))).)))... ( -32.90)
>DroEre_CAF1 42221 120 + 1
CAUAAUUUCAUUGCACAAUUACAAAGUUACAAAAAUUAAGCAUCCAGACCACCAUUCGGGGCGAGAAGCCCGCCCAGAAACUGACCGAGUACCGCCAUCUGUGGGUGGACCUGAGUCACA
...........(((..((((.............))))..)))..(((.(((((((((((((((.......))))(((...))).))))))..(((.....))))))))..)))....... ( -25.72)
>DroYak_CAF1 46188 120 + 1
CAUAUUUUCAUUGCUAAAUUGCAAAAUUACAAAAACUAAACAUCCAGACAACCAUCCGGGGCGAGAAGCCCGCCCAGAAACUAACCGAGUACCGCCAUCUGUGGGUGGACCUGAGCCACA
..........((((......))))....................(((....((((((((((((.......)))))....(((.....)))...........)))))))..)))....... ( -24.60)
>consensus
CAUAUUAUCAGUGCUCAAUUGCAAAAUUACAAAACUGAAACAUCCAGACAACCAUCCGGGGCGAGAAGCCCGCCCAAAAACUCACCGAGUACCGCCAUCUGUGGGUGGACCUGAGCCACA
.......(((((....((((....)))).....)))))......(((....((((((((((((.......)))))....(((.....)))...........)))))))..)))....... (-22.32 = -22.56 +   0.24)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:31:44 2006