Locus 8450

Sequence ID	X_DroMel_CAF1
Location	21,011,130 – 21,011,283
Length	153
Max. P	0.985898

overview

Window 2

Location	21,011,130 – 21,011,248
Length	118
Sequences	4
Columns	118
Reading direction	reverse
Mean pairwise identity	94.49
Mean single sequence MFE	-42.80
Consensus MFE	-37.03
Energy contribution	-37.65
Covariance contribution	0.62
Combinations/Pair	1.09
Mean z-score	-1.51
Structure conservation index	0.87
SVM decision value	-0.00
SVM RNA-class probability	0.531337
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21011130 118 - 22224390
GGCGGCGACUCCAGUUGCGAAAUAUUGCAUUGCCUACUUAUGUGGGCAACAUCAGAGGAUCUCGUUGCCAAAUUGAGUAGCGCAUUACGGCGAGUGGGUGGUUUUCCGGAAUGGCUCU
((((((((.(((...(((((....)))))((((((((....)))))))).......)))..)))))))).....((((..(((......)))..((((......)))).....)))). ( -41.80)
>DroSec_CAF1 92918 118 - 1
GGCGGCGACUCCAGUUGCGAAAAAUUGCAUUGCCUACUUAUGUGGGCAACAUCAGAGGAUCUCGUUGCCAAAUUGAGUAGCGCAUUACGGCGAGUGGGUGGUUUUCCGGGAUGGCUCU
((((((((.(((...(((((....)))))((((((((....)))))))).......)))..))))))))......((.(((.(((..(((.(((.......))).)))..)))))))) ( -42.80)
>DroEre_CAF1 33548 117 - 1
GGCGGCUACUCCAGUUGCGAAAAAUUGCAUUGCCUACUUAUGUGGGCAGCAGCAGA-GAUCUCGUUGCCAAAUUGAGCAGCGCAUUACGGCGCGUGGGUGGUUUUCCCGGGUGGCUUU
...(((((((((((((((((....))))..(((((((....)))))))(((((((.-...)).)))))..)))))....((((......))))..(((.......))))))))))).. ( -43.30)
>DroYak_CAF1 39466 118 - 1
GGCGGCGACUCCAGUUGCGAAAAAUUGCAUUGCCUACUUAUGUGGGCAACAUCAGAGGAUCUCGUUGCCAAAUUGAGUAGCGCAUUACGGCGCGUGGGUGGUUUUCCCGGAUGGGUUU
((((((((.(((...(((((....)))))((((((((....)))))))).......)))..))))))))..........((((......)))).((((.......))))......... ( -43.30)
>consensus
GGCGGCGACUCCAGUUGCGAAAAAUUGCAUUGCCUACUUAUGUGGGCAACAUCAGAGGAUCUCGUUGCCAAAUUGAGUAGCGCAUUACGGCGAGUGGGUGGUUUUCCCGGAUGGCUCU
((((((((.(((...(((((....)))))((((((((....)))))))).......)))..)))))))).....((((.((((......))))..(((......)))......)))). (-37.03 = -37.65 +   0.62)

alignment

secondary structure

dotplot

Window 3

Location	21,011,168 – 21,011,283
Length	115
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	87.84
Mean single sequence MFE	-41.50
Consensus MFE	-32.04
Energy contribution	-32.35
Covariance contribution	0.31
Combinations/Pair	1.03
Mean z-score	-3.58
Structure conservation index	0.77
SVM decision value	2.02
SVM RNA-class probability	0.985898
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21011168 115 - 22224390
UUUCGCAG-----UGAGAACACUGUAGAACAAAUCCAAUUGGCGGCGACUCCAGUUGCGAAAUAUUGCAUUGCCUACUUAUGUGGGCAACAUCAGAGGAUCUCGUUGCCAAAUUGAGUAG
(((..(((-----((....)))))..)))......(((((((((((((.(((...(((((....)))))((((((((....)))))))).......)))..)))))))).)))))..... ( -42.80)
>DroSec_CAF1 92956 113 - 1
UUUCCCAG-----UGAG--CACUGUAGAAGAAUUUCAAUUGGCGGCGACUCCAGUUGCGAAAAAUUGCAUUGCCUACUUAUGUGGGCAACAUCAGAGGAUCUCGUUGCCAAAUUGAGUAG
(((..(((-----(...--.))))..)))....(((((((((((((((.(((...(((((....)))))((((((((....)))))))).......)))..)))))))).)))))))... ( -41.10)
>DroEre_CAF1 33586 117 - 1
UUUUUCAGUGUGACGAG--CACUGCAGCGCAAAUCCAAUUGGCGGCUACUCCAGUUGCGAAAAAUUGCAUUGCCUACUUAUGUGGGCAGCAGCAGA-GAUCUCGUUGCCAAAUUGAGCAG
...(((((((..(((((--..((((.((((((.(((((((((.(....).))))))).))....))))..(((((((....))))))))).)))).-...)))))..)...))))))... ( -44.60)
>DroYak_CAF1 39504 108 - 1
-----CAG-----UGAG--CACUGCAGAAGCAAUCCAAUUGGCGGCGACUCCAGUUGCGAAAAAUUGCAUUGCCUACUUAUGUGGGCAACAUCAGAGGAUCUCGUUGCCAAAUUGAGUAG
-----(((-----(...--.))))...........(((((((((((((.(((...(((((....)))))((((((((....)))))))).......)))..)))))))).)))))..... ( -37.50)
>consensus
UUUC_CAG_____UGAG__CACUGCAGAACAAAUCCAAUUGGCGGCGACUCCAGUUGCGAAAAAUUGCAUUGCCUACUUAUGUGGGCAACAUCAGAGGAUCUCGUUGCCAAAUUGAGUAG
...................................(((((((((((((.(((...(((((....)))))((((((((....)))))))).......)))..)))))))).)))))..... (-32.04 = -32.35 +   0.31)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:04:20 2006