Locus 8

Sequence ID	Eco_1
Location	2,057,871 – 2,057,954
Length	83
Max. P	0.974234

overview

Window 0

Location	2,057,871 – 2,057,954
Length	83
Sequences	5
Columns	83
Reading direction	forward
Mean pairwise identity	93.24
Mean single sequence MFE	-24.92
Consensus MFE	-24.72
Energy contribution	-24.12
Covariance contribution	-0.60
Combinations/Pair	1.19
Mean z-score	-1.18
Structure conservation index	0.99
SVM decision value	0.79
SVM RNA-class probability	0.852335
Prediction	RNA

Download alignment: ClustalW | MAF

>Eco_1 2057871 83 + 1
CGUGAGCUACGCGCGCUCGUGAGUUACAUAGUGUGUUGCAUCGGAGCACUGGACAACAGAGGCAACACACUUUUUGUUGUCUA
((((.....)))).((((.(((((.((((...)))).)).)))))))..(((((((((((((........))))))))))))) ( -25.00)
>Hin_1 1 79 + 1
--UGAGCUAUACGCGCUCGUGAGUUACAUAGCGUGUUGCAUCGGAUCACUGGGCAACAGAAGCAACACGACUUUUGUUGUC--
--.((((...(((((((.(((.....)))))))))).)).)).........(((((((((((........)))))))))))-- ( -25.70)
>Sfl_1 1 83 + 1
CGUGAGCUACGCGCGCUCGUGAGUUACAUAGUGUGUUGCAUCGGAGCACUGGACAACAGAGGCAACACACUUUUUGUUGUCUA
((((.....)))).((((.(((((.((((...)))).)).)))))))..(((((((((((((........))))))))))))) ( -25.00)
>Sty_1 1 81 + 1
--UGAGCUACGCGCGCUCGUGAGUUACAUAGUGUGUUGCAUCGGAGCACUGGACAACAGAGGCAACACACUUUUUGUUGUCUA
--.((((...(((((((.(((.....)))))))))).)).)).......(((((((((((((........))))))))))))) ( -23.90)
>Ype_1 1 83 + 1
CGUGAGCUACGCGCGCUCGUGAGUUACAUAGUGUGUUGCAUCGGAGCACUGGACAACAGAGGCAACACACUUUUUGUUGUCUA
((((.....)))).((((.(((((.((((...)))).)).)))))))..(((((((((((((........))))))))))))) ( -25.00)
>consensus
CGUGAGCUACGCGCGCUCGUGAGUUACAUAGUGUGUUGCAUCGGAGCACUGGACAACAGAGGCAACACACUUUUUGUUGUCUA
..(((((...(((((((.(((.....)))))))))).)).))).......((((((((((((........)))))))))))). (-24.72 = -24.12 +  -0.60)

alignment

secondary structure

dotplot

Window 1

Location	2,057,871 – 2,057,954
Length	83
Sequences	5
Columns	83
Reading direction	reverse
Mean pairwise identity	93.24
Mean single sequence MFE	-23.04
Consensus MFE	-21.86
Energy contribution	-21.78
Covariance contribution	-0.08
Combinations/Pair	1.09
Mean z-score	-1.50
Structure conservation index	0.95
SVM decision value	1.73
SVM RNA-class probability	0.974234
Prediction	RNA

Download alignment: ClustalW | MAF

>Eco_1 2057871 83 - 1
UAGACAACAAAAAGUGUGUUGCCUCUGUUGUCCAGUGCUCCGAUGCAACACACUAUGUAACUCACGAGCGCGCGUAGCUCACG
..((..(((...((((((((((.((.((........))...)).)))))))))).)))...))..((((.......))))... ( -23.30)
>Hin_1 1 79 - 1
--GACAACAAAAGUCGUGUUGCUUCUGUUGCCCAGUGAUCCGAUGCAACACGCUAUGUAACUCACGAGCGCGUAUAGCUCA--
--....(((..((.((((((((.((.((..(...)..))..)).)))))))))).))).......((((.......)))).-- ( -22.00)
>Sfl_1 1 83 - 1
UAGACAACAAAAAGUGUGUUGCCUCUGUUGUCCAGUGCUCCGAUGCAACACACUAUGUAACUCACGAGCGCGCGUAGCUCACG
..((..(((...((((((((((.((.((........))...)).)))))))))).)))...))..((((.......))))... ( -23.30)
>Sty_1 1 81 - 1
UAGACAACAAAAAGUGUGUUGCCUCUGUUGUCCAGUGCUCCGAUGCAACACACUAUGUAACUCACGAGCGCGCGUAGCUCA--
..((..(((...((((((((((.((.((........))...)).)))))))))).)))...))..((((.......)))).-- ( -23.30)
>Ype_1 1 83 - 1
UAGACAACAAAAAGUGUGUUGCCUCUGUUGUCCAGUGCUCCGAUGCAACACACUAUGUAACUCACGAGCGCGCGUAGCUCACG
..((..(((...((((((((((.((.((........))...)).)))))))))).)))...))..((((.......))))... ( -23.30)
>consensus
UAGACAACAAAAAGUGUGUUGCCUCUGUUGUCCAGUGCUCCGAUGCAACACACUAUGUAACUCACGAGCGCGCGUAGCUCACG
..((..(((...((((((((((.((.((........))...)).)))))))))).)))...))..((((.......))))... (-21.86 = -21.78 +  -0.08)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Thu Dec 7 14:10:05 2006