Locus 18

Sequence ID	Eco_1
Location	3,376,749 – 3,376,866
Length	117
Max. P	0.967288

overview

Window 2

Location	3,376,749 – 3,376,866
Length	117
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	91.60
Mean single sequence MFE	-36.73
Consensus MFE	-33.90
Energy contribution	-34.23
Covariance contribution	0.34
Combinations/Pair	1.06
Mean z-score	-2.63
Structure conservation index	0.92
SVM decision value	1.61
SVM RNA-class probability	0.967288
Prediction	RNA

Download alignment: ClustalW | MAF

>Eco_1 3376749 117 + 1
--AGCGUGCCUAAGACAUAGUCGAACGCGGCACAGUAGAAAGC-UCAUUGCUUGUGCAAAUUGCACAACUGGAAGCCGCUAUGGUACGAAAAGUUUAAAUAACGGCUCUAGUUGAGCACA
--..((((((...(((...)))....(((((.((((...((((-.....))))((((.....)))).))))...)))))...))))))....(((.....))).((((.....))))... ( -39.90)
>Sfl_1 56 117 + 1
--AGCGUGCCUAAGACAUAGUCGAACGCGGCACAGUAGAAAGC-UCAUUGCUUGUGCAAAUUGCACAACUGGAAGCCGCUAUGGUACGAAAAGUUUAAAUAACGGCUCUAGUUGAGCACA
--..((((((...(((...)))....(((((.((((...((((-.....))))((((.....)))).))))...)))))...))))))....(((.....))).((((.....))))... ( -39.90)
>Ype_1 57 120 + 1
CUAGCGUCCCUAAGACAUAGUCGAACGCGGCAUAGUAUGAAGCUUUCUUGGAUGUGCAAAUUGCACAACUAGAAGCCGCUAUGGUACGAGAAGUUUAAAUAACGGCUUUAAUUGAGCACA
...(((((.....)))...((((....))))...)).....((((...(((.(((((.....))))).)))(((((((.(((...((.....))....))).)))))))....))))... ( -30.40)
>consensus
__AGCGUGCCUAAGACAUAGUCGAACGCGGCACAGUAGAAAGC_UCAUUGCUUGUGCAAAUUGCACAACUGGAAGCCGCUAUGGUACGAAAAGUUUAAAUAACGGCUCUAGUUGAGCACA
....((((((...(((...)))....(((((.((((...((((......))))((((.....)))).))))...)))))...))))))....(((.....))).((((.....))))... (-33.90 = -34.23 +   0.34)

alignment

secondary structure

dotplot

Window 3

Location	3,376,749 – 3,376,866
Length	117
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	91.60
Mean single sequence MFE	-33.80
Consensus MFE	-29.01
Energy contribution	-28.90
Covariance contribution	-0.11
Combinations/Pair	1.06
Mean z-score	-2.02
Structure conservation index	0.86
SVM decision value	0.30
SVM RNA-class probability	0.679532
Prediction	RNA

Download alignment: ClustalW | MAF

>Eco_1 3376749 117 - 1
UGUGCUCAACUAGAGCCGUUAUUUAAACUUUUCGUACCAUAGCGGCUUCCAGUUGUGCAAUUUGCACAAGCAAUGA-GCUUUCUACUGUGCCGCGUUCGACUAUGUCUUAGGCACGCU--
...((((((((.((((((((((....((.....))...))))))))))..)))(((((.....))))).....)))-))........(((((((((......))))....)))))...-- ( -35.90)
>Sfl_1 56 117 - 1
UGUGCUCAACUAGAGCCGUUAUUUAAACUUUUCGUACCAUAGCGGCUUCCAGUUGUGCAAUUUGCACAAGCAAUGA-GCUUUCUACUGUGCCGCGUUCGACUAUGUCUUAGGCACGCU--
...((((((((.((((((((((....((.....))...))))))))))..)))(((((.....))))).....)))-))........(((((((((......))))....)))))...-- ( -35.90)
>Ype_1 57 120 - 1
UGUGCUCAAUUAAAGCCGUUAUUUAAACUUCUCGUACCAUAGCGGCUUCUAGUUGUGCAAUUUGCACAUCCAAGAAAGCUUCAUACUAUGCCGCGUUCGACUAUGUCUUAGGGACGCUAG
..(((.((((((((((((((((....((.....))...)))))))))).)))))).))).................................((((((..(((.....)))))))))... ( -29.60)
>consensus
UGUGCUCAACUAGAGCCGUUAUUUAAACUUUUCGUACCAUAGCGGCUUCCAGUUGUGCAAUUUGCACAAGCAAUGA_GCUUUCUACUGUGCCGCGUUCGACUAUGUCUUAGGCACGCU__
..(((.(((((.((((((((((....((.....))...))))))))))..))))).)))....(((((..................))))).((((....(((.....)))..))))... (-29.01 = -28.90 +  -0.11)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Thu Dec 7 14:11:01 2006