Locus 5804

Sequence ID	2L_DroMel_CAF1
Location	16,459,914 – 16,460,030
Length	116
Max. P	0.878950

overview

Window 6

Location	16,459,914 – 16,460,030
Length	116
Sequences	6
Columns	119
Reading direction	forward
Mean pairwise identity	82.78
Mean single sequence MFE	-23.72
Consensus MFE	-15.90
Energy contribution	-15.90
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-2.56
Structure conservation index	0.67
SVM decision value	0.56
SVM RNA-class probability	0.782920
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16459914 116 + 22407834
---CAAAAGCUAAAGAUACAAGCACCAGCGAACUAAGCACCUAAGCAGCAGAUACAAAUGUAUCUAUGAGCUGCAGACGCGACUCGCGACUCAAUUACAAUUUAUUAAAAGCCGCGCAA
---.....(((.........)))....(((......((......(((((((((((....))))))....)))))...((((...))))......................))..))).. ( -24.90)
>DroPse_CAF1 59688 99 + 1
AGCUAAAAGCUAAA--------------------AAGCACCUAAACAGCAGAUACAAAUGUAUCUAUGAGCUGCAGUCGCGACUCGCGACUCAAUUACAAUUUAUUAAAAGCCGCACAA
(((.....)))...--------------------..((.......((((((((((....))))))....)))).(((((((...)))))))......................)).... ( -23.30)
>DroEre_CAF1 81648 116 + 1
---UAAAAGCUAAAGAUACAAGCCACAGCGAACUAAGCACCUAAGCAGCAGAUACAAAUGUAUCUAUGAGCUGCAGACGCGACUCGCGACUCAAUUACAAUUUAUUAAAAGCCGCGCAA
---.....(((.........)))....(((......((......(((((((((((....))))))....)))))...((((...))))......................))..))).. ( -24.00)
>DroYak_CAF1 86675 116 + 1
---CAAAAGCUAAAGAUCCAAGCCCCAGCGAACUAAGCACCUAAGCAGCAGAUACAAAUGUAUCUAUGAGCUGCAGACGCGACUCGCGACUCAAUUACAAUUUAUUAAAAGCCGCGCAA
---.....(((.........)))....(((......((......(((((((((((....))))))....)))))...((((...))))......................))..))).. ( -24.00)
>DroAna_CAF1 78478 90 + 1
---CAAAA-----------------------ACCGAG---CUAAACAGCAGAUACAAAUGUAUCUAUGAGCUGCAGUCGCGACUCGCGACUCAAUUACAAUUUAUUAAAAGCCGCGCAA
---.....-----------------------..((.(---((...((((((((((....))))))....)))).(((((((...)))))))..................)))))..... ( -22.80)
>DroPer_CAF1 57929 99 + 1
AGCUAAAAGCUAAA--------------------AAGCACCUAAACAGCAGAUACAAAUGUAUCUAUGAGCUGCAGUCGCGACUCGCGACUCAAUUACAAUUUAUUAAAAGCCGCACAA
(((.....)))...--------------------..((.......((((((((((....))))))....)))).(((((((...)))))))......................)).... ( -23.30)
>consensus
___CAAAAGCUAAA_________________ACUAAGCACCUAAACAGCAGAUACAAAUGUAUCUAUGAGCUGCAGACGCGACUCGCGACUCAAUUACAAUUUAUUAAAAGCCGCGCAA
...............................................((((((((....)))))).((((.(((((......)).))).))))....................)).... (-15.90 = -15.90 +   0.00)

alignment

secondary structure

dotplot

Window 7

Location	16,459,914 – 16,460,030
Length	116
Sequences	6
Columns	119
Reading direction	reverse
Mean pairwise identity	82.78
Mean single sequence MFE	-30.73
Consensus MFE	-25.56
Energy contribution	-25.26
Covariance contribution	-0.30
Combinations/Pair	1.09
Mean z-score	-2.13
Structure conservation index	0.83
SVM decision value	0.91
SVM RNA-class probability	0.878950
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16459914 116 - 22407834
UUGCGCGGCUUUUAAUAAAUUGUAAUUGAGUCGCGAGUCGCGUCUGCAGCUCAUAGAUACAUUUGUAUCUGCUGCUUAGGUGCUUAGUUCGCUGGUGCUUGUAUCUUUAGCUUUUG---
...((((((((................))))))))....((....(((((....((((((....))))))))))).((((..((.((....))))..))))........)).....--- ( -33.19)
>DroPse_CAF1 59688 99 - 1
UUGUGCGGCUUUUAAUAAAUUGUAAUUGAGUCGCGAGUCGCGACUGCAGCUCAUAGAUACAUUUGUAUCUGCUGUUUAGGUGCUU--------------------UUUAGCUUUUAGCU
......((((.....((((..(((....(((((((...)))))))(((((....((((((....))))))))))).....)))..--------------------))))......)))) ( -28.00)
>DroEre_CAF1 81648 116 - 1
UUGCGCGGCUUUUAAUAAAUUGUAAUUGAGUCGCGAGUCGCGUCUGCAGCUCAUAGAUACAUUUGUAUCUGCUGCUUAGGUGCUUAGUUCGCUGUGGCUUGUAUCUUUAGCUUUUA---
..(((((((((................)))))))(((((((....(((((....((((((....)))))))))))...((((.......))))))))))).........)).....--- ( -34.29)
>DroYak_CAF1 86675 116 - 1
UUGCGCGGCUUUUAAUAAAUUGUAAUUGAGUCGCGAGUCGCGUCUGCAGCUCAUAGAUACAUUUGUAUCUGCUGCUUAGGUGCUUAGUUCGCUGGGGCUUGGAUCUUUAGCUUUUG---
..(((((((((................)))))))(((((((..(((((((....((((((....)))))))))))..))..))((((....))))))))).........)).....--- ( -34.79)
>DroAna_CAF1 78478 90 - 1
UUGCGCGGCUUUUAAUAAAUUGUAAUUGAGUCGCGAGUCGCGACUGCAGCUCAUAGAUACAUUUGUAUCUGCUGUUUAG---CUCGGU-----------------------UUUUG---
...((((((((................))))))))......(((((.(((((((((((((....))))))).))...))---))))))-----------------------)....--- ( -26.09)
>DroPer_CAF1 57929 99 - 1
UUGUGCGGCUUUUAAUAAAUUGUAAUUGAGUCGCGAGUCGCGACUGCAGCUCAUAGAUACAUUUGUAUCUGCUGUUUAGGUGCUU--------------------UUUAGCUUUUAGCU
......((((.....((((..(((....(((((((...)))))))(((((....((((((....))))))))))).....)))..--------------------))))......)))) ( -28.00)
>consensus
UUGCGCGGCUUUUAAUAAAUUGUAAUUGAGUCGCGAGUCGCGACUGCAGCUCAUAGAUACAUUUGUAUCUGCUGCUUAGGUGCUUAGU_________________UUUAGCUUUUA___
...((((((((................))))))))....((..(((((((....((((((....)))))))))))..))..)).................................... (-25.56 = -25.26 +  -0.30)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:53:21 2006