Locus 4466

Sequence ID X_DroMel_CAF1
Location 11,818,666 – 11,818,820
Length 154
Max. P 0.985196
window7339 window7340

overview

Window 9

Location 11,818,666 – 11,818,780
Length 114
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 70.14
Mean single sequence MFE -40.16
Consensus MFE -19.00
Energy contribution -19.03
Covariance contribution 0.03
Combinations/Pair 1.44
Mean z-score -2.28
Structure conservation index 0.47
SVM decision value 2.00
SVM RNA-class probability 0.985196
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11818666 114 - 22224390
CGAUUGACCAUUAGCAACAUCAACG---GUCUGGAUGACAAUAUUGCCAUCAUCGGCGAUGGCGUCAUCCGGCGGAGCACGCACUACGGCUCGCAAGGGUCUAACAAAAGGCGCCGG
.....((((...............)---)))((((((((..(((((((......)))))))..))))))))(((.....)))....((((((....))((((......)))))))). ( -41.96)
>DroVir_CAF1 34763 114 - 1
CGCUUAACAAAUGCAAACGUCUUUA---GUCUGGAUGACAACAUUGCCAUCAUUGGAGAUGGCGUCAUCAGAGGCAGCACACCUCCUGGUCGGCAGCCGUUUAAACAGCGUAGACGA
.((.........))...(((((...---(.(((((((((..(((..(((....)))..)))..))))))...(((.((..(((....)))..)).))).......))))..))))). ( -38.50)
>DroPse_CAF1 16801 114 - 1
CGUUUGACUAACAGCCACAUCAAUA---GCCUGGAUGACAACAUAGCCAUCAUCGGAGAUGGCGUCAUCCGGAGGAGUGCACACUAUGGUUCACAGGCCUCCAAUAAACGGCGACGA
((((((.....))(((.........---....(((((((......((((((......)))))))))))))(((((.(((.((......)).)))...))))).......))))))). ( -38.50)
>DroGri_CAF1 28027 114 - 1
CGCUUAACAAAUGCGAAUAUCUUUA---GUUUGGAUGACAACAUUGCCAUCAUUGGAGAUGGCGUCACCAGAUGUGGUGCACCACCCAAUCCUCAGGCGUUCAAUAAGCGCAGACGA
((((((...(((((...........---((((((.((((..(((..(((....)))..)))..))))))))))((((....))))...........)))))...))))))....... ( -34.60)
>DroWil_CAF1 27621 117 - 1
CGUUUAACGAAUAGCAACAUUGUUGGAUGUCUGGAUGACAAUAUUGCCAUUAUUGGUGAUGGCGUCAUCAGGAGAAGUGCCCACUAUGGUUCCCAGGCCUCAAAUAAGCGGAGACGA
.(((((.....(((((....)))))((.(((((((((((..(((..(((....)))..)))..)))))).((((..(((.....)))..))))))))).))...)))))(....).. ( -36.30)
>DroMoj_CAF1 30706 114 - 1
CGCUUGGCAAGCGCAAAUACGUUCA---GUCUGGAUGACAACAUUGCCAUCAUUGGCGAUGGCGUCACCAGGGGCGGCACUCCGCCGGGCUCGCACCCUUUUGGCAAGCGUCGACGA
((((((((.(((.(...........---.(((((.((((..((((((((....))))))))..)))))))))(((((....)))))).))).))..((....))))))))....... ( -51.10)
>consensus
CGCUUAACAAAUACCAACAUCUUUA___GUCUGGAUGACAACAUUGCCAUCAUUGGAGAUGGCGUCAUCAGGAGCAGCACACACCAUGGUUCGCAGGCGUCUAAUAAGCGGAGACGA
((((((.......................(((((.((((......((((((......)))))))))))))))....((..((......))..))..........))))))....... (-19.00 = -19.03 +   0.03)

alignment

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secondary structure

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dotplot

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Window 0

Location 11,818,703 – 11,818,820
Length 117
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 79.04
Mean single sequence MFE -43.27
Consensus MFE -22.88
Energy contribution -21.63
Covariance contribution -1.25
Combinations/Pair 1.34
Mean z-score -1.82
Structure conservation index 0.53
SVM decision value -0.03
SVM RNA-class probability 0.518353
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11818703 117 - 22224390
AGUGGGAGCUCGUCGCCGAAGGGGCUCAUCUCCUAUGGCGCGAUUGACCAUUAGCAACAUCAACG---GUCUGGAUGACAAUAUUGCCAUCAUCGGCGAUGGCGUCAUCCGGCGGAGCAC
(((((..(.(((.(((((.(((((.....))))).)))))))).)..)))))...........(.---(.(((((((((..(((((((......)))))))..)))))))))).)..... ( -50.00)
>DroVir_CAF1 34800 117 - 1
AGUGGGAGCUCGACGCGGAAGGGUCUCAUCACCGAUGGGACGCUUAACAAAUGCAAACGUCUUUA---GUCUGGAUGACAACAUUGCCAUCAUUGGAGAUGGCGUCAUCAGAGGCAGCAC
.......(((.(((((....).((((((((...))))))))((.........))...))))....---((((.((((((..(((..(((....)))..)))..))))))..))))))).. ( -39.90)
>DroPse_CAF1 16838 117 - 1
UGUGGGAGCUCGUCGCAGAAGGGGCUCAUCACCGAUGGCACGUUUGACUAACAGCCACAUCAAUA---GCCUGGAUGACAACAUAGCCAUCAUCGGAGAUGGCGUCAUCCGGAGGAGUGC
.((((((((((.(......).)))))).)))).((((((..(((.....))).))))..))....---..(((((((((......((((((......)))))))))))))))........ ( -40.10)
>DroGri_CAF1 28064 117 - 1
AGUGGGAGCUCGACGCAGAAGAGGCUCAUCACCGAUGGCACGCUUAACAAAUGCGAAUAUCUUUA---GUUUGGAUGACAACAUUGCCAUCAUUGGAGAUGGCGUCACCAGAUGUGGUGC
.(((((..(((.........))).)))))((((((((...(((.........)))..))))....---((((((.((((..(((..(((....)))..)))..))))))))))..)))). ( -35.80)
>DroWil_CAF1 27658 120 - 1
AGUGGGAGCUCGUCGCAGAAGGGGCUCAUCACCGAUGGCGCGUUUAACGAAUAGCAACAUUGUUGGAUGUCUGGAUGACAAUAUUGCCAUUAUUGGUGAUGGCGUCAUCAGGAGAAGUGC
.((((((((((.(......).)))))).)))).....(((((((((((((.........))))))))).(((.((((((..(((..(((....)))..)))..)))))).)))...)))) ( -41.30)
>DroMoj_CAF1 30743 117 - 1
AGUGGGUGCCCGACGCGGUAGGGUCUCAUCCCCGAUGGGACGCUUGGCAAGCGCAAAUACGUUCA---GUCUGGAUGACAACAUUGCCAUCAUUGGCGAUGGCGUCACCAGGGGCGGCAC
....(.((((((((((.(.((.((((((((...)))))))).))).)).((((......))))..---)))(((.((((..((((((((....))))))))..))))))).))))).).. ( -52.50)
>consensus
AGUGGGAGCUCGACGCAGAAGGGGCUCAUCACCGAUGGCACGCUUAACAAAUACCAACAUCUUUA___GUCUGGAUGACAACAUUGCCAUCAUUGGAGAUGGCGUCAUCAGGAGCAGCAC
.......((((.......(((.(((.((((...)))))).).)))........................(((((.((((......((((((......))))))))))))))).).))).. (-22.88 = -21.63 +  -1.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:25:47 2006