Locus 5082

Sequence ID 2R_DroMel_CAF1
Location 16,511,798 – 16,511,888
Length 90
Max. P 0.791606
window8124 window8125

overview

Window 4

Location 16,511,798 – 16,511,888
Length 90
Sequences 6
Columns 91
Reading direction forward
Mean pairwise identity 80.15
Mean single sequence MFE -20.79
Consensus MFE -13.51
Energy contribution -13.73
Covariance contribution 0.23
Combinations/Pair 1.27
Mean z-score -1.83
Structure conservation index 0.65
SVM decision value 0.59
SVM RNA-class probability 0.791606
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16511798 90 + 20766785
CGCCUAAGAAGGGAAAGCAGCGCUUUCCCAAAACAAGCGAAGAAGGUAAGAAUGUGGAGAACUUUGCCUAAAA-UCAAAAGCCAUGCUUAA
(((.......((((((((...)))))))).......)))....(((((((...((.....)))))))))....-....((((...)))).. ( -21.04)
>DroSec_CAF1 8812 90 + 1
CGCCUAAGAAGGGAAAGCAGCGCUUUCCCAAAACAAGCGAAGAAGGUAAGAAUGUGGAGAACUUUGCCUAAAA-UCAAAAGCCAUGCUUAA
(((.......((((((((...)))))))).......)))....(((((((...((.....)))))))))....-....((((...)))).. ( -21.04)
>DroSim_CAF1 9098 90 + 1
CGCCUAAGAAGGGAAAGCAGCGCUUUCCCAAAACAAGCGAAGAAGGUAAGAAUAUGGAGAACUUUGCCUAAAA-UCAAAAGCCAUGCUUAA
(((.......((((((((...)))))))).......)))....(((((((............)))))))....-....((((...)))).. ( -20.54)
>DroEre_CAF1 8981 90 + 1
CUCCUAAGAAGGGAAAGCAGCGCUUUCCCAAAGCAAGCGAAGAAGGUGAGAUUGCUCAGGGCUUUACAUACAA-UCUAAAACCAUGUUUAA
..........((((((((...)))))))).........(((.(.(((.((((((.....(......)...)))-)))...))).).))).. ( -21.50)
>DroYak_CAF1 8856 90 + 1
CUCCUAAGAAGGGAAAGCAGCGCUUUCCCAAAGCAAGCGAAGAAGGUAAGCUUGUGCAGGACCUUACAUACAA-UUUACAACCAUUUUUAA
.((((.....((((((((...))))))))...((((((...........))))))..))))............-................. ( -23.40)
>DroMoj_CAF1 16027 77 + 1
CGCCUAAGAAGGGCAAACAGCGUUUCCCCAAAGCUAACGAAGAAGGUGAGCGC-----------UCCCUC--AUUCCACAGCUAAG-UUAA
.((((.....))))....((((((..((.....(....).....))..)))))-----------).....--..............-.... ( -17.20)
>consensus
CGCCUAAGAAGGGAAAGCAGCGCUUUCCCAAAACAAGCGAAGAAGGUAAGAAUGUGGAGAACUUUGCCUAAAA_UCAAAAGCCAUGCUUAA
..........((((((((...))))))))..............(((((((............)))))))...................... (-13.51 = -13.73 +   0.23)

alignment

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secondary structure

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dotplot

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Window 5

Location 16,511,798 – 16,511,888
Length 90
Sequences 6
Columns 91
Reading direction reverse
Mean pairwise identity 80.15
Mean single sequence MFE -21.83
Consensus MFE -14.43
Energy contribution -14.68
Covariance contribution 0.25
Combinations/Pair 1.14
Mean z-score -1.42
Structure conservation index 0.66
SVM decision value 0.16
SVM RNA-class probability 0.611842
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16511798 90 - 20766785
UUAAGCAUGGCUUUUGA-UUUUAGGCAAAGUUCUCCACAUUCUUACCUUCUUCGCUUGUUUUGGGAAAGCGCUGCUUUCCCUUCUUAGGCG
.((((.(((((((....-....))))...(.....).))).)))).......((((((....((((((((...))))))))....)))))) ( -22.70)
>DroSec_CAF1 8812 90 - 1
UUAAGCAUGGCUUUUGA-UUUUAGGCAAAGUUCUCCACAUUCUUACCUUCUUCGCUUGUUUUGGGAAAGCGCUGCUUUCCCUUCUUAGGCG
.((((.(((((((....-....))))...(.....).))).)))).......((((((....((((((((...))))))))....)))))) ( -22.70)
>DroSim_CAF1 9098 90 - 1
UUAAGCAUGGCUUUUGA-UUUUAGGCAAAGUUCUCCAUAUUCUUACCUUCUUCGCUUGUUUUGGGAAAGCGCUGCUUUCCCUUCUUAGGCG
.((((.((((.(((((.-.......)))))....))))...)))).......((((((....((((((((...))))))))....)))))) ( -22.40)
>DroEre_CAF1 8981 90 - 1
UUAAACAUGGUUUUAGA-UUGUAUGUAAAGCCCUGAGCAAUCUCACCUUCUUCGCUUGCUUUGGGAAAGCGCUGCUUUCCCUUCUUAGGAG
.....((.(((((((.(-(...)).))))))).))(((((.(...........).)))))..((((((((...)))))))).......... ( -21.40)
>DroYak_CAF1 8856 90 - 1
UUAAAAAUGGUUGUAAA-UUGUAUGUAAGGUCCUGCACAAGCUUACCUUCUUCGCUUGCUUUGGGAAAGCGCUGCUUUCCCUUCUUAGGAG
.................-............(((((..(((((...........)))))....((((((((...))))))))....))))). ( -20.90)
>DroMoj_CAF1 16027 77 - 1
UUAA-CUUAGCUGUGGAAU--GAGGGA-----------GCGCUCACCUUCUUCGUUAGCUUUGGGGAAACGCUGUUUGCCCUUCUUAGGCG
....-....(((((..(((--((((((-----------(.(....))))))))))).))...(((.((((...)))).)))......))). ( -20.90)
>consensus
UUAAGCAUGGCUUUUGA_UUUUAGGCAAAGUUCUCCACAUUCUUACCUUCUUCGCUUGCUUUGGGAAAGCGCUGCUUUCCCUUCUUAGGCG
....................................................((((((....((((((((...))))))))....)))))) (-14.43 = -14.68 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:36:04 2006