Locus 3823

Sequence ID 2L_DroMel_CAF1
Location 11,146,910 – 11,147,011
Length 101
Max. P 0.949613
window6022 window6023

overview

Window 2

Location 11,146,910 – 11,147,011
Length 101
Sequences 5
Columns 114
Reading direction forward
Mean pairwise identity 82.01
Mean single sequence MFE -21.82
Consensus MFE -15.06
Energy contribution -14.78
Covariance contribution -0.28
Combinations/Pair 1.21
Mean z-score -2.32
Structure conservation index 0.69
SVM decision value 1.28
SVM RNA-class probability 0.939823
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11146910 101 + 22407834
GGUCUUUUUUUACACAUUUUUA-AUGAAAUUGCUCCCUUGCCCUAUAUUUCAUUUUGUUAAGAAGGGAGCAACAAGCACAUCCACAUAAU------------AUACGAAUAUGA
((((((((((((.(((.....(-(((((((.((......)).....)))))))).)))))))))))))((.....))....)).......------------............ ( -16.20)
>DroSec_CAF1 16081 101 + 1
GGUCUUU-UUUACACAUUUUUAAAUGAAAUUGCUCCCUUGCUCUAUAUUUCAUUUUGUUAAGAAGGGAGCAAGAAGCACAUCCGUAUAAU------------AUAUGAAUAUGA
.((((((-......((((....))))...((((((((((.((..(((........)))..)))))))))))))))).))...(((((...------------......))))). ( -21.40)
>DroSim_CAF1 16156 101 + 1
GGUCUGU-UUUACACAUUUUUAAAUGAAAUUGCUCCCUUGCCCUACAUUUCAUUUUGUUAAGAAGGGAGCAAGAAGCACAUCCAUAUAAU------------AUAUGAAUAUGA
(((.(((-(((...((((....))))...((((((((((.(...(((........)))...))))))))))))))))).)))(((((...------------......))))). ( -24.30)
>DroEre_CAF1 16278 107 + 1
--CCUUU-UUUAUACAUUUUUAAAUUAAAUUGCUCCUUUGCCCUAUACUUCCCUUUAUUAAGAAGGGAGCAAAAUGCACAU----AUAAUGCUCGUAUACGUGUAUGAAUAUGA
--.....-......................(((...(((((........(((((((.....))))))))))))..)))(((----((.((((.((....)).))))..))))). ( -22.00)
>DroYak_CAF1 16549 95 + 1
--CCUUC-UUUACAAAUUUGUAAAUUAAAUUGCUCCCUUGCCCUAUAUUUCAUUUCGUUAGGAAGGGAGCAAAAUGCACAU----AUAAU------------AUAUGAGUAUGA
--.....-((((((....)))))).....((((((((((..((((.............)))))))))))))).((((.(((----((...------------))))).)))).. ( -25.22)
>consensus
GGUCUUU_UUUACACAUUUUUAAAUGAAAUUGCUCCCUUGCCCUAUAUUUCAUUUUGUUAAGAAGGGAGCAAAAAGCACAUCC__AUAAU____________AUAUGAAUAUGA
.............................((((((((((.(...(((........)))...))))))))))).......................................... (-15.06 = -14.78 +  -0.28)

alignment

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secondary structure

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dotplot

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Window 3

Location 11,146,910 – 11,147,011
Length 101
Sequences 5
Columns 114
Reading direction reverse
Mean pairwise identity 82.01
Mean single sequence MFE -23.17
Consensus MFE -15.25
Energy contribution -16.13
Covariance contribution 0.88
Combinations/Pair 1.10
Mean z-score -2.47
Structure conservation index 0.66
SVM decision value 1.39
SVM RNA-class probability 0.949613
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11146910 101 - 22407834
UCAUAUUCGUAU------------AUUAUGUGGAUGUGCUUGUUGCUCCCUUCUUAACAAAAUGAAAUAUAGGGCAAGGGAGCAAUUUCAU-UAAAAAUGUGUAAAAAAAGACC
.((((((.((((------------(((.....)))))))..((((((((((((((................))).))))))))))).....-....))))))............ ( -23.69)
>DroSec_CAF1 16081 101 - 1
UCAUAUUCAUAU------------AUUAUACGGAUGUGCUUCUUGCUCCCUUCUUAACAAAAUGAAAUAUAGAGCAAGGGAGCAAUUUCAUUUAAAAAUGUGUAAA-AAAGACC
............------------.(((((((...(((....(((((((((((((................))).))))))))))...))).......))))))).-....... ( -20.79)
>DroSim_CAF1 16156 101 - 1
UCAUAUUCAUAU------------AUUAUAUGGAUGUGCUUCUUGCUCCCUUCUUAACAAAAUGAAAUGUAGGGCAAGGGAGCAAUUUCAUUUAAAAAUGUGUAAA-ACAGACC
.(((((((((((------------...)))))))))))....((((((((((((..(((........)))..)).)))))))))).............(((.....-))).... ( -28.40)
>DroEre_CAF1 16278 107 - 1
UCAUAUUCAUACACGUAUACGAGCAUUAU----AUGUGCAUUUUGCUCCCUUCUUAAUAAAGGGAAGUAUAGGGCAAAGGAGCAAUUUAAUUUAAAAAUGUAUAAA-AAAGG--
........((((((.(((((..((((...----..)))).......((((((.......)))))).))))).)((......))...............)))))...-.....-- ( -20.80)
>DroYak_CAF1 16549 95 - 1
UCAUACUCAUAU------------AUUAU----AUGUGCAUUUUGCUCCCUUCCUAACGAAAUGAAAUAUAGGGCAAGGGAGCAAUUUAAUUUACAAAUUUGUAAA-GAAGG--
.......(((((------------(...)----)))))....(((((((((((((................))).)))))))))).....((((((....))))))-.....-- ( -22.19)
>consensus
UCAUAUUCAUAU____________AUUAU__GGAUGUGCUUCUUGCUCCCUUCUUAACAAAAUGAAAUAUAGGGCAAGGGAGCAAUUUCAUUUAAAAAUGUGUAAA_AAAGACC
.(((((((.......................)))))))....(((((((((((((................))).))))))))))............................. (-15.25 = -16.13 +   0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:02:16 2006