Locus 6710

Sequence ID 3R_DroMel_CAF1
Location 17,644,765 – 17,644,912
Length 147
Max. P 0.987754
window10904 window10905

overview

Window 4

Location 17,644,765 – 17,644,879
Length 114
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 77.48
Mean single sequence MFE -35.71
Consensus MFE -22.44
Energy contribution -22.58
Covariance contribution 0.14
Combinations/Pair 1.21
Mean z-score -1.28
Structure conservation index 0.63
SVM decision value -0.01
SVM RNA-class probability 0.530908
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17644765 114 + 27905053
CUCGGAACUGUACGUCUCCAGCAGCUCUACAAUGUGCGGAUGCUUUAACAUGUGACAUAUUGUGGCCUCGCGCUUCAGAUCUGCAAAAAGAAAAAAAUAUGCAGA---GA--AUGGG-GG
...(((((.....)).))).((((..((((((((((((.(((......))).)).)))))))))).)).)).(((((..((((((..............))))))---..--.))))-). ( -32.24)
>DroPse_CAF1 34406 114 + 1
CUCGGAGCUGUAGGUCUCCAGCAGCUCGACAAUGUGUGGAUGCUUCAGCAUAUGACAUAUUGUGGCCUCGCGCUUCAGAUCUGCA---AUGGGAGUGAAAGCAGGGCAGA--AACGGCA-
.((((((((((.((...)).))))))).(((((((((.(((((....)))).).))))))))).(((..((..((((..(((...---...))).)))).))..)))...--..)))..- ( -41.80)
>DroWil_CAF1 44848 96 + 1
CUCUGAGCUGUAGGUUUCCAGUAGCUCGACAAUGUGCGGAUGCUUUAGCAUGUGACAUAUUGUGGCUUCGCGUUUUAGAUCUGUA---AUAUU--------------------AUGGCA-
......(((((((.....(((.((((..((((((((((.((((....)))).)).))))))))))))((........)).)))..---...))--------------------))))).- ( -26.40)
>DroYak_CAF1 44729 112 + 1
CUCGGAACUGUACGUCUCCAGCAGCUCCACAAUGUGCGGAUGCUUCAGCAUGUGACAUAUUGUGGCCUCGCGCUUCAGAUCUGCA---AGUGG-AAAGAUGCAGA---GAGAUGGGG-GG
.......((.(.((((((.(((.((.((((((((((((.((((....)))).)).))))))))))....))))).....((((((---..(..-..)..))))))---))))))).)-). ( -40.40)
>DroAna_CAF1 47638 108 + 1
CUCGGAGCUGUAGGUCUCUAGGAGCUCCACGAUGUGCGGAUGCUUCAACAUGUGACAUAUUGUGGCCUCGCGCUUCAGAUCUGAA---A----AAGGAAUGGAAA---GA--AUUGGCGU
...((((((.(((....))).).)))))((((((((((.(((......))).)).)))))))).(((...(..((((..(((...---.----.)))..))))..---).--...))).. ( -31.60)
>DroPer_CAF1 29469 114 + 1
CUCGGAGCUGUAGGUCUCCAGCAGCUCGACAAUGUGUGGAUGCUUCAGCAUAUGACAUAUUGUGGCCUCGCGCUUCAGAUCUGCA---AUGGGAGUGAAAGCAGGGCAGA--AACGGCA-
.((((((((((.((...)).))))))).(((((((((.(((((....)))).).))))))))).(((..((..((((..(((...---...))).)))).))..)))...--..)))..- ( -41.80)
>consensus
CUCGGAGCUGUAGGUCUCCAGCAGCUCGACAAUGUGCGGAUGCUUCAGCAUGUGACAUAUUGUGGCCUCGCGCUUCAGAUCUGCA___AUAGGAAAGAAUGCAGA___GA__AACGGCA_
........(((((((((..(((.((.(.((((((((((.((((....)))).)).)))))))).)....)))))..)))))))))................................... (-22.44 = -22.58 +   0.14)

alignment

Postscript

secondary structure

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dotplot

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Window 5

Location 17,644,805 – 17,644,912
Length 107
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 76.87
Mean single sequence MFE -34.01
Consensus MFE -17.45
Energy contribution -17.54
Covariance contribution 0.09
Combinations/Pair 1.12
Mean z-score -2.82
Structure conservation index 0.51
SVM decision value 2.09
SVM RNA-class probability 0.987754
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17644805 107 + 27905053
UGCUUUAACAUGUGACAUAUUGUGGCCUCGCGCUUCAGAUCUGCAAAAAGAAAAAAAUAUGCAGAGA--AUGGG-GGCGUGAGUU--CAGAUUGAACG-AGGUUGGGGC----CAAC
.((((((((.(((..((...(.((..((((((((((...((((((..............))))))..--...))-))))))))..--)).).)).)))-..))))))))----.... ( -36.24)
>DroSec_CAF1 39580 104 + 1
UGCUUUAACAUGUGACAUAUUGUGGCCUCGCGCUUCAGAUCUGCA---AGAAAAAAAUAUGCAGAGA--AUGGG-GGCGUGAGUU--CAGAUUGAGAG-AGGUUGGGGC----AAAU
(((((((((......((...(.((..((((((((((...((((((---...........))))))..--...))-))))))))..--)).).))....-..))))))))----)... ( -37.10)
>DroSim_CAF1 39454 104 + 1
UGCUUUAACAUGUGACAUAUUGUGGCCUCGCGCUUCAGAUCUGCA---AGAAAAAAAUAUGCAGAGA--AUGGG-GGCGUGAGUU--CAGAUUGAGCG-AGGUUGGGGC----AAAC
(((((((((.(((..((...(.((..((((((((((...((((((---...........))))))..--...))-))))))))..--)).).)).)))-..))))))))----)... ( -38.40)
>DroEre_CAF1 41367 94 + 1
UGCUUUAGCAUGUGACAUAUUGUGGCCUCGCGCUUCAGAUCUGCA---AGAAA-AAAGAUGCAGAGU----GGG-GGCGUGAGUU--CAGAUUGGUCG-GGGU-----------AAC
(((....)))(.((((....(.((..((((((((((...((((((---.....-.....))))))..----.))-))))))))..--)).)...))))-.)..-----------... ( -34.80)
>DroYak_CAF1 44769 90 + 1
UGCUUCAGCAUGUGACAUAUUGUGGCCUCGCGCUUCAGAUCUGCA---AGUGG-AAAGAUGCAGAGAGAUGGGG-GGCGUGAGUUCUCAGAUUGG----------------------
(((....))).....((..(((.(..((((((((((...((((((---..(..-..)..)))))).......))-))))))))..).)))..)).---------------------- ( -30.00)
>DroAna_CAF1 47678 106 + 1
UGCUUCAACAUGUGACAUAUUGUGGCCUCGCGCUUCAGAUCUGAA---A----AAGGAAUGGAAAGA--AUUGGCGUUGUGAGAG--GAGGCAGCGGGCAAGUGGGGGCGGCAAAAC
...................((((.(((((.(((((((..(((...---.----.)))..))))....--.(((.((((((.....--...))))).).))))))))))).))))... ( -27.50)
>consensus
UGCUUUAACAUGUGACAUAUUGUGGCCUCGCGCUUCAGAUCUGCA___AGAAAAAAAUAUGCAGAGA__AUGGG_GGCGUGAGUU__CAGAUUGAGCG_AGGUUGGGGC____AAAC
.(((.(((.(((...))).))).)))((((((((.(...((((((..............))))))........).)))))))).................................. (-17.45 = -17.54 +   0.09)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:28:07 2006