Locus 4832

Sequence ID 3R_DroMel_CAF1
Location 12,642,228 – 12,642,366
Length 138
Max. P 0.761527
window7919 window7920

overview

Window 9

Location 12,642,228 – 12,642,338
Length 110
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 82.65
Mean single sequence MFE -38.32
Consensus MFE -24.01
Energy contribution -24.57
Covariance contribution 0.56
Combinations/Pair 1.15
Mean z-score -2.65
Structure conservation index 0.63
SVM decision value 0.50
SVM RNA-class probability 0.761527
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12642228 110 - 27905053
----GGAGUCUC-UUUGGCGCCACUUCAUUGUGAUCAUUGAAUGGCCGUUGAUUGUGUCGCAUCGAUUCGCGGCGAUUUUAAUCGCAGGCGGCGGACAUUAA-----ACGCCUUUAAUUU
----((.(((..-...))).))......(((((((....((((.(((((.(((((........))))).))))).))))..)))))))..((((........-----.))))........ ( -34.30)
>DroPse_CAF1 16233 115 - 1
----AGAGUCGC-UCUGGCGCCACUUCAUUGUGAUUAUCGAAUGGCCGUUGAUUGUGUGGCAUCGAUCCGCGGCGAUUUGAAUCGCAGCCGGAGCACAUUAAAAUGAACGCCUUUCAUUU
----...((.((-(((((((((((......)))....((((((.(((((.(((((........))))).))))).))))))...)).))))))))))....(((((((.....))))))) ( -45.30)
>DroGri_CAF1 42091 113 - 1
ACACACAGACAUAUUGGGCACCACUCCAUUGUCAUCAUUGAGAGGCCGUUGAUUG--UCGUGUCGAUUCGCGGCGAUUUUAAUCGCAACUGGUGCGCAUUAA-----ACGCCUUUCAUUU
.......((((...((((......)))).)))).....((((((((.((((((((--(((((......)))))))))).((((((((.....)))).)))))-----))))))))))... ( -37.00)
>DroWil_CAF1 35288 106 - 1
------ACUCAC-AAUGGCGCCACUUCAUUGUCAUCAUGGAAUUGCCGUUGAUUG--UCGCAUCGAUUCGCGGCGAUUUUAAUCGCAAUGGGCAAGCAUUAA-----ACGCCUUUCAUUU
------......-...((((((....((((((.((..((((((((((((.(((((--......))))).)))))))))))))).)))))))))..(......-----.))))........ ( -30.40)
>DroAna_CAF1 9079 110 - 1
----AGAGUCGC-UGUGGCGCCACUUCAUUGUGAUCAUUGAAUGGCCGUUGAUUGUGUCGCAUCGAUUCGCGGCGAUUUUAAUCGCAAGCGGCGCACAUUAA-----ACGCCUUUCAUUU
----.(((..((-.((((((((.((....((((((....((((.(((((.(((((........))))).))))).))))..)))))))).))))).)))...-----..))..))).... ( -37.60)
>DroPer_CAF1 20923 115 - 1
----AGAGUCGC-UCUGGCGCCACUUCAUUGUGAUUAUCGAAUGGCCGUUGAUUGUGUCGCAUCGAUCCGCGGCGAUUUGAAUCGCAGCCGGAGCACAUUAAAAUGAACGCCUUUCAUUU
----...((.((-(((((((((((......)))....((((((.(((((.(((((........))))).))))).))))))...)).))))))))))....(((((((.....))))))) ( -45.30)
>consensus
____AGAGUCGC_UCUGGCGCCACUUCAUUGUGAUCAUUGAAUGGCCGUUGAUUGUGUCGCAUCGAUUCGCGGCGAUUUUAAUCGCAACCGGCGCACAUUAA_____ACGCCUUUCAUUU
.................(((((......(((((((....((((.(((((.(((((........))))).))))).))))..)))))))..)))))......................... (-24.01 = -24.57 +   0.56)

alignment

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secondary structure

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dotplot

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Window 0

Location 12,642,263 – 12,642,366
Length 103
Sequences 6
Columns 107
Reading direction reverse
Mean pairwise identity 76.15
Mean single sequence MFE -27.20
Consensus MFE -15.45
Energy contribution -15.90
Covariance contribution 0.45
Combinations/Pair 1.05
Mean z-score -1.53
Structure conservation index 0.57
SVM decision value 0.09
SVM RNA-class probability 0.577277
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12642263 103 - 27905053
GGACAACUAAUUCCACUCACAU----ACAGAUGGAGUCUCUUUGGCGCCACUUCAUUGUGAUCAUUGAAUGGCCGUUGAUUGUGUCGCAUCGAUUCGCGGCGAUUUU
(((........)))..(((((.----..((.(((.(((.....))).)))))....))))).....((((.(((((.(((((........))))).))))).)))). ( -29.00)
>DroPse_CAF1 16273 87 - 1
---C-------UACCCUCACA----------AAGAGUCGCUCUGGCGCCACUUCAUUGUGAUUAUCGAAUGGCCGUUGAUUGUGUGGCAUCGAUCCGCGGCGAUUUG
---.-------.....(((((----------(.(((((((....)))..))))..))))))....(((((.(((((.(((((........))))).))))).))))) ( -29.00)
>DroEre_CAF1 21997 107 - 1
GCACAACUAAUUCCACUCACAUAUGUACAGAUGGAGUCUCUUUGGCGCCACUUCAUUGUGAUCAUUGAAUGCCAGUUGAUUGUGUCGCAUCGAUUCGCGGCGAUUUU
...(((((.((((...(((((.(((...((.(((.(((.....))).))))).)))))))).....))))...)))))....((((((........))))))..... ( -26.70)
>DroWil_CAF1 35323 81 - 1
------------ACACUCACAA------------ACUCACAAUGGCGCCACUUCAUUGUCAUCAUGGAAUUGCCGUUGAUUG--UCGCAUCGAUUCGCGGCGAUUUU
------------..........------------....(((((((.......)))))))......(((((((((((.(((((--......))))).))))))))))) ( -21.40)
>DroAna_CAF1 9114 91 - 1
AGACAACCAAUUCCA----------------UAGAGUCGCUGUGGCGCCACUUCAUUGUGAUCAUUGAAUGGCCGUUGAUUGUGUCGCAUCGAUUCGCGGCGAUUUU
...............----------------.(((((((((((((.((((.((((.((....)).)))))))).((((((.(.....)))))))))))))))))))) ( -28.10)
>DroPer_CAF1 20963 86 - 1
-----------UACCCUCACA----------AAGAGUCGCUCUGGCGCCACUUCAUUGUGAUUAUCGAAUGGCCGUUGAUUGUGUCGCAUCGAUCCGCGGCGAUUUG
-----------.....(((((----------(.(((((((....)))..))))..))))))....(((((.(((((.(((((........))))).))))).))))) ( -29.00)
>consensus
___C_______UACACUCACA__________UAGAGUCGCUCUGGCGCCACUUCAUUGUGAUCAUUGAAUGGCCGUUGAUUGUGUCGCAUCGAUUCGCGGCGAUUUU
...................................(((.....)))..(((......)))......((((.(((((.(((((........))))).))))).)))). (-15.45 = -15.90 +   0.45)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:39:57 2006