Locus 8127

Sequence ID 3R_DroMel_CAF1
Location 21,834,160 – 21,834,273
Length 113
Max. P 0.887273
window13070 window13071

overview

Window 0

Location 21,834,160 – 21,834,251
Length 91
Sequences 6
Columns 104
Reading direction forward
Mean pairwise identity 79.55
Mean single sequence MFE -20.10
Consensus MFE -14.30
Energy contribution -14.30
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.60
Structure conservation index 0.71
SVM decision value 0.68
SVM RNA-class probability 0.819499
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21834160 91 + 27905053
-------------AGAGACCCAGAGCAACAACACCAAGCAGUGUGUAUGGCCAUAGCGUGUUGUUGAAUUAAUUUAUAUCCAACAGUGCGCUUUCAACUUUAUU
-------------.((((....(.((....((((......)))).....)))...(((..((((((.((........)).))))))..)))))))......... ( -21.00)
>DroPse_CAF1 15578 88 + 1
-------------AGAGACCCAGAGAUACAGCAACAACCAC---ACACAACUGUAGCGUGUUGUUGAAUUAAUUUAUAUCCAACAGUGCGCUUUCAACUUUAUU
-------------.........(((((((((..........---......)))))(((..((((((.((........)).))))))..)))))))......... ( -17.99)
>DroEre_CAF1 10868 88 + 1
----------------GACCCAGAGCAACAACACCAAGCAGUGUGUAUGGCCAUAGCGUGUUGUUGAAUUAAUUUAUAUCCAACAGUGCGCUUUCAACUUUAUU
----------------......(.((....((((......)))).....)))..((((..((((((.((........)).))))))..))))............ ( -19.80)
>DroYak_CAF1 11051 104 + 1
GGAGACCGGAGACGGAGACCCAGAGCAACAACACCAAGCUGUGUGUAUGGCCAUAGCGUGUUGUUGAAUUAAUUUAUAUCCAACAGUGCGCUUUCAACUUUAUU
((((.(((....)))......(((((...........((((((.(.....)))))))(..((((((.((........)).))))))..))))))...))))... ( -29.50)
>DroAna_CAF1 14266 71 + 1
----------------GACCCAGAGCAACACAA-----------------CUAUAGCGUGUUGUUGAAUUAAUUUAUAUCCAACAGUGCGCUUUCAACUUUAUU
----------------.................-----------------....((((..((((((.((........)).))))))..))))............ ( -14.30)
>DroPer_CAF1 15288 88 + 1
-------------AGAGACCCAGAGAUACAGCAACAACCAC---ACACAACUGUAGCGUGUUGUUGAAUUAAUUUAUAUCCAACAGUGCGCUUUCAACUUUAUU
-------------.........(((((((((..........---......)))))(((..((((((.((........)).))))))..)))))))......... ( -17.99)
>consensus
_____________AGAGACCCAGAGCAACAACACCAAGCAG___GUAUGGCCAUAGCGUGUUGUUGAAUUAAUUUAUAUCCAACAGUGCGCUUUCAACUUUAUU
......................................................((((..((((((.((........)).))))))..))))............ (-14.30 = -14.30 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 1

Location 21,834,181 – 21,834,273
Length 92
Sequences 6
Columns 95
Reading direction reverse
Mean pairwise identity 86.98
Mean single sequence MFE -24.05
Consensus MFE -23.99
Energy contribution -23.30
Covariance contribution -0.69
Combinations/Pair 1.23
Mean z-score -1.29
Structure conservation index 1.00
SVM decision value 0.95
SVM RNA-class probability 0.887273
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21834181 92 - 27905053
-GGCUGGCUGCUUUUCGCGGCGCAAUAAAGUUGAAAGCGCACUGUUGGAUAUAAAUUAAUUCAACAACACGCUAUGGCCAUACACA--CUGCUUG
-((((.(((((.....)))))..............((((...((((((((........))))))))...))))..)))).......--....... ( -25.90)
>DroPse_CAF1 15599 90 - 1
GGGCUGGUUGCUUUUCGCGGCGCAAUAAAGUUGAAAGCGCACUGUUGGAUAUAAAUUAAUUCAACAACACGCUACAGUUGUGU-----GUGGUUG
(.(((.(((((.....))))).((((...))))..))).)..((((((((........))))))))((((((.......))))-----))..... ( -23.10)
>DroSim_CAF1 11112 94 - 1
-GGCUGGCUGCUUUUCGCGGCGCAAUAAAGUUGAAAGCGCACUGUUGGAUAUAAAUUAAUUCAACAACACGCUAUGGCCAUACACACUCUGCUUG
-((((.(((((.....)))))..............((((...((((((((........))))))))...))))..))))................ ( -25.90)
>DroYak_CAF1 11085 92 - 1
-GGCUGGCUGCUUUUCGCGGCGCAAUAAAGUUGAAAGCGCACUGUUGGAUAUAAAUUAAUUCAACAACACGCUAUGGCCAUACACA--CAGCUUG
-((((((((((.....)))))..............((((...((((((((........))))))))...)))).............--))))).. ( -26.10)
>DroAna_CAF1 14283 76 - 1
-GGCUGGCUGCUUUUCGCGGCGCAAUAAAGUUGAAAGCGCACUGUUGGAUAUAAAUUAAUUCAACAACACGCUAUAG------------------
-.((..(((((.....)))))))............((((...((((((((........))))))))...))))....------------------ ( -20.20)
>DroPer_CAF1 15309 90 - 1
GGGCUGGUUGCUUUUCGCGGCGCAAUAAAGUUGAAAGCGCACUGUUGGAUAUAAAUUAAUUCAACAACACGCUACAGUUGUGU-----GUGGUUG
(.(((.(((((.....))))).((((...))))..))).)..((((((((........))))))))((((((.......))))-----))..... ( -23.10)
>consensus
_GGCUGGCUGCUUUUCGCGGCGCAAUAAAGUUGAAAGCGCACUGUUGGAUAUAAAUUAAUUCAACAACACGCUAUAGCCAUAC_____CUGCUUG
.((((((((((.....)))))..............((((...((((((((........))))))))...)))).)))))................ (-23.99 = -23.30 +  -0.69)

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 13:03:09 2006