Locus 7514

Sequence ID 3R_DroMel_CAF1
Location 20,091,023 – 20,091,117
Length 94
Max. P 0.991041
window12136 window12137

overview

Window 6

Location 20,091,023 – 20,091,117
Length 94
Sequences 6
Columns 98
Reading direction forward
Mean pairwise identity 75.37
Mean single sequence MFE -24.92
Consensus MFE -18.56
Energy contribution -18.20
Covariance contribution -0.36
Combinations/Pair 1.18
Mean z-score -2.79
Structure conservation index 0.74
SVM decision value 2.25
SVM RNA-class probability 0.991041
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20091023 94 + 27905053
GUUCUCGAGAGGGAGCGUGGGUUCGAACCCCACACCUGACAAUUGUUGA-GUUC-CUUUU-UUAGUUACUUA-UUUUAUUUGUUUGCUAAUUAGUUCC
((((((....))))))(((((.......)))))....(((((.((.(((-((..-((...-..))..)))))-...)).))))).............. ( -24.70)
>DroPse_CAF1 20760 82 + 1
GUUCUCGAGAGAGAGCGUGGGUUCGAACCCCACACCUGACAAGCGGAGG-AUUC--UUUU-UA----UCU----UUUUUUUGUCAUAUCCUUAA----
((((((....))))))(((((.......)))))...(((((((..((((-((..--....-.)----)))----))..))))))).........---- ( -30.50)
>DroSec_CAF1 13073 94 + 1
GUUCUCGAGAGGGAGCGUGGGUUCGAACCCCACACCUGACAAUUGUUGA-GUUC--UUUU-UUACUGACCUAAUUUUAUUUGUUUGCUAAUUAAUUUU
((((((....))))))(((((.......)))))....(((((.((...(-(.((--....-.....)).)).....)).))))).............. ( -19.60)
>DroSim_CAF1 13658 90 + 1
GUUCUCGAGAGGGAGCGUGGGUUCGAACCCCACACCUGACAAUUGUUGA-GUUC--UUUU-UUAGUGACUUAAUUUUAUUAAU----UACUUAGUUUU
((((((....))))))(((((.......)))))...........(((((-((((--(...-..)).)))))))).........----........... ( -22.40)
>DroYak_CAF1 12217 94 + 1
GUUCCCGAGAGGGAGCGUGGGUUCGAACCCCACACCUGACAAUGCUUUCAAUUCUUUUUUGUUUCUCAC----UUUUUCUUGUUUAUUAAUUAUUUUU
((((((....))))))(((((.......)))))....(((((................)))))......----......................... ( -20.79)
>DroPer_CAF1 20170 82 + 1
GUUCUCGAGAGAGAGCGUGGGUUCGAACCCCACACCUGACAAGCGGAGG-AUAC--UUUU-UA----UCU----UUUUUUUGUCAUAUCCUUAA----
((((((....))))))(((((.......)))))...(((((((..((((-(((.--....-))----)))----))..))))))).........---- ( -31.50)
>consensus
GUUCUCGAGAGGGAGCGUGGGUUCGAACCCCACACCUGACAAUUGUUGA_AUUC__UUUU_UUA_U_ACU___UUUUAUUUGUUUGAUAAUUAAUUUU
((((((....))))))(((((.......)))))................................................................. (-18.56 = -18.20 +  -0.36)

alignment

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secondary structure

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dotplot

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Window 7

Location 20,091,023 – 20,091,117
Length 94
Sequences 6
Columns 98
Reading direction reverse
Mean pairwise identity 75.37
Mean single sequence MFE -18.12
Consensus MFE -13.30
Energy contribution -13.30
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.40
Structure conservation index 0.73
SVM decision value 1.14
SVM RNA-class probability 0.921138
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20091023 94 - 27905053
GGAACUAAUUAGCAAACAAAUAAAA-UAAGUAACUAA-AAAAG-GAAC-UCAACAAUUGUCAGGUGUGGGGUUCGAACCCACGCUCCCUCUCGAGAAC
(((......................-..(((..((..-...))-..))-).............(((((((.......))))))))))........... ( -15.90)
>DroPse_CAF1 20760 82 - 1
----UUAAGGAUAUGACAAAAAAA----AGA----UA-AAAA--GAAU-CCUCCGCUUGUCAGGUGUGGGGUUCGAACCCACGCUCUCUCUCGAGAAC
----.........((((((.....----.((----(.-....--..))-)......)))))).(((((((.......)))))))((((....)))).. ( -20.60)
>DroSec_CAF1 13073 94 - 1
AAAAUUAAUUAGCAAACAAAUAAAAUUAGGUCAGUAA-AAAA--GAAC-UCAACAAUUGUCAGGUGUGGGGUUCGAACCCACGCUCCCUCUCGAGAAC
.....................................-....--...(-((.((....))..((((((((.......)))))))).......)))... ( -15.10)
>DroSim_CAF1 13658 90 - 1
AAAACUAAGUA----AUUAAUAAAAUUAAGUCACUAA-AAAA--GAAC-UCAACAAUUGUCAGGUGUGGGGUUCGAACCCACGCUCCCUCUCGAGAAC
.......(((.----.(((((...)))))...)))..-....--...(-((.((....))..((((((((.......)))))))).......)))... ( -15.30)
>DroYak_CAF1 12217 94 - 1
AAAAAUAAUUAAUAAACAAGAAAAA----GUGAGAAACAAAAAAGAAUUGAAAGCAUUGUCAGGUGUGGGGUUCGAACCCACGCUCCCUCUCGGGAAC
...................((...(----(((.....(((.......)))....)))).))..(((((((.......)))))))((((....)))).. ( -19.80)
>DroPer_CAF1 20170 82 - 1
----UUAAGGAUAUGACAAAAAAA----AGA----UA-AAAA--GUAU-CCUCCGCUUGUCAGGUGUGGGGUUCGAACCCACGCUCUCUCUCGAGAAC
----.........((((((.....----.((----((-....--.)))-)......)))))).(((((((.......)))))))((((....)))).. ( -22.00)
>consensus
AAAAUUAAGUAGAAAACAAAAAAAA___AGU_A_UAA_AAAA__GAAC_UCAACAAUUGUCAGGUGUGGGGUUCGAACCCACGCUCCCUCUCGAGAAC
..............................................................((((((((.......))))))))............. (-13.30 = -13.30 +  -0.00)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:47:49 2006