Locus 6431

Sequence ID 3R_DroMel_CAF1
Location 16,853,784 – 16,853,880
Length 96
Max. P 0.691922
window10479 window10480

overview

Window 9

Location 16,853,784 – 16,853,880
Length 96
Sequences 6
Columns 103
Reading direction forward
Mean pairwise identity 80.45
Mean single sequence MFE -25.58
Consensus MFE -15.09
Energy contribution -14.73
Covariance contribution -0.36
Combinations/Pair 1.21
Mean z-score -1.94
Structure conservation index 0.59
SVM decision value 0.33
SVM RNA-class probability 0.691922
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16853784 96 + 27905053
AGGUUAAUCAUUAUAUAGCCGGAAU---A----AAGUAUUACUAGAAGGUACGUACGCUAAAGCGUAUGUCAUGCGAUCUGGCCUUAAGGCCCUGAUCAUGCA
.(((((.........))))).....---.----..((((.....(...(.((((((((....)))))))))...)((((.((((....))))..)))))))). ( -29.10)
>DroSec_CAF1 6693 96 + 1
AGGUUAAUUAUUGUAUAGCCGGAAU---A----AAGUAUUACUAGAAGGUACGUACGCUAAAGCGUAUGUCAUGCGAUCUGGCCUUAAGGCCCUGAUCAUGCA
.(((((.........))))).....---.----..((((.....(...(.((((((((....)))))))))...)((((.((((....))))..)))))))). ( -29.10)
>DroSim_CAF1 6687 96 + 1
AGAUUAAUCAUUAUAUAGCCGGAAU---A----AAGUAUUACUAGAAGGUACGUACGCUAAAGCGUAUGUCAUGCGAUCUGGCCUUAAGGCCCUGAUCAUGCA
.................((......---.----..((((((((....))))(((((((....)))))))..))))((((.((((....))))..))))..)). ( -26.00)
>DroEre_CAF1 7183 97 + 1
AAGAUAAUCUUUAUAUAUCCGGUAG------ACAAAUGUUACUAGAAUCUACGUACGCUAAAGCAUAAGUCAUGCGAUCAGGCCUUAAGGCCCUGAUCAUGCA
.................((..((.(------((....)))))..))..........((....((((.....))))(((((((((....)).)))))))..)). ( -23.20)
>DroYak_CAF1 8757 100 + 1
AAGUUAAUUAUCAUAUAUCCGGAAU---GGAAUAUAUAUUCCUAGAGUUUACGUACGCUAAAGCAUAUGUCAUGCGAUCAGGUCUUAAGGCCCUGAUCAUGCA
....................(((((---(.......))))))....((..(((((.((....)).)))))...))(((((((((....)).)))))))..... ( -23.00)
>DroPer_CAF1 15821 97 + 1
GGAUUACACAUUAUUCGUACUUAAUUUCG----GAGUA--UCUGGCGGAUACUUACGCUAAAGCAUAGGUCAUGCGAUCGGGCCUUAAAGCUCUGAUCAUGCA
((((........)))).............----(((((--((.....)))))))..((....((((.....))))((((((((......)).))))))..)). ( -23.10)
>consensus
AGGUUAAUCAUUAUAUAGCCGGAAU___A____AAGUAUUACUAGAAGGUACGUACGCUAAAGCAUAUGUCAUGCGAUCUGGCCUUAAGGCCCUGAUCAUGCA
........................................................((....((((.....))))((((.((((....))))..))))..)). (-15.09 = -14.73 +  -0.36)

alignment

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secondary structure

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dotplot

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Window 0

Location 16,853,784 – 16,853,880
Length 96
Sequences 6
Columns 103
Reading direction reverse
Mean pairwise identity 80.45
Mean single sequence MFE -21.84
Consensus MFE -15.95
Energy contribution -15.90
Covariance contribution -0.05
Combinations/Pair 1.11
Mean z-score -1.14
Structure conservation index 0.73
SVM decision value 0.03
SVM RNA-class probability 0.548607
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16853784 96 - 27905053
UGCAUGAUCAGGGCCUUAAGGCCAGAUCGCAUGACAUACGCUUUAGCGUACGUACCUUCUAGUAAUACUU----U---AUUCCGGCUAUAUAAUGAUUAACCU
..(((((((..((((....)))).))))((...((.(((((....))))).)).......(((((....)----)---)))...))......)))........ ( -21.10)
>DroSec_CAF1 6693 96 - 1
UGCAUGAUCAGGGCCUUAAGGCCAGAUCGCAUGACAUACGCUUUAGCGUACGUACCUUCUAGUAAUACUU----U---AUUCCGGCUAUACAAUAAUUAACCU
.((..((((..((((....)))).)))).....((.(((((....))))).)).................----.---......))................. ( -20.90)
>DroSim_CAF1 6687 96 - 1
UGCAUGAUCAGGGCCUUAAGGCCAGAUCGCAUGACAUACGCUUUAGCGUACGUACCUUCUAGUAAUACUU----U---AUUCCGGCUAUAUAAUGAUUAAUCU
..(((((((..((((....)))).))))((...((.(((((....))))).)).......(((((....)----)---)))...))......)))........ ( -21.10)
>DroEre_CAF1 7183 97 - 1
UGCAUGAUCAGGGCCUUAAGGCCUGAUCGCAUGACUUAUGCUUUAGCGUACGUAGAUUCUAGUAACAUUUGU------CUACCGGAUAUAUAAAGAUUAUCUU
.((..(((((((.((....)))))))))(((((...)))))....))....((((((.............))------)))).(((((.........))))). ( -25.42)
>DroYak_CAF1 8757 100 - 1
UGCAUGAUCAGGGCCUUAAGACCUGAUCGCAUGACAUAUGCUUUAGCGUACGUAAACUCUAGGAAUAUAUAUUCC---AUUCCGGAUAUAUGAUAAUUAACUU
(((..(((((((.........))))))))))..((.(((((....))))).))............(((((((((.---.....)))))))))........... ( -23.30)
>DroPer_CAF1 15821 97 - 1
UGCAUGAUCAGAGCUUUAAGGCCCGAUCGCAUGACCUAUGCUUUAGCGUAAGUAUCCGCCAGA--UACUC----CGAAAUUAAGUACGAAUAAUGUGUAAUCC
(((..((((.(.(((....)))).))))((((......(((((...((..((((((.....))--)))).----)).....)))))......))))))).... ( -19.20)
>consensus
UGCAUGAUCAGGGCCUUAAGGCCAGAUCGCAUGACAUACGCUUUAGCGUACGUACCUUCUAGUAAUACUU____U___AUUCCGGAUAUAUAAUGAUUAACCU
(((..((((..((((....)))).)))))))..((.(((((....))))).)).................................................. (-15.95 = -15.90 +  -0.05)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:21:20 2006