Locus 3884

Sequence ID 3R_DroMel_CAF1
Location 10,559,490 – 10,559,635
Length 145
Max. P 0.895401
window6226 window6227

overview

Window 6

Location 10,559,490 – 10,559,610
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 94.39
Mean single sequence MFE -19.05
Consensus MFE -17.97
Energy contribution -16.88
Covariance contribution -1.08
Combinations/Pair 1.15
Mean z-score -1.19
Structure conservation index 0.94
SVM decision value 0.99
SVM RNA-class probability 0.895401
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10559490 120 - 27905053
UACAGCCGGACAGCCCUUAUCAAGGAGGUGUAUUCUUCUUAACUAUACAUUUUCCAACAGACUAUCCCUUUAAACCACCCAAAGUGGCUUUUACAACGCGCAUAUACCAUCCAAACAUCA
....((((((.((..((......((((((((((...........))))))))))....)).)).))).......((((.....))))..........).))................... ( -15.70)
>DroVir_CAF1 15465 120 - 1
CACAGCCGGACAGCCCUUACCAAGGAGGUGUAUUUUUCUUAACUAUACAUUUUCCAACAGACUAUCCUUUUAAGCCACCGAAAGUGGCCUUUACAACACGCAUAUACCAUCCAAACAUUA
....((.(((.((..((......((((((((((...........))))))))))....)).)).)))......((((.(....)))))...........))................... ( -19.60)
>DroGri_CAF1 31395 120 - 1
UACAGCCGGACAGCCCUUACCAAGGAGGUGUAUUUUUCUUAACUAUACAUUUCCCAACAGACUAUCCCUUUAAGCCGCCAAAAGUGGCCUUUACAACACGCAUAUACCAUCCAAACAUUA
....((.(((.((..((......((((((((((...........))))))))))....)).)).)))......(((((.....)))))...........))................... ( -21.30)
>DroWil_CAF1 11155 120 - 1
UGCAGCCGGACAGCCCUUAUCAAGGAGGUGUAUUUUUCUUAACUAUACAUUUUCCAACAGACUAUCCCUUUAAACCACCAAAAGUGGCUUUUACAACACGCAUAUACCAUCCAAACAUCA
(((....(((.((..((......((((((((((...........))))))))))....)).)).))).......((((.....))))............))).................. ( -16.50)
>DroMoj_CAF1 8677 120 - 1
UACAGCCGGACAGCCCUUAUCAAGGAGGUGUAUUUUUCUUAACUAUACACUUUCCAACAGACUAUCCUUUUAAGCCGCCAAAAGUGGCCUUUACAACACGCAUAUACCAUCCAAACAUUA
....((.(((.((..((......((((((((((...........))))))))))....)).)).)))......(((((.....)))))...........))................... ( -21.20)
>DroAna_CAF1 8039 120 - 1
UGCAGCCGGACAGCCCUUAUCAAGGAGGUGUAUUUUUCUUAACUAUACACUUUCCAACAGACUAUCCCUUUAAACCACCCAAAGUGGCUUUUACAACGCGCAUAUACCAUCCAAACAUCA
(((.((.(((.((..((......((((((((((...........))))))))))....)).)).))).......((((.....))))..........))))).................. ( -20.00)
>consensus
UACAGCCGGACAGCCCUUAUCAAGGAGGUGUAUUUUUCUUAACUAUACAUUUUCCAACAGACUAUCCCUUUAAACCACCAAAAGUGGCCUUUACAACACGCAUAUACCAUCCAAACAUCA
....((.(((.((..((......((((((((((...........))))))))))....)).)).)))....(((((((.....)))).)))........))................... (-17.97 = -16.88 +  -1.08)

alignment

Postscript

secondary structure

Postscript

dotplot

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Window 7

Location 10,559,530 – 10,559,635
Length 105
Sequences 6
Columns 116
Reading direction forward
Mean pairwise identity 79.67
Mean single sequence MFE -23.15
Consensus MFE -20.50
Energy contribution -19.67
Covariance contribution -0.83
Combinations/Pair 1.17
Mean z-score -1.08
Structure conservation index 0.89
SVM decision value 0.11
SVM RNA-class probability 0.590030
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10559530 105 + 27905053
GGGUGGUUUAAAGGGAUAGUCUGUUGGAAAAUGUAUAGUUAAGAAGAAUACACCUCCUUGAUAAGGGCUGUCCGGCUGUAAGAAAAUUGA---UAACAA-AUACU-------AUUA
.((((((......((((((((((((....))).....((((((.((.......)).))))))..))))))))).............(((.---...)))-..)))-------))). ( -19.80)
>DroVir_CAF1 15505 112 + 1
CGGUGGCUUAAAAGGAUAGUCUGUUGGAAAAUGUAUAGUUAAGAAAAAUACACCUCCUUGGUAAGGGCUGUCCGGCUGUGAAUAUGUUUA---AAACAA-AAAUUAACACUAAUUA
.(((((((.....(((((((((...(((...(((((...........)))))..))).......))))))))))))........(((...---..))).-.......))))..... ( -21.40)
>DroGri_CAF1 31435 110 + 1
UGGCGGCUUAAAGGGAUAGUCUGUUGGGAAAUGUAUAGUUAAGAAAAAUACACCUCCUUGGUAAGGGCUGUCCGGCUGUAAAUAG--UCCAUCAAAUAC-AUAUA---ACCAGUUA
..((((((.....(((((((((...((((..(((((...........)))))..))))......)))))))))))))))......--............-.....---........ ( -26.40)
>DroWil_CAF1 11195 102 + 1
UGGUGGUUUAAAGGGAUAGUCUGUUGGAAAAUGUAUAGUUAAGAAAAAUACACCUCCUUGAUAAGGGCUGUCCGGCUGCAAUGAAAC-------AAUAAAUUGAA-------UUGA
..(..(((.....(((((((((...(((...(((((...........)))))..))).......))))))))))))..).......(-------(((.......)-------))). ( -20.40)
>DroMoj_CAF1 8717 106 + 1
UGGCGGCUUAAAAGGAUAGUCUGUUGGAAAGUGUAUAGUUAAGAAAAAUACACCUCCUUGAUAAGGGCUGUCCGGCUGUAAAUAA--UAC---AAGCAA-AUAUUU----CAAUUA
..((((((.....(((((((((...(((..((((((...........)))))).))).......)))))))))))))))......--...---......-......----...... ( -25.90)
>DroAna_CAF1 8079 102 + 1
GGGUGGUUUAAAGGGAUAGUCUGUUGGAAAGUGUAUAGUUAAGAAAAAUACACCUCCUUGAUAAGGGCUGUCCGGCUGCAAAG--AU-GA---AAGAUA-CUCAU-------AUUA
(((((.((((...(((((((((...(((..((((((...........)))))).))).......)))))))))..((....))--.)-))---)...))-)))..-------.... ( -25.00)
>consensus
UGGUGGCUUAAAGGGAUAGUCUGUUGGAAAAUGUAUAGUUAAGAAAAAUACACCUCCUUGAUAAGGGCUGUCCGGCUGUAAAUAAAUUGA___AAACAA_AUAUU_______AUUA
..((((((.....(((((((((...(((...(((((...........)))))..))).......)))))))))))))))..................................... (-20.50 = -19.67 +  -0.83)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:12:33 2006