Locus 4586

Sequence ID 3R_DroMel_CAF1
Location 12,080,358 – 12,080,550
Length 192
Max. P 0.999850
window7531 window7532 window7533

overview

Window 1

Location 12,080,358 – 12,080,477
Length 119
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 97.15
Mean single sequence MFE -31.07
Consensus MFE -30.56
Energy contribution -30.56
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.43
Structure conservation index 0.98
SVM decision value 4.25
SVM RNA-class probability 0.999850
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12080358 119 - 27905053
GAAGCUCGUUGCGCAUACGUCGUGUGCGCUUAAAAGCUGCGCUAAAAACCAAUCAGCUAAAAGCUCACCCCCU-CAAUCAAAUCAAACCCCAUCAGCUGAGCUUCGCAACGGGAAAACCA
(((((((((((.((((((...))))))((((...(((((..............)))))..)))).........-...................)))).))))))).....((.....)). ( -30.74)
>DroSec_CAF1 17081 119 - 1
GAAGCUCGUUGCGCAUACGUCGUGUGCGCUUAAAAGCUGCGCCAAAAACCAAUCAGCUAAAAGCUCACCCCCU-CAAUCGAAUCAAACCCCAUCAGCUGAGCUUCGCAACGGGAAAACCA
(((((((...((((((((...)))))))).....(((((...............(((.....))).......(-(....))............)))))))))))).....((.....)). ( -31.90)
>DroSim_CAF1 17269 119 - 1
GAAGCUCGUUGCGCAUACGUCGUGUGCGCUUAAAAGCUGCGCCAAAAACCAAUCAGCUAAAAGCUCACCCCCU-CAAUCAAAUCAAACCCCAUCAGCUGAGCUUCGCAACGGGAAAACCA
(((((((((((.((((((...))))))((((...(((((..............)))))..)))).........-...................)))).))))))).....((.....)). ( -30.74)
>DroEre_CAF1 19133 119 - 1
GAAGCUCGUUGCGCAUACGUCGUGUGCGCUUAAAAGCUGCGCCAAAAACCAAUCAGCUAAAAGCUCACCCCCC-CAAUCAAAUCAAAUCGCAUCAGCUGAGCUUCGCAACGGGAAAACCA
((((((((((((((((((...))))))((((...(((((..............)))))..)))).........-...............)))...)).))))))).....((.....)). ( -30.84)
>DroYak_CAF1 19494 120 - 1
GAAGCUCGUUGCGCAUACGUCGUGUGCGCUUAAAAGCUGCGCCAAAAACCAAUCAGCUAAAAGCUCACCCCCCUCAAUCAAAUCAAAUCGCAUCAGCUGAGCUUCGCAACGGGAAAACCC
((((((((((((((((((...))))))((((...(((((..............)))))..)))).........................)))...)).))))))).....(((....))) ( -31.14)
>consensus
GAAGCUCGUUGCGCAUACGUCGUGUGCGCUUAAAAGCUGCGCCAAAAACCAAUCAGCUAAAAGCUCACCCCCU_CAAUCAAAUCAAACCCCAUCAGCUGAGCUUCGCAACGGGAAAACCA
(((((((((((.((((((...))))))((((...(((((..............)))))..)))).............................)))).))))))).....((.....)). (-30.56 = -30.56 +   0.00)

alignment

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secondary structure

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Window 2

Location 12,080,398 – 12,080,517
Length 119
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 97.65
Mean single sequence MFE -34.83
Consensus MFE -31.64
Energy contribution -31.64
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.81
Structure conservation index 0.91
SVM decision value 1.76
SVM RNA-class probability 0.976080
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12080398 119 - 27905053
CAUUGUUCUGUUGACAACUGGUCGUAUGUGUAAUGCUGCCGAAGCUCGUUGCGCAUACGUCGUGUGCGCUUAAAAGCUGCGCUAAAAACCAAUCAGCUAAAAGCUCACCCCCU-CAAUCA
.........(((((......(.(((((((((((((..((....)).))))))))))))).)..(((.((((...(((((..............)))))..)))).)))....)-)))).. ( -33.14)
>DroSec_CAF1 17121 119 - 1
CAUUGUUCUGUUGACAACUGGUCGUAUGUGUAAUGCUGCCGAAGCUCGUUGCGCAUACGUCGUGUGCGCUUAAAAGCUGCGCCAAAAACCAAUCAGCUAAAAGCUCACCCCCU-CAAUCG
.........(((((......(.(((((((((((((..((....)).))))))))))))).)..(((.((((...(((((..............)))))..)))).)))....)-)))).. ( -33.14)
>DroSim_CAF1 17309 119 - 1
CAUUGUUCUGUUGACAACUGGUCGUAUGUGUAAUGCUGCCGAAGCUCGUUGCGCAUACGUCGUGUGCGCUUAAAAGCUGCGCCAAAAACCAAUCAGCUAAAAGCUCACCCCCU-CAAUCA
.........(((((......(.(((((((((((((..((....)).))))))))))))).)..(((.((((...(((((..............)))))..)))).)))....)-)))).. ( -33.14)
>DroEre_CAF1 19173 119 - 1
CAUUGUUCUGGUGACAACUGGUCGUAUGUGUAAUGCAGCCGAAGCUCGUUGCGCAUACGUCGUGUGCGCUUAAAAGCUGCGCCAAAAACCAAUCAGCUAAAAGCUCACCCCCC-CAAUCA
.((((....(((((....(((((((((((((((((.(((....))))))))))))))))..(.(((((((....))).)))))....))))....((.....)))))))....-)))).. ( -39.40)
>DroYak_CAF1 19534 120 - 1
CAUUGUUCUGUUGACAACUGGUCGUAUGUGUAAUGCAGCCGAAGCUCGUUGCGCAUACGUCGUGUGCGCUUAAAAGCUGCGCCAAAAACCAAUCAGCUAAAAGCUCACCCCCCUCAAUCA
.........(((((......(.(((((((((((((.(((....)))))))))))))))).)..(((.((((...(((((..............)))))..)))).))).....))))).. ( -35.34)
>consensus
CAUUGUUCUGUUGACAACUGGUCGUAUGUGUAAUGCUGCCGAAGCUCGUUGCGCAUACGUCGUGUGCGCUUAAAAGCUGCGCCAAAAACCAAUCAGCUAAAAGCUCACCCCCU_CAAUCA
(((((((.....))))).))(.(((((((((((((..((....)).))))))))))))).)..(((.((((...(((((..............)))))..)))).)))............ (-31.64 = -31.64 +   0.00)

alignment

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secondary structure

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dotplot

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Window 3

Location 12,080,437 – 12,080,550
Length 113
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 95.85
Mean single sequence MFE -40.58
Consensus MFE -36.16
Energy contribution -35.92
Covariance contribution -0.24
Combinations/Pair 1.03
Mean z-score -1.81
Structure conservation index 0.89
SVM decision value 1.92
SVM RNA-class probability 0.982511
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12080437 113 - 27905053
GUUUUAAAGGCGAGGCGGCGUUCACUCAUUG-------CUCAUUGUUCUGUUGACAACUGGUCGUAUGUGUAAUGCUGCCGAAGCUCGUUGCGCAUACGUCGUGUGCGCUUAAAAGCUGC
(((((...(((..((((((((((((..((.(-------((..(((((.....)))))..))).))..))).)))))))))...)))....((((((((...))))))))...)))))... ( -40.70)
>DroSec_CAF1 17160 113 - 1
GUUUUAAAGGCGAGGCGGCGUCCACUCAUUG-------CUCAUUGUUCUGUUGACAACUGGUCGUAUGUGUAAUGCUGCCGAAGCUCGUUGCGCAUACGUCGUGUGCGCUUAAAAGCUGC
(((((...(((..((((((((.(((..((.(-------((..(((((.....)))))..))).))..)))..))))))))...)))....((((((((...))))))))...)))))... ( -37.90)
>DroSim_CAF1 17348 113 - 1
GUUUUAAAGGCGAGGCGGCGUUCACUCAUUG-------CUCAUUGUUCUGUUGACAACUGGUCGUAUGUGUAAUGCUGCCGAAGCUCGUUGCGCAUACGUCGUGUGCGCUUAAAAGCUGC
(((((...(((..((((((((((((..((.(-------((..(((((.....)))))..))).))..))).)))))))))...)))....((((((((...))))))))...)))))... ( -40.70)
>DroEre_CAF1 19212 113 - 1
GUUUUAAAGGCGAGGCGGCGCUCACUCAUUG-------CUCAUUGUUCUGGUGACAACUGGUCGUAUGUGUAAUGCAGCCGAAGCUCGUUGCGCAUACGUCGUGUGCGCUUAAAAGCUGC
........(((.....(((((.(((.(((((-------.(((((.....)))))))).))(.(((((((((((((.(((....)))))))))))))))).)))).))))).....))).. ( -42.50)
>DroYak_CAF1 19574 120 - 1
GUUUUAAAGGCGAGGCGGCGCUCACUCAUUGCUCAUUGCUCAUUGUUCUGUUGACAACUGGUCGUAUGUGUAAUGCAGCCGAAGCUCGUUGCGCAUACGUCGUGUGCGCUUAAAAGCUGC
........(((.....(((((.(((.....((.....)).(((((((.....))))).))(.(((((((((((((.(((....)))))))))))))))).)))).))))).....))).. ( -41.10)
>consensus
GUUUUAAAGGCGAGGCGGCGUUCACUCAUUG_______CUCAUUGUUCUGUUGACAACUGGUCGUAUGUGUAAUGCUGCCGAAGCUCGUUGCGCAUACGUCGUGUGCGCUUAAAAGCUGC
........(((.....(((((.(((...............(((((((.....))))).))(.(((((((((((((..((....)).))))))))))))).)))).))))).....))).. (-36.16 = -35.92 +  -0.24)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:33:45 2006