Locus 599

Sequence ID 3R_DroMel_CAF1
Location 2,227,145 – 2,227,284
Length 139
Max. P 0.920128
window951 window952

overview

Window 1

Location 2,227,145 – 2,227,244
Length 99
Sequences 6
Columns 102
Reading direction reverse
Mean pairwise identity 74.72
Mean single sequence MFE -35.57
Consensus MFE -24.35
Energy contribution -25.55
Covariance contribution 1.20
Combinations/Pair 1.46
Mean z-score -1.51
Structure conservation index 0.68
SVM decision value 1.13
SVM RNA-class probability 0.920128
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2227145 99 - 27905053
GAUUUGGCAUCAGCGACAGGCAAAC--GUGAAUCAUUCCGCUUUGGGACUUGAAAAGUGGGUGGGGAUUGAAGCCCCCGCUCACCUCAUGCUGUUC-UGCUC
.....((((.(((((.((((((((.--(((........)))))))...))))....((((((((((........))))))))))....)))))...-)))). ( -33.50)
>DroSec_CAF1 16361 100 - 1
GAUUUGGCAUCAGCGGCAGGCACCC--AUGAAUCAUUCCGCUUGGGGGCUUGAAUAGUGGGUGGGUAUUGGAGCCCCCGCCCACCUCAUGCUGUUCAUGCUC
.....(((((.((((((((((.(((--(..............)))).)))(((...(((((((((..........))))))))).)))))))))).))))). ( -40.14)
>DroSim_CAF1 16603 100 - 1
GAUUUGGCAUCAGCGGCAGGCACCC--AUGAAUCAUUCCGCUUGGGGGCUUGAGAAGUGGGUGGGGAUUGGAGCCCCCGCCCACCUCAUGCUGUUCAUGCUC
.....(((((.((((((((((.(((--(..............)))).)))((((..((((((((((........))))))))))))))))))))).))))). ( -47.54)
>DroEre_CAF1 16488 98 - 1
GAUUUGGCGUCAGCGGCAGGCACCC--AUGAAUCAUUCCGCUUUGGGGCUUGAAAAGUGGGUGGGGAUUGUG-CCCCCACCCACCUCAUGCUGUU-AUGCUU
.....(((((.((((((((((.(((--(...............)))))))(((...((((((((((......-.)))))))))).))))))))))-))))). ( -43.56)
>DroYak_CAF1 15369 98 - 1
UAUUUGGUGUCAGCGGCAGGCAUCC--AUGAAUCAUUCCGCUUUGGGGCUUGAAAUAUAGGUGGGGAUUAAA-GCCCCACCCACCUCAUGCUGUU-AUGCUU
.....((((((((((.(((((.(((--(...............))))))))).......(((((((......-.))))))).......)))))..-))))). ( -29.96)
>DroAna_CAF1 16139 81 - 1
GAUC-AACGUCAGUGGCAGGCGCGCAAAUGAAUCAUUCU---CGGUAGCAG--GAAGGGGGUCUGGACUCUG-CCUGGG--CGACUC------------UUU
....-..((((...(((((((.((..((((...))))..---))))..(((--(.......))))....)))-))..))--))....------------... ( -18.70)
>consensus
GAUUUGGCAUCAGCGGCAGGCACCC__AUGAAUCAUUCCGCUUGGGGGCUUGAAAAGUGGGUGGGGAUUGAA_CCCCCGCCCACCUCAUGCUGUU_AUGCUC
.....(((((.(((((((.................((((.....))))........((((((((((........))))))))))....))))))).))))). (-24.35 = -25.55 +   1.20) 

alignment

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secondary structure

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dotplot

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Window 2

Location 2,227,183 – 2,227,284
Length 101
Sequences 6
Columns 103
Reading direction forward
Mean pairwise identity 81.70
Mean single sequence MFE -26.37
Consensus MFE -17.01
Energy contribution -19.18
Covariance contribution 2.17
Combinations/Pair 1.24
Mean z-score -1.77
Structure conservation index 0.65
SVM decision value 0.20
SVM RNA-class probability 0.628785
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2227183 101 + 27905053
CACCCACUUUUCAAGUCCCAAAGCGGAAUGAUUCAC--GUUUGCCUGUCGCUGAUGCCAAAUCGCAUUCGGUUGAUGAAUUUAAAUUGUUCAGAACCGAAUGU
...((.((((.........)))).))...((((..(--(((.((.....)).))))...))))((((((((((..(((((.......))))).)))))))))) ( -24.50)
>DroSec_CAF1 16400 101 + 1
CACCCACUAUUCAAGCCCCCAAGCGGAAUGAUUCAU--GGGUGCCUGCCGCUGAUGCCAAAUCGCAUUCGGUUGAUGAAUUUAAAUUGUUCUCAACCGAAUGC
((((((....(((..((.......))..)))....)--))))).........(((.....)))((((((((((((.((((.......)))))))))))))))) ( -34.90)
>DroSim_CAF1 16642 101 + 1
CACCCACUUCUCAAGCCCCCAAGCGGAAUGAUUCAU--GGGUGCCUGCCGCUGAUGCCAAAUCGCAUUCGGUUGAUGAAUUUAAAUUGUUCUCAACCGAAUGC
((((((....(((..((.......))..)))....)--))))).........(((.....)))((((((((((((.((((.......)))))))))))))))) ( -34.20)
>DroEre_CAF1 16525 101 + 1
CACCCACUUUUCAAGCCCCAAAGCGGAAUGAUUCAU--GGGUGCCUGCCGCUGACGCCAAAUCGCAUUCGGUUGAUGAAUUUAAAUUGUUCUUAACCGAAUGU
((((((....(((..((.......))..)))....)--)))))......((....))......((((((((((((.((((.......)))))))))))))))) ( -30.60)
>DroYak_CAF1 15406 101 + 1
CACCUAUAUUUCAAGCCCCAAAGCGGAAUGAUUCAU--GGAUGCCUGCCGCUGACACCAAAUAUCUUUCGGUUAUUGAAUUUAAGUUGUUCUUAACCGAAUCU
.....................(((((...((((...--.))).)...)))))..............((((((((..((((.......)))).))))))))... ( -19.20)
>DroAna_CAF1 16163 97 + 1
GACCCCCUUC--CUGCUACCG---AGAAUGAUUCAUUUGCGCGCCUGCCACUGACGUU-GAUCGCAUUCGCUUGAUGAAUUUCAAUUGUUUUCAACACAAAGC
..........--........(---(((((((((((((...(((..(((..........-....)))..)))..))))))))......)))))).......... ( -14.84)
>consensus
CACCCACUUUUCAAGCCCCAAAGCGGAAUGAUUCAU__GGGUGCCUGCCGCUGACGCCAAAUCGCAUUCGGUUGAUGAAUUUAAAUUGUUCUCAACCGAAUGC
.....................(((((....((((....)))).....)))))...........((((((((((((.((((.......)))))))))))))))) (-17.01 = -19.18 +   2.17) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:47:04 2006