Locus 8674

Sequence ID 3L_DroMel_CAF1
Location 22,505,270 – 22,505,403
Length 133
Max. P 0.989357
window14215 window14216 window14217

overview

Window 5

Location 22,505,270 – 22,505,364
Length 94
Sequences 4
Columns 108
Reading direction forward
Mean pairwise identity 86.14
Mean single sequence MFE -38.40
Consensus MFE -29.88
Energy contribution -29.12
Covariance contribution -0.75
Combinations/Pair 1.15
Mean z-score -2.77
Structure conservation index 0.78
SVM decision value 1.88
SVM RNA-class probability 0.981315
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22505270 94 + 23771897
ACUAUAAUUGCUGCCGGUGGCACACUGGUUUUAAAAUU--------------GCGAUUGCCAAAGCCCACAACUAAGCUGCAGUUGGGGUUCUGGGCCAGGGCAGCAA
.......((((((((..((((.((.(.((.........--------------)).).))(((.(((((.(((((.......)))))))))).))))))).)))))))) ( -35.30)
>DroSec_CAF1 13346 94 + 1
ACUAGAGUUGCUGCCGGUGGCACACUGGCUUUUAAAUU--------------GCGAUUGCCAAAGCCCACAACUAAGCUGCAGUUGGGCUUCUGGGCCAGGGCAGCAA
.......((((((((..((((.((.(.((.........--------------)).).))((((((((((..(((.......)))))))))).))))))).)))))))) ( -35.20)
>DroSim_CAF1 13701 94 + 1
ACUAGAGUUGCUGCCGGUGGCACACUGGCUUUUAAAUU--------------GCGAUUGCCAAAGCCCACAACUAAGCUGCAGUUGGGCUUCUGGGCCAGGGCAGCAA
.......((((((((..((((.((.(.((.........--------------)).).))((((((((((..(((.......)))))))))).))))))).)))))))) ( -35.20)
>DroEre_CAF1 15417 108 + 1
ACUAGAUUUGCUGCCGCUGGCACACUGGCUUUCAAAUUGCGAAUUGCGAAUUGCGAUUGCUGCAGCCCACAACUUAGCUGCAGCUGGGUUUCUGGGCCGGGGCAGCAA
.......((((((((.(((((.((..(((((...((((((((........))))))))((((((((..........)))))))).)))))..)).))))))))))))) ( -47.90)
>consensus
ACUAGAGUUGCUGCCGGUGGCACACUGGCUUUUAAAUU______________GCGAUUGCCAAAGCCCACAACUAAGCUGCAGUUGGGCUUCUGGGCCAGGGCAGCAA
.......((((((((..(((((...(.((.......................)).).)))))..(((((.(((..(((....)))..).)).)))))...)))))))) (-29.88 = -29.12 +  -0.75)

alignment

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secondary structure

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dotplot

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Window 6

Location 22,505,270 – 22,505,364
Length 94
Sequences 4
Columns 108
Reading direction reverse
Mean pairwise identity 86.14
Mean single sequence MFE -37.23
Consensus MFE -28.89
Energy contribution -29.45
Covariance contribution 0.56
Combinations/Pair 1.04
Mean z-score -3.08
Structure conservation index 0.78
SVM decision value 2.16
SVM RNA-class probability 0.989357
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22505270 94 - 23771897
UUGCUGCCCUGGCCCAGAACCCCAACUGCAGCUUAGUUGUGGGCUUUGGCAAUCGC--------------AAUUUUAAAACCAGUGUGCCACCGGCAGCAAUUAUAGU
((((((((.(((((((((.(((((((((.....)))))).))).)))))....(((--------------.............))).))))..))))))))....... ( -34.32)
>DroSec_CAF1 13346 94 - 1
UUGCUGCCCUGGCCCAGAAGCCCAACUGCAGCUUAGUUGUGGGCUUUGGCAAUCGC--------------AAUUUAAAAGCCAGUGUGCCACCGGCAGCAACUCUAGU
((((((((.((((.((((((((((...((......))..))))))))(((......--------------.........)))..)).))))..))))))))....... ( -36.86)
>DroSim_CAF1 13701 94 - 1
UUGCUGCCCUGGCCCAGAAGCCCAACUGCAGCUUAGUUGUGGGCUUUGGCAAUCGC--------------AAUUUAAAAGCCAGUGUGCCACCGGCAGCAACUCUAGU
((((((((.((((.((((((((((...((......))..))))))))(((......--------------.........)))..)).))))..))))))))....... ( -36.86)
>DroEre_CAF1 15417 108 - 1
UUGCUGCCCCGGCCCAGAAACCCAGCUGCAGCUAAGUUGUGGGCUGCAGCAAUCGCAAUUCGCAAUUCGCAAUUUGAAAGCCAGUGUGCCAGCGGCAGCAAAUCUAGU
(((((((((.(((.((........(((((((((........)))))))))..(((.((((.((.....))))))))).......)).))).).))))))))....... ( -40.90)
>consensus
UUGCUGCCCUGGCCCAGAAGCCCAACUGCAGCUUAGUUGUGGGCUUUGGCAAUCGC______________AAUUUAAAAGCCAGUGUGCCACCGGCAGCAACUCUAGU
((((((((..(((.((((((((((...((......))..)))))))).((....))............................)).)))...))))))))....... (-28.89 = -29.45 +   0.56)

alignment

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secondary structure

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dotplot

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Window 7

Location 22,505,302 – 22,505,403
Length 101
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 76.74
Mean single sequence MFE -27.34
Consensus MFE -17.22
Energy contribution -17.46
Covariance contribution 0.24
Combinations/Pair 1.23
Mean z-score -1.74
Structure conservation index 0.63
SVM decision value 0.56
SVM RNA-class probability 0.781074
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22505302 101 + 23771897
-AAAAUU-----------------GCGAUUGCCAAAGCCCACAACUAAGCUGCAGUUGGGGUUCUGGGCCAGGGCAGCAAAUAAAAUUAAUGCAAAAUUGCAUACACACGACACGACGA-
-....((-----------------((...((((...(((((.((((.(((....)))..)))).)))))...)))))))).........(((((....)))))................- ( -28.00)
>DroSec_CAF1 13378 101 + 1
-UAAAUU-----------------GCGAUUGCCAAAGCCCACAACUAAGCUGCAGUUGGGCUUCUGGGCCAGGGCAGCAAAUAAAAUUAAUGCAAAAUUGCAUACACACGACACGACGA-
-.....(-----------------((((((......((((.(((((.......)))))((((....)))).)))).(((...........)))..))))))).................- ( -25.70)
>DroSim_CAF1 13733 101 + 1
-UAAAUU-----------------GCGAUUGCCAAAGCCCACAACUAAGCUGCAGUUGGGCUUCUGGGCCAGGGCAGCAAAUAAAAUUAAUGCAAAAUUGCAUACACACGACACGACGA-
-.....(-----------------((((((......((((.(((((.......)))))((((....)))).)))).(((...........)))..))))))).................- ( -25.70)
>DroEre_CAF1 15449 115 + 1
-CAAAUUGCGAAUUGCGAAUU---GCGAUUGCUGCAGCCCACAACUUAGCUGCAGCUGGGUUUCUGGGCCGGGGCAGCAAAUAAAAUUAAUGCAAAAUUGCAUACACACGACCCGACGA-
-.....(((((.((((.((((---....(((((((.(((((.((((((((....))))))))..)))))....)))))))....))))...))))..))))).................- ( -37.80)
>DroMoj_CAF1 26407 110 + 1
UUGGACGGC--AUUUCGAAGCACGUCGUUUGAAAAUG--UA-CGCUAAACUGCAGUUAAGA--CUUGGCC---GCAGCAACAAAAAUUAAUGCAAAAUUGUAUACACACGACACGAAUAU
.....((((--........))..(((((.((......--..-.......((((.((((...--..)))).---))))............(((((....))))).)).))))).))..... ( -19.50)
>consensus
_UAAAUU_________________GCGAUUGCCAAAGCCCACAACUAAGCUGCAGUUGGGCUUCUGGGCCAGGGCAGCAAAUAAAAUUAAUGCAAAAUUGCAUACACACGACACGACGA_
.........................((.(((((...(((((...((.(((....))).))....)))))...)))))............(((((....))))).....)).......... (-17.22 = -17.46 +   0.24)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:22:00 2006