Locus 4147

Sequence ID 2R_DroMel_CAF1
Location 13,640,996 – 13,641,142
Length 146
Max. P 0.772163
window6673 window6674

overview

Window 3

Location 13,640,996 – 13,641,087
Length 91
Sequences 6
Columns 116
Reading direction reverse
Mean pairwise identity 63.11
Mean single sequence MFE -21.82
Consensus MFE -9.18
Energy contribution -8.90
Covariance contribution -0.28
Combinations/Pair 1.50
Mean z-score -1.65
Structure conservation index 0.42
SVM decision value 0.53
SVM RNA-class probability 0.772163
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13640996 91 - 20766785
CAACCUUGGGGGCAUCCCCGGGUUCAUCCCAAAAAUA-AAAGUAAUAGGGCG-UUCUUUAAAUAGCCACUGUUUUUCAGUU-UUUGUU----------------------UGUCUG
.(((((.((((....))))))))).....(((((((.-.(((.((((((((.-...........))).))))))))..)))-))))..----------------------...... ( -23.30)
>DroSec_CAF1 184923 114 - 1
CAACCUUGGGGACAUCCCCGGGUUCAUCCCAAAAACAUAAAGUAAUCAGGCG-UUCUUUAAAUAGCCAUGGAUGUAUAGUU-UUUGCAAACAAAAACUAUACAUGAGACAAAUCUC
.(((((.((((....)))))))))....(((...((.....)).....(((.-...........))).)))((((((((((-((((....))))))))))))))((((....)))) ( -34.50)
>DroSim_CAF1 184813 92 - 1
CAACCUUGGGGACAUCCCCGGGUUCAUCCCAAAAACAUAAAGUAAUCAGGCG-UUCUUUAAAUAGGCAUGGAUGUUUAGUU-UUUGUU----------------------UGUCUC
.......((((....))))(((.....)))..(((((.(((.(((.((..((-(.(((.....))).)))..)).))).))-).))))----------------------)..... ( -22.30)
>DroEre_CAF1 180187 91 - 1
-AACCAUGGGGGCUUCCCCGGGAUCGACCCAUAUAUAUAAAAUAAUCUGGCA-UUCUUUAAAUAGACAUUGCUCUUGAGUU-UUGGAC----------------------UUUUUC
-..(((.((((....))))(((.....)))...............((.((((-.(((......)))...))))...))...-.)))..----------------------...... ( -18.00)
>DroYak_CAF1 184975 86 - 1
CAGCCUUGGGGGCUUCCCCUGGAUUAGCCCAUAUAUAUAAAGAUAUCGGGCA-UUCUUUAAAUAGCCAUUGUGAUUUAGUU-----------------------------UUUUUC
...((..((((....)))).))....((((((((........)))).)))).-....((((((.((....)).))))))..-----------------------------...... ( -18.70)
>DroAna_CAF1 177896 83 - 1
--GCCUCAGGGGAUUUCCCAGGAAAAGUCUAUUU--GUGAAUCCAU-GAUCAUUCCUUCAAAUAAUCUUU------CAGUUGUUUGUU----------------------UUUCUU
--.......(((....)))(((((..(((....(--(......)).-)))..))))).((((((((....------..))))))))..----------------------...... ( -14.10)
>consensus
CAACCUUGGGGGCAUCCCCGGGAUCAUCCCAAAAAUAUAAAGUAAUCGGGCA_UUCUUUAAAUAGCCAUUGAUGUUUAGUU_UUUGUU______________________UUUCUC
...(((.((((....))))(((.....))).................))).................................................................. ( -9.18 =  -8.90 +  -0.28)

alignment

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secondary structure

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dotplot

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Window 4

Location 13,641,048 – 13,641,142
Length 94
Sequences 6
Columns 95
Reading direction reverse
Mean pairwise identity 76.12
Mean single sequence MFE -21.25
Consensus MFE -13.01
Energy contribution -13.43
Covariance contribution 0.42
Combinations/Pair 1.44
Mean z-score -1.35
Structure conservation index 0.61
SVM decision value 0.10
SVM RNA-class probability 0.582507
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13641048 94 - 20766785
AAUAUUAUCAAAACAAUCGAAGCGAAUUGGUGGCGUCAUCAUUUUCAUGAUCUAGCAACCUUGGGGGCAUCCCCGGGUUCAUCCCAAAAAUA-AA
............................(((.((...(((((....)))))...)).)))..((((....))))(((.....))).......-.. ( -20.30)
>DroSec_CAF1 184997 95 - 1
AAUAUUAUCAAAACAAUCGAAGCGAAGUGGUGGCGUCAUCAUUUUCCUCAUCUAGCAACCUUGGGGACAUCCCCGGGUUCAUCCCAAAAACAUAA
..................((.(.(((((((((....))))))))).))).....(.(((((.((((....))))))))))............... ( -21.50)
>DroSim_CAF1 184865 95 - 1
AAUAUUAUCAAAACAAUAGAAGCGAAGUGGUGGCGUCAUCAUUUUCCUGAUCUAGCAACCUUGGGGACAUCCCCGGGUUCAUCCCAAAAACAUAA
................((((((.(((((((((....))))))))).))..))))(.(((((.((((....))))))))))............... ( -23.50)
>DroEre_CAF1 180239 94 - 1
AACAUUAUCAAAACAAGAGAGGCAAAGAGAUGGUGUCACCAUUUUCCUGAUCUAG-AACCAUGGGGGCUUCCCCGGGAUCGACCCAUAUAUAUAA
.......((......(((.(((....(((((((.....))))))))))..))).(-(.((.(((((....))))))).))))............. ( -21.80)
>DroYak_CAF1 185021 95 - 1
AAUAUUAUCAAAACAAUUGCGGCGAAGUGAUGGCGUCACCAUUUUCCUGAUCUAGCAGCCUUGGGGGCUUCCCCUGGAUUAGCCCAUAUAUAUAA
.................((.((((((..(((((.....)))))))).((((((((.((((.....))))....)))))))))))))......... ( -22.20)
>DroAna_CAF1 177943 84 - 1
AAAA-UAUCAAAACAAUCAAACAAAAACAGUGGCGUCACCGUUUCC-UGG-------GCCUCAGGGGAUUUCCCAGGAAAAGUCUAUUU--GUGA
....-...............(((((....(((....)))..(((((-(((-------(((.....))....)))))))))......)))--)).. ( -18.20)
>consensus
AAUAUUAUCAAAACAAUCGAAGCGAAGUGGUGGCGUCACCAUUUUCCUGAUCUAGCAACCUUGGGGGCAUCCCCGGGAUCAUCCCAAAAAUAUAA
....................((.(((((((((....))))))))).))..............((((....))))(((.....))).......... (-13.01 = -13.43 +   0.42)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:12:55 2006