Locus 3092

Sequence ID 2R_DroMel_CAF1
Location 10,584,550 – 10,584,654
Length 104
Max. P 0.934505
window5105 window5106

overview

Window 5

Location 10,584,550 – 10,584,654
Length 104
Sequences 6
Columns 105
Reading direction forward
Mean pairwise identity 78.14
Mean single sequence MFE -30.42
Consensus MFE -22.18
Energy contribution -22.18
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -0.97
Structure conservation index 0.73
SVM decision value 0.04
SVM RNA-class probability 0.555854
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10584550 104 + 20766785
AUGGCCAAAUGGGUUGG-UGGGGGAAAGUGAAGAAGUUGGCGUAAGUAAGGCAGAGCCAUUUAUCAGCGUGACACCUUGCCGGGUGGCCAACUUGGAAUACUGGG
.((((((......((((-..(((....((.(....((((((....))..(((...)))......)))).).)).)))..)))).)))))).((..(....)..)) ( -31.10)
>DroVir_CAF1 67070 90 + 1
-AGGUAGCCGG----AC--------CGAUAGAGAAGUUGGCGUAAGUAAGGCAGCGCCAUUUAUCAGCGUGACACCUUGCCGGGUGGCCAACUUGGU--CCUGGA
-......((((----((--------((.......(((((((....((((((..((((.........))))....))))))......)))))))))))--)).)). ( -30.81)
>DroGri_CAF1 60237 90 + 1
-AGGUAACCAG----AC--------CGAUAGAGAAGUUGGCGUAAGUAAGGCAACGCCAUUUAUCAGCGUGACACCUUGCAGGGUGGCCAACUUGGU--UCUGGA
-......((((----((--------((.......(((((((((..(((((((...)))..))))..))....(((((....))))))))))))))).--))))). ( -30.11)
>DroEre_CAF1 33013 102 + 1
AUGGCCAAAUUGGA-GG--GGGGGAAAGUGAAGAAGUUGGCGUAAGUAAGGCACAGCCAUUUAUCAGCGUGACACCUUGCCGGGUGGCCAACUUGGAGUAUUGGG
.((((((.......-((--.((((...((.(....((((((....))..(((...)))......)))).).)).)))).))...))))))............... ( -26.70)
>DroYak_CAF1 40060 103 + 1
AUGGCCAAAUUGGUUUG--GGGGGAAAGUGAAGAAGUUGGCGUAAGUAAGGCACAGCCAUUUAUCAGCGUGACACCUUGCCGGGUGGCCAACUUGGAAUACUGGG
.((((((...((((...--((((....((.(....((((((....))..(((...)))......)))).).)).))))))))..)))))).((..(....)..)) ( -27.90)
>DroAna_CAF1 66894 99 + 1
AGGGGCAAAUUGGG-GGUGGUGGCCAAGUGAAGAAGUUGGCGUAAGUAAGGCAGAGCCAUUUAUCAGCGUGACACCUUGCCGGGUGGCCAACUUGGC--CCU---
((((.(((.((((.-(.((((((((((.(.....).)))))........(((...)))...))))).)....(((((....))))).)))).))).)--)))--- ( -35.90)
>consensus
AUGGCCAAAUGGG__GG__GGGGGAAAGUGAAGAAGUUGGCGUAAGUAAGGCAGAGCCAUUUAUCAGCGUGACACCUUGCCGGGUGGCCAACUUGGA__ACUGGG
.................................((((((((((..(((((((...)))..))))..))....(((((....)))))))))))))........... (-22.18 = -22.18 +   0.00)

alignment

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secondary structure

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dotplot

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Window 6

Location 10,584,550 – 10,584,654
Length 104
Sequences 6
Columns 105
Reading direction reverse
Mean pairwise identity 78.14
Mean single sequence MFE -25.26
Consensus MFE -17.60
Energy contribution -17.60
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.90
Structure conservation index 0.70
SVM decision value 1.24
SVM RNA-class probability 0.934505
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10584550 104 - 20766785
CCCAGUAUUCCAAGUUGGCCACCCGGCAAGGUGUCACGCUGAUAAAUGGCUCUGCCUUACUUACGCCAACUUCUUCACUUUCCCCCA-CCAACCCAUUUGGCCAU
...............((((((...((...((((......(((..((((((..............))))..))..)))........))-))...))...)))))). ( -19.88)
>DroVir_CAF1 67070 90 - 1
UCCAGG--ACCAAGUUGGCCACCCGGCAAGGUGUCACGCUGAUAAAUGGCGCUGCCUUACUUACGCCAACUUCUCUAUCG--------GU----CCGGCUACCU-
.((.((--(((((((((((.....((((..((((((..........))))))))))........)))))))).......)--------))----))))......- ( -28.23)
>DroGri_CAF1 60237 90 - 1
UCCAGA--ACCAAGUUGGCCACCCUGCAAGGUGUCACGCUGAUAAAUGGCGUUGCCUUACUUACGCCAACUUCUCUAUCG--------GU----CUGGUUACCU-
.(((((--.((((((((((......(.((((((..(((((.......))))))))))).)....)))))))).......)--------))----))))......- ( -27.81)
>DroEre_CAF1 33013 102 - 1
CCCAAUACUCCAAGUUGGCCACCCGGCAAGGUGUCACGCUGAUAAAUGGCUGUGCCUUACUUACGCCAACUUCUUCACUUUCCCCC--CC-UCCAAUUUGGCCAU
.........(((((((((......((.((((((((.....))....((((.(((.......))))))).......))))))))...--..-.))))))))).... ( -22.70)
>DroYak_CAF1 40060 103 - 1
CCCAGUAUUCCAAGUUGGCCACCCGGCAAGGUGUCACGCUGAUAAAUGGCUGUGCCUUACUUACGCCAACUUCUUCACUUUCCCCC--CAAACCAAUUUGGCCAU
.........(((((((((......((.((((((((.....))....((((.(((.......))))))).......)))))).))..--....))))))))).... ( -23.00)
>DroAna_CAF1 66894 99 - 1
---AGG--GCCAAGUUGGCCACCCGGCAAGGUGUCACGCUGAUAAAUGGCUCUGCCUUACUUACGCCAACUUCUUCACUUGGCCACCACC-CCCAAUUUGCCCCU
---(((--(.((((((((((....)))..(((((((.(.(((..((((((..............))))..))..)))).))).))))...-..))))))).)))) ( -29.94)
>consensus
CCCAGU__UCCAAGUUGGCCACCCGGCAAGGUGUCACGCUGAUAAAUGGCUCUGCCUUACUUACGCCAACUUCUUCACUUUCCCCC__CC__CCAAUUUGGCCAU
...........((((((((((((......))))..............(((...)))........))))))))................................. (-17.60 = -17.60 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:47:21 2006