Locus 6534

Sequence ID 3L_DroMel_CAF1
Location 17,281,529 – 17,281,649
Length 120
Max. P 0.999601
window10614 window10615

overview

Window 4

Location 17,281,529 – 17,281,649
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.50
Mean single sequence MFE -45.70
Consensus MFE -38.10
Energy contribution -37.94
Covariance contribution -0.16
Combinations/Pair 1.03
Mean z-score -2.83
Structure conservation index 0.83
SVM decision value 2.91
SVM RNA-class probability 0.997713
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17281529 120 + 23771897
CAAGUGCUCGAAAUAAUAAAGUUAACAGCACUUUAAUAGUUACCGCCCGCCACACCCACGCCGCCCACACGGAGGGCGUAGCGAAUCAGCGGGCGGGGGUGUGGGAAACGGCAACCGAAC
.(((((((...(((......)))...))))))).....(((.(((....((((((((.((((((((.......))))...((......)).)))).))))))))....))).)))..... ( -47.10)
>DroSec_CAF1 165216 120 + 1
CAAGUGCUCGAAAUAAUAAAGUUAACAGCACUUUAAUAGUUACCGCCCGCCACACCCACGCCGCCCAUACGGUGGGCGCAGCGAAUCAGGGGGCGUGGGAGUGGGAAACGGCAACCGAAC
.(((((((...(((......)))...))))))).....(((.(((....((((.((((((((((((((...))))))....(......)..)))))))).))))....))).)))..... ( -45.00)
>DroSim_CAF1 161452 120 + 1
CAAGUGCUCGAAAUAAUAAAGUUAACAGCACUUUAAUAGUUACCGCCCGCCACACCCACGCCGCCCACACGGUGGGCGUAGCGAAUCAGGGGGCGUGGGUGUGGGAAACGGCAACCGAAC
.(((((((...(((......)))...))))))).....(((.(((....(((((((((((((((((((...))))))....(......)..)))))))))))))....))).)))..... ( -51.00)
>DroEre_CAF1 168235 119 + 1
CAAGUGCUCGAAAUAAUAAAGUUAACAGCACUUUAAUAGUUACCGCCUGCCACUCCCACGUCGCCCACACGG-GGGCGUAACGAAUCUGGGGGCGGGGGUGUGGGAAACGGCAACCGAAC
.(((((((...(((......)))...)))))))........(((.((((((...((((((((((((......-)))))..)))....)))))))))))))((.(....).))........ ( -41.70)
>DroYak_CAF1 173197 119 + 1
CAAGUGCUCGAAAUAAUAAAGUUAACAGCACUUUAAUAGUUACCGCCCGCCACUCCCACGCCGCCCACAAGG-GGGCGUAACGAAUCAGGGGGCGGGGGUGUGGCAAACGGCAACCAAAC
.(((((((...(((......)))...))))))).....(((.(((...(((((.(((.((((((((......-))))....(......)..)))).))).)))))...))).)))..... ( -43.70)
>consensus
CAAGUGCUCGAAAUAAUAAAGUUAACAGCACUUUAAUAGUUACCGCCCGCCACACCCACGCCGCCCACACGG_GGGCGUAGCGAAUCAGGGGGCGGGGGUGUGGGAAACGGCAACCGAAC
.(((((((...(((......)))...))))))).....(((.(((....((((.(((.((((((((.......))))....(......)..)))).))).))))....))).)))..... (-38.10 = -37.94 +  -0.16)

alignment

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secondary structure

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dotplot

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Window 5

Location 17,281,529 – 17,281,649
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 94.50
Mean single sequence MFE -55.27
Consensus MFE -47.46
Energy contribution -47.34
Covariance contribution -0.12
Combinations/Pair 1.05
Mean z-score -4.40
Structure conservation index 0.86
SVM decision value 3.77
SVM RNA-class probability 0.999601
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17281529 120 - 23771897
GUUCGGUUGCCGUUUCCCACACCCCCGCCCGCUGAUUCGCUACGCCCUCCGUGUGGGCGGCGUGGGUGUGGCGGGCGGUAACUAUUAAAGUGCUGUUAACUUUAUUAUUUCGAGCACUUG
((((((((((((((..((((((((.((((.((......))...((((.......)))))))).))))))))..)))))))))...((((((.......))))))......)))))..... ( -58.60)
>DroSec_CAF1 165216 120 - 1
GUUCGGUUGCCGUUUCCCACUCCCACGCCCCCUGAUUCGCUGCGCCCACCGUAUGGGCGGCGUGGGUGUGGCGGGCGGUAACUAUUAAAGUGCUGUUAACUUUAUUAUUUCGAGCACUUG
((((((((((((((..((((.(((((((((((.....((.((....)).))...))).)))))))).))))..)))))))))...((((((.......))))))......)))))..... ( -56.60)
>DroSim_CAF1 161452 120 - 1
GUUCGGUUGCCGUUUCCCACACCCACGCCCCCUGAUUCGCUACGCCCACCGUGUGGGCGGCGUGGGUGUGGCGGGCGGUAACUAUUAAAGUGCUGUUAACUUUAUUAUUUCGAGCACUUG
((((((((((((((..(((((((((((((....(........)((((((...)))))))))))))))))))..)))))))))...((((((.......))))))......)))))..... ( -62.20)
>DroEre_CAF1 168235 119 - 1
GUUCGGUUGCCGUUUCCCACACCCCCGCCCCCAGAUUCGUUACGCCC-CCGUGUGGGCGACGUGGGAGUGGCAGGCGGUAACUAUUAAAGUGCUGUUAACUUUAUUAUUUCGAGCACUUG
(((((((((((((((.((((.(((((((((...........((((..-..)))))))))..).))).)))).))))))))))...((((((.......))))))......)))))..... ( -44.40)
>DroYak_CAF1 173197 119 - 1
GUUUGGUUGCCGUUUGCCACACCCCCGCCCCCUGAUUCGUUACGCCC-CCUUGUGGGCGGCGUGGGAGUGGCGGGCGGUAACUAUUAAAGUGCUGUUAACUUUAUUAUUUCGAGCACUUG
...(((((((((((((((((.(((.((((...(((....))).((((-......)))))))).))).)))))))))))))))))...(((((((..................))))))). ( -54.57)
>consensus
GUUCGGUUGCCGUUUCCCACACCCCCGCCCCCUGAUUCGCUACGCCC_CCGUGUGGGCGGCGUGGGUGUGGCGGGCGGUAACUAUUAAAGUGCUGUUAACUUUAUUAUUUCGAGCACUUG
(((((((((((((((.((((.(((.((((....(........)((((.......)))))))).))).)))).))))))))))...((((((.......))))))......)))))..... (-47.46 = -47.34 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:23:20 2006