Locus 5707

Sequence ID 2R_DroMel_CAF1
Location 18,069,581 – 18,069,710
Length 129
Max. P 0.847135
window9138 window9139

overview

Window 8

Location 18,069,581 – 18,069,673
Length 92
Sequences 5
Columns 93
Reading direction reverse
Mean pairwise identity 91.45
Mean single sequence MFE -36.87
Consensus MFE -26.70
Energy contribution -26.78
Covariance contribution 0.08
Combinations/Pair 1.11
Mean z-score -2.59
Structure conservation index 0.72
SVM decision value 0.77
SVM RNA-class probability 0.847135
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18069581 92 - 20766785
ACCGCCG-GCCAGGUGGCAAUUCUGCUGCGCAGUGUGCACACACUGGCAGCCACUGCUGGUUGGCUCUUCUUCUUGCAACUGCUGCAAUUAUA
...((((-((((((((((........(((.((((((....))))))))))))))..)))))))))........(((((.....)))))..... ( -38.00)
>DroSec_CAF1 27154 89 - 1
ACCGCCG-GCCAGGUGGCAAUUCUGCGUCGCAGUGUGCACACACUGGCCGCCACUGCUGGUUGACUC---UUCUUGUCACUGCUGCAAUUAUA
...(.((-(((((((((((...((((...))))..))).))).))))))).)..(((.(((((((..---.....))))..))))))...... ( -34.80)
>DroSim_CAF1 27276 92 - 1
ACCGCCG-GCCAGGUGGCAAUUCUGCGUCGCAGUGUGCACACACUGGCCGCCACUGCUGGUUGGAUCUUCUUCUUGCCACUGCUGCAAUUAUA
...((((-(((((((((((...((((...))))..))).))).))))))).....((((((.(((......))).))))..)).))....... ( -36.10)
>DroEre_CAF1 27336 92 - 1
UCCGUCG-GCCAGGUGGCAAUUCUGGGCCGUGGUGUGCACACACUGGCCGCCACUGCUGGUCGGCUCUUCUUCUUGCCACUGCUGCAAUUAUA
...(.((-((..((((((((....(((((..(((((....)))))((((((....)).)))))))))......)))))))))))))....... ( -36.30)
>DroYak_CAF1 27893 93 - 1
GCCGCCGGGCCAGGUGGCAAUUCUGCGCCGCGGUGUGCACACACUGGCCGCCACUGCUGGUCGGCUCUUCUUCUUGCCACUGCUGCAAUUAUA
((((((......))))))........((.((((((.(((......((((((((....))).)))))........))))))))).))....... ( -39.14)
>consensus
ACCGCCG_GCCAGGUGGCAAUUCUGCGCCGCAGUGUGCACACACUGGCCGCCACUGCUGGUUGGCUCUUCUUCUUGCCACUGCUGCAAUUAUA
...(.((.(((((((((((...((((...))))..))).))).))))))).)..(((.(((.(((..........))))))...)))...... (-26.70 = -26.78 +   0.08)

alignment

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secondary structure

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dotplot

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Window 9

Location 18,069,594 – 18,069,710
Length 116
Sequences 5
Columns 117
Reading direction reverse
Mean pairwise identity 87.71
Mean single sequence MFE -44.89
Consensus MFE -34.08
Energy contribution -34.36
Covariance contribution 0.28
Combinations/Pair 1.10
Mean z-score -1.97
Structure conservation index 0.76
SVM decision value 0.74
SVM RNA-class probability 0.839083
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18069594 116 - 20766785
CAGACAAUCGCAGCACGAAAUCCAGCGAUGUGGCAACACCGCCG-GCCAGGUGGCAAUUCUGCUGCGCAGUGUGCACACACUGGCAGCCACUGCUGGUUGGCUCUUCUUCUUGCAAC
............(((.(((.....(((..(((....)))))).(-(((((.(((((.....(((((.((((((....)))))))))))...))))).))))))....))).)))... ( -44.90)
>DroSec_CAF1 27167 113 - 1
CAGACAAUCACAGCCCGAAAUCCAGCGAUGUGGCAACACCGCCG-GCCAGGUGGCAAUUCUGCGUCGCAGUGUGCACACACUGGCCGCCACUGCUGGUUGACUC---UUCUUGUCAC
..(((((....((..(((...((((((..(((....))).(.((-(((((((((((...((((...))))..))).))).))))))).)..))))))))).)).---...))))).. ( -45.40)
>DroSim_CAF1 27289 116 - 1
CAGCCAAUCACAGCACGAAAUCCAGCGAUGUGGCAACACCGCCG-GCCAGGUGGCAAUUCUGCGUCGCAGUGUGCACACACUGGCCGCCACUGCUGGUUGGAUCUUCUUCUUGCCAC
...((((((((((...........(((..(((....))))))((-(((((((((((...((((...))))..))).))).)))))))...))).)))))))................ ( -45.90)
>DroEre_CAF1 27349 116 - 1
CCUACAAUCACCCUUAGAAAUCGAGCGAUGUGGCAUCUCCGUCG-GCCAGGUGGCAAUUCUGGGCCGUGGUGUGCACACACUGGCCGCCACUGCUGGUCGGCUCUUCUUCUUGCCAC
...................(((....)))((((((.....((((-((((((((((.......((((..(((((....))))))))))))))..))))))))).........)))))) ( -41.05)
>DroYak_CAF1 27906 117 - 1
CCGACAAUCACCCGUUGAAAUGCAGCGAUGUGGCAACGCCGCCGGGCCAGGUGGCAAUUCUGCGCCGCGGUGUGCACACACUGGCCGCCACUGCUGGUCGGCUCUUCUUCUUGCCAC
..(((..(((.....)))....(((((..(((((..((....))((((((((((((...((((...))))..))).))).)))))))))))))))))))(((..........))).. ( -47.20)
>consensus
CAGACAAUCACAGCACGAAAUCCAGCGAUGUGGCAACACCGCCG_GCCAGGUGGCAAUUCUGCGCCGCAGUGUGCACACACUGGCCGCCACUGCUGGUUGGCUCUUCUUCUUGCCAC
.....................((((((..(((((..(......).(((((((((((...((((...))))..))).))).))))).)))))))))))..(((..........))).. (-34.08 = -34.36 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:52:19 2006