Locus 8449

Sequence ID 3R_DroMel_CAF1
Location 22,531,230 – 22,531,353
Length 123
Max. P 0.895768
window13597 window13598

overview

Window 7

Location 22,531,230 – 22,531,321
Length 91
Sequences 5
Columns 100
Reading direction forward
Mean pairwise identity 70.73
Mean single sequence MFE -27.52
Consensus MFE -9.56
Energy contribution -11.16
Covariance contribution 1.60
Combinations/Pair 1.35
Mean z-score -1.99
Structure conservation index 0.35
SVM decision value 0.99
SVM RNA-class probability 0.895768
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22531230 91 + 27905053
CAUCCC----ACCACCAGCGCCAGUACCACUCAAUAAAUGGCUCCA-CCCAAGCCGGAAAAUAUUGGCGGGG--GGAUUCAAAC-AUC-AGUGGUUUACU
......----(((((....((((...............))))(((.-(((..(((((......))))).)))--))).......-...-.)))))..... ( -23.86)
>DroSec_CAF1 163815 92 + 1
CAUCCC----CCCACCAGCACCAGUACCACUCAAUAAAUGGCUCCA-CCCGAGCCGGGAAAUAUUGGCGG-GGUGGAUUCAAAC-ACC-AGUGGUUUACU
......----............(((((((((.......((..((((-(((..(((((......))))).)-))))))..))...-...-))))))..))) ( -29.42)
>DroSim_CAF1 162762 94 + 1
CAUCCCC---CCCACCAGCACCAUUACCACUCAAUAAAUGGCUCCA-CCCGAGCCGGGAAAUAUUGGCGGGGGUGGAUUCAAAC-AAC-AGUGGUUUACU
.......---...............((((((.......((..((((-(((..(((((......)))))..)))))))..))...-...-))))))..... ( -29.72)
>DroEre_CAF1 167170 96 + 1
CAUCACCACCAGCACCAGCACCAGCACCAGUCGAUAAAUGGCCCCA-CCCAACCGGAGGAAUAUUGGCGG-GGUGGAUUCAAA-GUCC-AGUGGUUUACU
....(((((....(((.((....)).((.(((((((.....((((.-.......)).))..)))))))))-)))((((.....-))))-.)))))..... ( -25.70)
>DroAna_CAF1 175085 89 + 1
AACU---------GCCAGAGG-GUGGUAAGUAAAUAAACGGAUCUAACCCCAUUCGGAGGGUAUGGGUGUAAAAGGACGCCACC-ACUUGCUGGUUUACU
....---------(((((..(-(((((...................((((........))))...(((((......))))))))-)))..)))))..... ( -28.90)
>consensus
CAUCCC____ACCACCAGCACCAGUACCACUCAAUAAAUGGCUCCA_CCCAAGCCGGGAAAUAUUGGCGG_GGUGGAUUCAAAC_ACC_AGUGGUUUACU
.........................((((((.......(((.((((.((...(((((......)))))...)))))).)))........))))))..... ( -9.56 = -11.16 +   1.60)

alignment

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secondary structure

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dotplot

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Window 8

Location 22,531,254 – 22,531,353
Length 99
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 80.52
Mean single sequence MFE -36.87
Consensus MFE -21.50
Energy contribution -23.12
Covariance contribution 1.61
Combinations/Pair 1.15
Mean z-score -2.41
Structure conservation index 0.58
SVM decision value 0.81
SVM RNA-class probability 0.855814
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22531254 99 + 27905053
ACUCAAUAAAUGGCUCCA-CCCAAGCCGGAAAAUAUUGGCGGGG--GGAUUCAAAC--------AUC-AGUGGUUUACUUAGGCGCCAAGUGCCGCGCAUAAGUAAGCGGG---
.(((......((..(((.-(((..(((((......))))).)))--)))..))...--------...-....(((((((((.((((........)))).))))))))))))--- ( -34.10)
>DroSec_CAF1 163839 100 + 1
ACUCAAUAAAUGGCUCCA-CCCGAGCCGGGAAAUAUUGGCGG-GGUGGAUUCAAAC--------ACC-AGUGGUUUACUUAGGCGCCAAGUGCCGCGCAUAAGUAAGCGGG---
.(((......((..((((-(((..(((((......))))).)-))))))..))...--------...-....(((((((((.((((........)))).))))))))))))--- ( -40.90)
>DroSim_CAF1 162787 101 + 1
ACUCAAUAAAUGGCUCCA-CCCGAGCCGGGAAAUAUUGGCGGGGGUGGAUUCAAAC--------AAC-AGUGGUUUACUUAGGCGCCAAGUGCCGCGCAUAAGUAAGCGGG---
.(((......((..((((-(((..(((((......)))))..)))))))..))...--------...-....(((((((((.((((........)))).))))))))))))--- ( -41.70)
>DroEre_CAF1 167198 100 + 1
AGUCGAUAAAUGGCCCCA-CCCAACCGGAGGAAUAUUGGCGG-GGUGGAUUCAAA--------GUCC-AGUGGUUUACUUAGGCGCCAAGUGCCGCGCAUAAGUAAGCGGG---
.((((.....))))((((-(((..((((.......))))..)-)))((((.....--------))))-....(((((((((.((((........)))).))))))))))))--- ( -34.30)
>DroYak_CAF1 165630 108 + 1
AGUCAAUAAAUGGCUCCA-CCCAAGUGGAGCAAUAUUGGCGG-GGUGGAUUCAAACACCAGUGGUUC-AGUGGUUUACUUAGGCGCCAAGUGCCGCGCAUAAGUAAGCGGG---
.(((((((....((((((-(....)))))))..)))))))..-((((........))))........-....(((((((((.((((........)))).)))))))))...--- ( -42.60)
>DroAna_CAF1 175103 106 + 1
AGUAAAUAAACGGAUCUAACCCCAUUCGGAGGGUAUGGGUGUAAAAGGACGCCACC--------ACUUGCUGGUUUACUUAGGCGCCAAGUGCCGUUCAUAAGUAAGCAGACGC
...........((........))...(((..(((...(((((......)))))...--------)))..)))((((((((((((((...))))).....)))))))))...... ( -27.60)
>consensus
ACUCAAUAAAUGGCUCCA_CCCAAGCCGGGAAAUAUUGGCGG_GGUGGAUUCAAAC________ACC_AGUGGUUUACUUAGGCGCCAAGUGCCGCGCAUAAGUAAGCGGG___
..........(((.((((.((...(((((......)))))...)))))).)))...................(((((((((.((((........)))).)))))))))...... (-21.50 = -23.12 +   1.61)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:11:40 2006