Locus 8167

Sequence ID 3R_DroMel_CAF1
Location 21,965,097 – 21,965,189
Length 92
Max. P 0.939555
window13132 window13133

overview

Window 2

Location 21,965,097 – 21,965,189
Length 92
Sequences 6
Columns 95
Reading direction forward
Mean pairwise identity 81.77
Mean single sequence MFE -26.55
Consensus MFE -15.34
Energy contribution -16.90
Covariance contribution 1.56
Combinations/Pair 1.21
Mean z-score -3.54
Structure conservation index 0.58
SVM decision value 1.28
SVM RNA-class probability 0.939555
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21965097 92 + 27905053
AAAA-UCCUGCAAAAG-G-AGCAGGAAAGUUGGCAGAAAGUUUCCUGCUUUUGUGUGCAAAUAUUUAGCACGGAAAUUGCACUUGCAACAGGAGA
....-(((((....((-(-(((((((((.((......)).)))))))))))).(((((.........)))))....((((....))))))))).. ( -31.40)
>DroSec_CAF1 4447 92 + 1
AAAA-ACCUGCUAAAG-G-AGCAGGAAAGUUGGCAGAAAGUUUCCUGCUUUUGUGUGCAAAUAUUUAGCACGGAAAUUGCACUUGCAACAGGAGA
....-.((((....((-(-(((((((((.((......)).)))))))))))).(((((.........)))))....((((....))))))))... ( -30.00)
>DroSim_CAF1 4444 92 + 1
AAAA-ACCUGCAAGAG-G-AGCAGGAAAGUUGGCAGAAAGUUUCCUGCUUUUGUGUGCAAAUAUUUAGCACGGAAAUUGCACUUGCAACAGGAGA
....-.((((((((((-(-(((((((((.((......)).)))))))))))).(((((.........))))).........)))))...)))... ( -31.00)
>DroEre_CAF1 4388 91 + 1
AAAAA--CAGCAAAGG-G-AGCAGAAAAGUUGGAAGAAAGUUUCCUGCUUUUGUGUGCAAAUAUUUAGCACGGAAAUUGCACUUGCAACAGGAGA
.....--..((.....-.-.))......((((.(((..(((((((((((...((((....))))..)))).)))))))...))).))))...... ( -22.80)
>DroYak_CAF1 5123 93 + 1
AAAAAACCUGCAAAGG-A-AGCAGAAAAGUUGUAAGAAAGUUUCCUGUUUUUGUGUGCAAAUAUUUAGCACGGAAAUUGCACUUGCAACAGGAGA
.......((((.....-.-.))))....((((((((..(((((((((((...((((....))))..)))).)))))))...))))))))...... ( -26.60)
>DroAna_CAF1 6059 84 + 1
AACA-ACUAGCCAAGAACAAAGGGAAAAGUGCGAGGAAAGUUGUGAACUCUCGAGUGCAAAUAU---GCAUGGAAAUUGUUCGU-------GAGA
.(((-(((..((..(.((..........)).)..))..))))))...(((.((((((((....)---)))).........))).-------))). ( -17.50)
>consensus
AAAA_ACCUGCAAAAG_G_AGCAGAAAAGUUGGAAGAAAGUUUCCUGCUUUUGUGUGCAAAUAUUUAGCACGGAAAUUGCACUUGCAACAGGAGA
........(((((......(((((((((.((......)).)))))))))(((.(((((.........))))).)))))))).............. (-15.34 = -16.90 +   1.56)

alignment

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secondary structure

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dotplot

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Window 3

Location 21,965,097 – 21,965,189
Length 92
Sequences 6
Columns 95
Reading direction reverse
Mean pairwise identity 81.77
Mean single sequence MFE -21.98
Consensus MFE -13.26
Energy contribution -15.17
Covariance contribution 1.92
Combinations/Pair 1.17
Mean z-score -3.30
Structure conservation index 0.60
SVM decision value 1.17
SVM RNA-class probability 0.924962
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21965097 92 - 27905053
UCUCCUGUUGCAAGUGCAAUUUCCGUGCUAAAUAUUUGCACACAAAAGCAGGAAACUUUCUGCCAACUUUCCUGCU-C-CUUUUGCAGGA-UUUU
..(((((((((....)))......((((.........)))).....(((((((((.((......)).)))))))))-.-.....))))))-.... ( -25.90)
>DroSec_CAF1 4447 92 - 1
UCUCCUGUUGCAAGUGCAAUUUCCGUGCUAAAUAUUUGCACACAAAAGCAGGAAACUUUCUGCCAACUUUCCUGCU-C-CUUUAGCAGGU-UUUU
...(((((((...((((((................)))))).....(((((((((.((......)).)))))))))-.-...))))))).-.... ( -25.59)
>DroSim_CAF1 4444 92 - 1
UCUCCUGUUGCAAGUGCAAUUUCCGUGCUAAAUAUUUGCACACAAAAGCAGGAAACUUUCUGCCAACUUUCCUGCU-C-CUCUUGCAGGU-UUUU
.......(((((((.(........((((.........)))).....(((((((((.((......)).)))))))))-.-).)))))))..-.... ( -24.40)
>DroEre_CAF1 4388 91 - 1
UCUCCUGUUGCAAGUGCAAUUUCCGUGCUAAAUAUUUGCACACAAAAGCAGGAAACUUUCUUCCAACUUUUCUGCU-C-CCUUUGCUG--UUUUU
.........((((((((((................)))))).....(((((((((.((......)).)))))))))-.-...))))..--..... ( -18.29)
>DroYak_CAF1 5123 93 - 1
UCUCCUGUUGCAAGUGCAAUUUCCGUGCUAAAUAUUUGCACACAAAAACAGGAAACUUUCUUACAACUUUUCUGCU-U-CCUUUGCAGGUUUUUU
..(((((((((....)).......((((.........)))).....))))))).................(((((.-.-.....)))))...... ( -21.40)
>DroAna_CAF1 6059 84 - 1
UCUC-------ACGAACAAUUUCCAUGC---AUAUUUGCACUCGAGAGUUCACAACUUUCCUCGCACUUUUCCCUUUGUUCUUGGCUAGU-UGUU
....-------..((((..((((..(((---(....))))...))))))))((((((..((..(.((..........)).)..))..)))-))). ( -16.30)
>consensus
UCUCCUGUUGCAAGUGCAAUUUCCGUGCUAAAUAUUUGCACACAAAAGCAGGAAACUUUCUGCCAACUUUCCUGCU_C_CCUUUGCAGGU_UUUU
..(((((((....((((((................)))))).....))))))).................(((((.........)))))...... (-13.26 = -15.17 +   1.92)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:04:07 2006