Locus 2969

Sequence ID 3R_DroMel_CAF1
Location 7,929,795 – 7,929,948
Length 153
Max. P 0.960246
window4774 window4775

overview

Window 4

Location 7,929,795 – 7,929,912
Length 117
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 88.89
Mean single sequence MFE -31.76
Consensus MFE -24.04
Energy contribution -23.56
Covariance contribution -0.48
Combinations/Pair 1.19
Mean z-score -2.54
Structure conservation index 0.76
SVM decision value 1.51
SVM RNA-class probability 0.960246
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7929795 117 - 27905053
UUCUGGAAUUGGUUUAGGCCACUACAAAAUGAACAACCAUUUUGGACAUUAGGCCAAAGCUCAUCAGCAUCCCGAAUGUCAUCAGAAAUAGCCAUAGUUA--GAAAAUGGUCU-UACUAA
((((((...((((....))))...(((((((......)))))))((((((.((.....(((....)))...)).)))))).)))))).......((((.(--((......)))-.)))). ( -27.00)
>DroSec_CAF1 61381 119 - 1
UUCUGGAAUUGGUUUAGGCCACUACAAAAUGAACAACCAUUUUGGACAUUAGACCAAAGCUCAUCAGCAUCCCGAAUGUCAUCAGAAAUGGCGAUAGCCAAUGACAAUGGGUU-UACUAA
(((.(((.(((((((((.......(((((((......)))))))....))))))))).(((....))).))).)))((((((......((((....)))))))))).(((...-..))). ( -32.00)
>DroSim_CAF1 63212 119 - 1
UUCUGGAAUUGGUUUAGGCCACUACAAAAUGAACAACCAUUUUGGACAUUUGGCCAAAGCUCAUCAGCAUCCCGAAUGUCAUCAGAAAUGGCGAUAGCCGAUGACAAUGGGUU-UACUAA
..((((....(((((.(((((...(((((((......)))))))......))))).)))))..))))...((((..((((((((....)(((....)))))))))).))))..-...... ( -37.00)
>DroEre_CAF1 62329 108 - 1
UUCUGCAAUUGGUUUAGGCCACUACAAAAUGAACAACCAUUUUGGACAUUAGGCCAAAGCUCAUCGGCAUCCCCAAUGUCAUCAGAAAUGGCGAUAGUCG--GA----------UACUAA
....((...((((((.((((....(((((((......))))))).......)))).)))).))...))((((....((((..((....))..))))...)--))----------)..... ( -29.80)
>DroYak_CAF1 63685 118 - 1
UUCUGGAAUUGGUUUAGGCCACUACAAAAUGAACAACCAUUUCGGACAUUAGGCCAAAGCUCAUAAGCAUCCCCGAUGUCAUCGGUAGUGGCGAUAGUCA--GACAAUGGGCUAUACUAA
.............((((((((((((.(((((......)))))..(((((..((.....(((....)))...))..)))))....)))))))).((((((.--.......)))))).)))) ( -33.00)
>consensus
UUCUGGAAUUGGUUUAGGCCACUACAAAAUGAACAACCAUUUUGGACAUUAGGCCAAAGCUCAUCAGCAUCCCGAAUGUCAUCAGAAAUGGCGAUAGUCA__GACAAUGGGCU_UACUAA
((((((...((((....))))...(((((((......)))))))((((((.((.....(((....)))...)).)))))).)))))).((((....)))).................... (-24.04 = -23.56 +  -0.48)

alignment

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secondary structure

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dotplot

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Window 5

Location 7,929,832 – 7,929,948
Length 116
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 89.63
Mean single sequence MFE -29.52
Consensus MFE -21.18
Energy contribution -22.54
Covariance contribution 1.36
Combinations/Pair 1.12
Mean z-score -2.11
Structure conservation index 0.72
SVM decision value 0.41
SVM RNA-class probability 0.727006
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7929832 116 - 27905053
AACAAGCAUGCUGGCCAUGCCC----AGCAGUUAUGUAAAUUCUGGAAUUGGUUUAGGCCACUACAAAAUGAACAACCAUUUUGGACAUUAGGCCAAAGCUCAUCAGCAUCCCGAAUGUC
.((((((.((((((......))----))))))).)))..((((.(((.(((((((((.......(((((((......)))))))....))))))))).(((....))).))).))))... ( -33.60)
>DroSec_CAF1 61420 116 - 1
AACAAGCAUGCUCGCCAUGCCC----GGCAGUUAUGUAAAUUCUGGAAUUGGUUUAGGCCACUACAAAAUGAACAACCAUUUUGGACAUUAGACCAAAGCUCAUCAGCAUCCCGAAUGUC
.....(((((((.(((......----))))).)))))..((((.(((.(((((((((.......(((((((......)))))))....))))))))).(((....))).))).))))... ( -31.60)
>DroSim_CAF1 63251 116 - 1
AACAAGCAUGCUCGCCAUGCCC----AGCAGUUAUGUAAAUUCUGGAAUUGGUUUAGGCCACUACAAAAUGAACAACCAUUUUGGACAUUUGGCCAAAGCUCAUCAGCAUCCCGAAUGUC
.....((((..(((..((((((----((.((((.....))))))))....(((((.(((((...(((((((......)))))))......))))).))))).....))))..))))))). ( -30.50)
>DroEre_CAF1 62357 120 - 1
AGCAAGCAUGCUCACCAUGCCCAGCCAGCAGUUAUGCAAAUUCUGCAAUUGGUUUAGGCCACUACAAAAUGAACAACCAUUUUGGACAUUAGGCCAAAGCUCAUCGGCAUCCCCAAUGUC
.(((.(((((.....)))))...(((.((((...........))))....(((((.((((....(((((((......))))))).......)))).)))))....)))........))). ( -31.60)
>DroYak_CAF1 63723 103 - 1
-------------ACCAUGCCC----AGCAGUUAUGUAAAUUCUGGAAUUGGUUUAGGCCACUACAAAAUGAACAACCAUUUCGGACAUUAGGCCAAAGCUCAUAAGCAUCCCCGAUGUC
-------------((((...((----((.((((.....))))))))...))))...((((....(.(((((......))))).).......))))...........(((((...))))). ( -20.30)
>consensus
AACAAGCAUGCUCGCCAUGCCC____AGCAGUUAUGUAAAUUCUGGAAUUGGUUUAGGCCACUACAAAAUGAACAACCAUUUUGGACAUUAGGCCAAAGCUCAUCAGCAUCCCGAAUGUC
.....(((((.....))))).......(((....)))..((((.(((.(((((((((.......(((((((......)))))))....))))))))).(((....))).))).))))... (-21.18 = -22.54 +   1.36)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:48:59 2006