Locus 8148

Sequence ID 3L_DroMel_CAF1
Location 21,485,894 – 21,486,027
Length 133
Max. P 0.632773
window13309 window13310

overview

Window 9

Location 21,485,894 – 21,486,012
Length 118
Sequences 4
Columns 119
Reading direction reverse
Mean pairwise identity 86.27
Mean single sequence MFE -22.80
Consensus MFE -17.81
Energy contribution -18.88
Covariance contribution 1.06
Combinations/Pair 1.07
Mean z-score -1.55
Structure conservation index 0.78
SVM decision value 0.20
SVM RNA-class probability 0.632773
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21485894 118 - 23771897
UGCCAUUGGGCAUAUGUAUA-AGUAUUAUUAUUAUUAGUCAAAGCAAACAUGAUCACAAGCUUGCAUAAGCAAGUUAUCAGAUAGAUAAUAAUUAUCAUGAAUUUUUGAUUGAGUAAUC
((((....))))........-......(((((..((((((((((....((((((.....((((((....))))))((((.....))))......))))))...))))))))))))))). ( -25.20)
>DroSec_CAF1 7696 112 - 1
UGUCAUUGGGCAUAUGUAUU-AG------UAUUAUUAGUCAAAGCUAACAUGAUCCCAAACUUGCAUGAGCAAGUUAUCAGAUAGAUAAUAAUUAUCAUGAAUUUUUAAUUGAGUAAUC
((((..((((..(((((..(-((------(.............)))))))))..))))(((((((....)))))))....))))((((.....))))...................... ( -20.72)
>DroSim_CAF1 9085 113 - 1
UGUCAUUGGGCAUUUGUAUUAAG------UAUUAUUAGUCAAAGCUAACAUGAUCCCAAACUUGCAUGAGCAAGUUAUCAGAUAGAUAAUAAUUAUCAUGAAUUUUUGAUUGAGUAAUC
((((....))))...........------.....((((((((((....((((((....(((((((....)))))))(((.....))).......))))))...))))))))))...... ( -22.20)
>DroYak_CAF1 9564 114 - 1
UGCCAAUAAGCAUAUGUACA-UAUAU---GUUUAUUAGUCACAGCAAACAGUAUCCCAAACUUGCAUGAGCAAGUUAUCAGAUAGAUAAUAAUUAUCAAGAAUUUUUGAUUGAGUACA-
.((.((((((((((((....-)))))---))))))).))..(((((((...((((...(((((((....)))))))....))))((((.....)))).......)))).)))......- ( -23.10)
>consensus
UGCCAUUGGGCAUAUGUAUA_AG______UAUUAUUAGUCAAAGCAAACAUGAUCCCAAACUUGCAUGAGCAAGUUAUCAGAUAGAUAAUAAUUAUCAUGAAUUUUUGAUUGAGUAAUC
((((....))))......................((((((((((....((((((....(((((((....)))))))(((.....))).......))))))...))))))))))...... (-17.81 = -18.88 +   1.06)

alignment

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secondary structure

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dotplot

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Window 0

Location 21,485,933 – 21,486,027
Length 94
Sequences 5
Columns 101
Reading direction reverse
Mean pairwise identity 79.48
Mean single sequence MFE -19.54
Consensus MFE -11.26
Energy contribution -11.26
Covariance contribution -0.00
Combinations/Pair 1.17
Mean z-score -1.81
Structure conservation index 0.58
SVM decision value 0.14
SVM RNA-class probability 0.600606
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21485933 94 - 23771897
UUAAGU------UUAUUGUUGUGCCAUUGGGCAUAUGUAUA-AGUAUUAUUAUUAUUAGUCAAAGCAAACAUGAUCACAAGCUUGCAUAAGCAAGUUAUCA
.....(------((((...((((((....))))))...)))-))...........................((((....(((((((....))))))))))) ( -17.50)
>DroSec_CAF1 7735 91 - 1
CUAAGUCA---AUUAUUGUUGUGUCAUUGGGCAUAUGUAUU-AG------UAUUAUUAGUCAAAGCUAACAUGAUCCCAAACUUGCAUGAGCAAGUUAUCA
......((---((....))))......((((..(((((..(-((------(.............)))))))))..))))(((((((....))))))).... ( -17.22)
>DroSim_CAF1 9124 92 - 1
CUAAGUCA---AUUAUUGUUGUGUCAUUGGGCAUUUGUAUUAAG------UAUUAUUAGUCAAAGCUAACAUGAUCCCAAACUUGCAUGAGCAAGUUAUCA
......((---((....)))).(((((..(((.((((.(((((.------.....))))))))))))...)))))....(((((((....))))))).... ( -18.70)
>DroEre_CAF1 7819 90 - 1
---AGUAAAUAAUUAUUAUUGUGCCAAUGAGCAAAUGU-----AUAU---GUUUAUAAGUCAAAGCAAGCAUGAUCCCAAACUUGCAUGAGCAAGUUGUCA
---..............((..(((..(((((((.....-----...)---))))))..((....))..)))..))....(((((((....))))))).... ( -16.10)
>DroYak_CAF1 9602 94 - 1
UUAAGUAA---AUUAUUGUUGUGCCAAUAAGCAUAUGUACA-UAUAU---GUUUAUUAGUCACAGCAAACAGUAUCCCAAACUUGCAUGAGCAAGUUAUCA
........---....(((((((((.((((((((((((....-)))))---))))))).).))))))))...........(((((((....))))))).... ( -28.20)
>consensus
CUAAGUAA___AUUAUUGUUGUGCCAUUGGGCAUAUGUAUA_AGUAU___UAUUAUUAGUCAAAGCAAACAUGAUCCCAAACUUGCAUGAGCAAGUUAUCA
...................(((((......)))))............................................(((((((....))))))).... (-11.26 = -11.26 +  -0.00)

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 13:07:29 2006