Locus 5502

Sequence ID X_DroMel_CAF1
Location 14,270,806 – 14,270,927
Length 121
Max. P 0.970940
window8926 window8927

overview

Window 6

Location 14,270,806 – 14,270,904
Length 98
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 80.87
Mean single sequence MFE -31.48
Consensus MFE -21.96
Energy contribution -22.52
Covariance contribution 0.56
Combinations/Pair 1.19
Mean z-score -2.07
Structure conservation index 0.70
SVM decision value 0.82
SVM RNA-class probability 0.858628
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14270806 98 - 22224390
---------CAGCUCCACAAGCAGAGCAGCAUGACAAAGCUAUUGUUAUGCAUCUUUUAAUUUGGUCAAUAAAUGUCGUCCCAGGA--AGGACCUUGGGGACGAGGGUG-----------
---------..((((........)))).(((((((((.....)))))))))......................(.((((((((((.--....)))..))))))).)...----------- ( -30.50)
>DroPse_CAF1 13734 103 - 1
-----------CAUCCG-----ACAUCAGCAUGACAAAGCUUUUGUUAUGCAUCUUUUAAUUUGGUCAAUAAAUGUCCUUCCCUUCCCUUGCCUUCCCGGA-GGAGGGGGCAGAAACUUU
-----------.....(-----((((..(((((((((.....)))))))))(((.........)))......)))))((((((((((....((.....)).-)))))))).))....... ( -27.70)
>DroSec_CAF1 11432 97 - 1
----------AGCUCCACCAGCAGAGCAGCAUGACAAAGCUUUUGUUAUGCAUCUUUUAAUUUGGUCAAUAAAUGUCGUCCCAGGA--AGGACCUUGGGGACGGGGGUG-----------
----------.((((((((((.((((..(((((((((.....)))))))))..))))....)))))..........(((((((((.--....)))..))))))))))).----------- ( -34.00)
>DroSim_CAF1 15440 99 - 1
--------CCAGCUCCACCAGCAGAGCAGCAUGACAAAGCUUUUGUUAUGCAUCUUUUAAUUUGGUCAAUAAAUGUCGUCCCAGGA--AGGACCUUGGGGACGGGGAUG-----------
--------(((((((........)))).(((((((((.....)))))))))...........)))........(.((((((((((.--....)))..))))))).)...----------- ( -31.50)
>DroEre_CAF1 13832 106 - 1
CUCCAUCUCCAGCUCCACCAGCAGAGCAGCAUGACAAAGCUUUUGUUAUGCAUCUUUUAAUUUGGUCAAUAAAUGUCGUCCCAGGA--AGGACCUAGGGGA-GGGGGUG-----------
((((.(((((.((((........)))).(((((((((.....)))))))))............((((......((......))...--..))))..)))))-))))...----------- ( -33.80)
>DroYak_CAF1 14479 96 - 1
-----------GCUCCACCAGCAGAGCAGCAUGACAAAGCUUUUGUUAUGCAUCUUUUAAUUUGGUCAAUAAAUGUCGUACGAGGA--AGGACCUUGUGGACGGGGAUG-----------
-----------.(((((((((.((((..(((((((((.....)))))))))..))))....)))))........(((.(((((((.--....))))))))))))))...----------- ( -31.40)
>consensus
__________AGCUCCACCAGCAGAGCAGCAUGACAAAGCUUUUGUUAUGCAUCUUUUAAUUUGGUCAAUAAAUGUCGUCCCAGGA__AGGACCUUGGGGACGGGGGUG___________
...........((((........)))).(((((((((.....)))))))))((((....(((((.....))))).((((((((((.......)))..)))))))))))............ (-21.96 = -22.52 +   0.56)

alignment

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secondary structure

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dotplot

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Window 7

Location 14,270,833 – 14,270,927
Length 94
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 79.09
Mean single sequence MFE -27.85
Consensus MFE -21.99
Energy contribution -22.77
Covariance contribution 0.78
Combinations/Pair 1.12
Mean z-score -3.82
Structure conservation index 0.79
SVM decision value 1.67
SVM RNA-class probability 0.970940
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14270833 94 - 22224390
ACCAAGUUUUAAGACAGCUCCAG--------------------------CAGCUCCACAAGCAGAGCAGCAUGACAAAGCUAUUGUUAUGCAUCUUUUAAUUUGGUCAAUAAAUGUCGUC
((((((((..((((..((....)--------------------------).((((........)))).(((((((((.....))))))))).))))..)))))))).............. ( -27.90)
>DroPse_CAF1 13773 79 - 1
--CGAGG-----GGCAGAAUAU-----------------------------CAUCCG-----ACAUCAGCAUGACAAAGCUUUUGUUAUGCAUCUUUUAAUUUGGUCAAUAAAUGUCCUU
--..(((-----((((...(((-----------------------------...(((-----....).(((((((((.....)))))))))............))...)))..))))))) ( -19.40)
>DroSec_CAF1 11459 91 - 1
ACCAAGUUUUAAGACAGCUCC-----------------------------AGCUCCACCAGCAGAGCAGCAUGACAAAGCUUUUGUUAUGCAUCUUUUAAUUUGGUCAAUAAAUGUCGUC
((((((((..((((..((((.-----------------------------.(((.....))).)))).(((((((((.....))))))))).))))..)))))))).............. ( -29.40)
>DroSim_CAF1 15467 97 - 1
ACCAAGUUUUAAGACAGCUCCAGCU-----------------------CCAGCUCCACCAGCAGAGCAGCAUGACAAAGCUUUUGUUAUGCAUCUUUUAAUUUGGUCAAUAAAUGUCGUC
((((((((..((((........(((-----------------------(..(((.....))).)))).(((((((((.....))))))))).))))..)))))))).............. ( -29.40)
>DroEre_CAF1 13858 120 - 1
ACCAAGUUUUAAGACAGCUCCAGCUCCGUUCCAGCUCCAUCUCCAUCUCCAGCUCCACCAGCAGAGCAGCAUGACAAAGCUUUUGUUAUGCAUCUUUUAAUUUGGUCAAUAAAUGUCGUC
((((((((..((((..((((.((((.......))))...............(((.....))).)))).(((((((((.....))))))))).))))..)))))))).............. ( -31.50)
>DroYak_CAF1 14506 91 - 1
ACCAAGUUUUAAGACAGUUCCU-----------------------------GCUCCACCAGCAGAGCAGCAUGACAAAGCUUUUGUUAUGCAUCUUUUAAUUUGGUCAAUAAAUGUCGUA
((((((((..((((..((((.(-----------------------------(((.....)))))))).(((((((((.....))))))))).))))..)))))))).............. ( -29.50)
>consensus
ACCAAGUUUUAAGACAGCUCCA____________________________AGCUCCACCAGCAGAGCAGCAUGACAAAGCUUUUGUUAUGCAUCUUUUAAUUUGGUCAAUAAAUGUCGUC
((((((((..((((.....................................((((........)))).(((((((((.....))))))))).))))..)))))))).............. (-21.99 = -22.77 +   0.78)

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 11:49:29 2006