Locus 4015

Sequence ID 2L_DroMel_CAF1
Location 11,662,957 – 11,663,057
Length 100
Max. P 0.696191
window6329 window6330

overview

Window 9

Location 11,662,957 – 11,663,057
Length 100
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 81.53
Mean single sequence MFE -21.25
Consensus MFE -14.25
Energy contribution -15.48
Covariance contribution 1.22
Combinations/Pair 1.08
Mean z-score -1.59
Structure conservation index 0.67
SVM decision value 0.18
SVM RNA-class probability 0.620248
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11662957 100 + 22407834
UGAGCCAUGGCA-AUAGUCAAAUGGCCAUUUCGCUAGCUCUCUAAUUGCCAAG-------CCAAAA--UAACAGUCAACAGAGGUCAGCUAAAGUCAAAAGUCUAGACA----A
((.((..(((((-((((.....((((......)))).....)).))))))).)-------)))...--....(((..((....))..)))...(((.........))).----. ( -18.30)
>DroSec_CAF1 124287 100 + 1
UGAGCCAUGACA-AUAGUCAAAUGGCCAUUUCGCUAGCUCUCUAAUUGCCAAG-------CCAAAA--UAGCAGUAAACAGAGGUCAGCGAAAGUCAAAAGUCUAGACA----A
((.((((((((.-...))))..))))))(((((((..(.((((..((((...(-------(.....--..)).))))..)))))..)))))))(((.........))).----. ( -28.10)
>DroSim_CAF1 122100 100 + 1
UGAGCCAUGACA-AUAGUCAAAUGGCCAUUUCGCUAGCUCUCUAAUUGCCAAG-------CCAAAA--AAGCAGUAAACAGAGGUCAGCGAAAGUCAAAAGUCUAGACA----A
((.((((((((.-...))))..))))))(((((((..(.((((..((((...(-------(.....--..)).))))..)))))..)))))))(((.........))).----. ( -28.10)
>DroEre_CAF1 145775 109 + 1
UGAGCCAUGACA-AUAGUCAAACGGCCACUUCGCUUGCUCUCUAAUUGCCAAAAAAAAAACCAAAAACAAGCACUAAACAGAGGUCAGCAAAAGUCAAGAGUCUAGACA----G
((.(((.((((.-...))))...)))))....(((.((.((((...(((.....................)))......)))))).)))....(((.((...)).))).----. ( -17.60)
>DroYak_CAF1 120034 99 + 1
UGAGCCAUGACA-AUAGUCAAAUGGCCAGUUCGCUUGCUCUCUAAUUGCCAAAAA----------AACAAUCACUAAACAGAGGUCAGCGAAAGUCAAAAGUCUAGACA----G
((.((((((((.-...))))..)))))).((((((.((.((((............----------..............)))))).)))))).(((.........))).----. ( -22.47)
>DroAna_CAF1 130216 100 + 1
CCAGCCAAGACAAAUAGUC-----GCCCCUUAACUUGCUCUCUAAUUGCCACA-------AAAAAA--GGACAGCCAUCAGAGGUCAGAGAAAGUCAAAAGUCUAGACAGCCGA
................(((-----....(((.((((..(((((...((((...-------......--)).))(((......))).)))))))))...)))....)))...... ( -12.90)
>consensus
UGAGCCAUGACA_AUAGUCAAAUGGCCAUUUCGCUAGCUCUCUAAUUGCCAAA_______CCAAAA__AAGCAGUAAACAGAGGUCAGCGAAAGUCAAAAGUCUAGACA____A
...((((((((.....))))..))))......(((.((.((((..((((........................))))..)))))).)))....(((.........)))...... (-14.25 = -15.48 +   1.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 11,662,957 – 11,663,057
Length 100
Sequences 6
Columns 114
Reading direction reverse
Mean pairwise identity 81.53
Mean single sequence MFE -27.05
Consensus MFE -19.94
Energy contribution -20.78
Covariance contribution 0.83
Combinations/Pair 1.17
Mean z-score -1.56
Structure conservation index 0.74
SVM decision value 0.34
SVM RNA-class probability 0.696191
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11662957 100 - 22407834
U----UGUCUAGACUUUUGACUUUAGCUGACCUCUGUUGACUGUUA--UUUUGG-------CUUGGCAAUUAGAGAGCUAGCGAAAUGGCCAUUUGACUAU-UGCCAUGGCUCA
(----((((.((.((..((((.(((((........)))))..))))--....))-------)).))))).....((((((....(((((.(....).))))-)....)))))). ( -23.30)
>DroSec_CAF1 124287 100 - 1
U----UGUCUAGACUUUUGACUUUCGCUGACCUCUGUUUACUGCUA--UUUUGG-------CUUGGCAAUUAGAGAGCUAGCGAAAUGGCCAUUUGACUAU-UGUCAUGGCUCA
.----.(((.........)))((((((((.((((((.....(((((--......-------..)))))..))))).).)))))))).(((((..((((...-.))))))))).. ( -30.40)
>DroSim_CAF1 122100 100 - 1
U----UGUCUAGACUUUUGACUUUCGCUGACCUCUGUUUACUGCUU--UUUUGG-------CUUGGCAAUUAGAGAGCUAGCGAAAUGGCCAUUUGACUAU-UGUCAUGGCUCA
.----.(((.........)))((((((((.((((((....(.(((.--....))-------)..).....))))).).)))))))).(((((..((((...-.))))))))).. ( -28.40)
>DroEre_CAF1 145775 109 - 1
C----UGUCUAGACUCUUGACUUUUGCUGACCUCUGUUUAGUGCUUGUUUUUGGUUUUUUUUUUGGCAAUUAGAGAGCAAGCGAAGUGGCCGUUUGACUAU-UGUCAUGGCUCA
.----..............(((((.(((((.......)))))((((((((((.(((........))).....)))))))))))))))(((((..((((...-.))))))))).. ( -25.50)
>DroYak_CAF1 120034 99 - 1
C----UGUCUAGACUUUUGACUUUCGCUGACCUCUGUUUAGUGAUUGUU----------UUUUUGGCAAUUAGAGAGCAAGCGAACUGGCCAUUUGACUAU-UGUCAUGGCUCA
.----.(((.........))).((((((...((((.(.....(((((((----------.....)))))))).))))..))))))..(((((..((((...-.))))))))).. ( -26.50)
>DroAna_CAF1 130216 100 - 1
UCGGCUGUCUAGACUUUUGACUUUCUCUGACCUCUGAUGGCUGUCC--UUUUUU-------UGUGGCAAUUAGAGAGCAAGUUAAGGGGC-----GACUAUUUGUCUUGGCUGG
.(((((.......(((((((((((((((((((......)).(((((--......-------.).)))).)))))))..))))))))))..-----(((.....)))..))))). ( -28.20)
>consensus
U____UGUCUAGACUUUUGACUUUCGCUGACCUCUGUUUACUGCUU__UUUUGG_______CUUGGCAAUUAGAGAGCAAGCGAAAUGGCCAUUUGACUAU_UGUCAUGGCUCA
......(((.........)))(((((((..((((((.....((((...................))))..))))).)..))))))).(((((..((((.....))))))))).. (-19.94 = -20.78 +   0.83)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:07:12 2006