Locus 5641

Sequence ID X_DroMel_CAF1
Location 14,573,880 – 14,574,037
Length 157
Max. P 0.999183
window9161 window9162

overview

Window 1

Location 14,573,880 – 14,573,998
Length 118
Sequences 4
Columns 118
Reading direction reverse
Mean pairwise identity 86.77
Mean single sequence MFE -20.28
Consensus MFE -17.19
Energy contribution -17.00
Covariance contribution -0.19
Combinations/Pair 1.04
Mean z-score -1.34
Structure conservation index 0.85
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14573880 118 - 22224390
AUAUACAUAUAUGUAUAUGCACACUUAUUUUCCUUGUUUUCCCGCAUUGUUUUCACUGUGCUUUGCUUUUGUUUUCACUUUUCCGAGGUUUUCCCACUGGCAACAUGGUAAAGCGACA
(((((((....)))))))...............(((((((.((((((.((....)).)))).(((((..((.....(((((...))))).....))..)))))...)).))))))).. ( -21.00)
>DroSim_CAF1 49385 114 - 1
ACAUAUA----UAUGUAUGUACACUUAUUUUCCUUGUUUUCCCGCAUUGUUUUCACUGUGCUUUGCUUUUGUUUUCACUUUUCCGAGGUUUUCCCACUGGCAACAUGGUAAAGCGACA
((((((.----...)))))).............(((((((.((((((.((....)).)))).(((((..((.....(((((...))))).....))..)))))...)).))))))).. ( -20.20)
>DroEre_CAF1 43594 104 - 1
ACAUAUA------------UACACUCGUUUU-CUUGUUUUCCCGCAUUGUUUUCACUGUGCUUUGCUUUUGUUUUCACUUUUCCGAGGUUUUCCCACUGGCAACAUGG-AAAACGACA
.......------------.....(((((((-((((((.....((((.((....)).))))...(((..((.....(((((...))))).....))..))))))).))-))))))).. ( -20.10)
>DroYak_CAF1 45734 100 - 1
ACAU------------------ACUCGUUUGCCUUGUUUUCCCGCAUUGUUUUCACUGUGCUUUGCUUUUGUUUUCACUUUUCCGAGGUUUUCCCACUGGCAACAUGGUAAAGCGACA
....------------------..(((((((((.((((.....((((.((....)).))))...(((..((.....(((((...))))).....))..))))))).))).)))))).. ( -19.80)
>consensus
ACAUAUA____________UACACUCAUUUUCCUUGUUUUCCCGCAUUGUUUUCACUGUGCUUUGCUUUUGUUUUCACUUUUCCGAGGUUUUCCCACUGGCAACAUGGUAAAGCGACA
.................................(((((((.((((((.((....)).)))).(((((..((.....(((((...))))).....))..)))))...)).))))))).. (-17.19 = -17.00 +  -0.19)

alignment

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secondary structure

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dotplot

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Window 2

Location 14,573,919 – 14,574,037
Length 118
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 74.38
Mean single sequence MFE -27.76
Consensus MFE -7.48
Energy contribution -9.56
Covariance contribution 2.08
Combinations/Pair 1.06
Mean z-score -2.95
Structure conservation index 0.27
SVM decision value 3.42
SVM RNA-class probability 0.999183
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14573919 118 + 22224390
AGUGAAAACAAAAGCAAAGCACAGUGAAAACAAUGCGGG-AAAACAAGGAAAAUAAGUGUGCAUAUACAUAUAUGUAUAUAUACUACUUCUUGGCCGUUUUUGG-GUUUUUGGACCACGA
........(((((((...(((..((....))..))).((-....((((((...((.((((((((((....)))))))))).))....)))))).)))))))))(-(((....)))).... ( -30.80)
>DroSim_CAF1 49424 115 + 1
AGUGAAAACAAAAGCAAAGCACAGUGAAAACAAUGCGGG-AAAACAAGGAAAAUAAGUGUACAUACAUA----UAUAUGUAUACUACUUCUUGGCCGUUUUUGGGGUUUUUGGACCACGA
........(((((((...(((..((....))..))).((-....((((((.....((((((((((....----..))))))))))..)))))).))))))))).((((....)))).... ( -31.80)
>DroEre_CAF1 43632 104 + 1
AGUGAAAACAAAAGCAAAGCACAGUGAAAACAAUGCGGG-AAAACAAG-AAAACGAGUGUA------------UAUAUGUAUACUACUUCUUGGCCGUUUU--GGGUUUUUGGACCACGA
.(((....(((((((...(((..((....))..))).((-....((((-((....((((((------------(....)))))))..)))))).)).....--..)))))))...))).. ( -28.00)
>DroYak_CAF1 45773 99 + 1
AGUGAAAACAAAAGCAAAGCACAGUGAAAACAAUGCGGG-AAAACAAGGCAAACGAGU------------------AUGUAUAGUACUUCUUGGCUGUUUU--GGGUUUUUGGACCACGA
.(((....(((((((...(((..((....))..)))...-....(((((((..((((.------------------..(((...)))..))))..))))))--).)))))))...))).. ( -26.40)
>DroAna_CAF1 75235 95 + 1
ACUGAAAACAAAACCACAGCAGAGCAAAAACAAUAAUGGAAAAACAAAGAG------C------------------CUUGGAAGUAUCGGUGGGAUGUUUUC-GGGUCUUGGGGCCAGGA
.(((((((((...((((...................((......))..((.------.------------------((....))..)).))))..)))))))-)).(((((....))))) ( -21.80)
>consensus
AGUGAAAACAAAAGCAAAGCACAGUGAAAACAAUGCGGG_AAAACAAGGAAAACAAGUGU_____________U_UAUGUAUACUACUUCUUGGCCGUUUU__GGGUUUUUGGACCACGA
.(((....(((((((...(((..((....))..))).(......)............................................................)))))))...))).. ( -7.48 =  -9.56 +   2.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:52:58 2006