Locus 8244

Sequence ID X_DroMel_CAF1
Location 20,463,445 – 20,463,546
Length 101
Max. P 0.991924
window13543 window13544

overview

Window 3

Location 20,463,445 – 20,463,546
Length 101
Sequences 6
Columns 106
Reading direction forward
Mean pairwise identity 73.17
Mean single sequence MFE -23.21
Consensus MFE -12.55
Energy contribution -12.36
Covariance contribution -0.19
Combinations/Pair 1.12
Mean z-score -2.45
Structure conservation index 0.54
SVM decision value 2.30
SVM RNA-class probability 0.991924
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20463445 101 + 22224390
UUAACCCCUUUUUUGCUCUACAAAUACAAU-UACAAUUGUUCGCGCUCG---CG-AAAAGGGGUUAAGGCGGGUAAAUUUCAAAUUUCACUGACCGUUUUUACCUA
(((((((((((..............(((((-....)))))((((....)---))-))))))))))))...(((((((..(((........))).....))))))). ( -26.80)
>DroPse_CAF1 58054 84 + 1
UUAACCCCUU-UUCGCUCUACAAAUACAAUUUGCAAUUGUUC-CGCCCGGUCCA-GAAAGGGGUUAAGCUGAGUGAA----------------CCG---UUACCUA
((((((((((-((.((................))...((..(-(....))..))-)))))))))))).....((((.----------------...---))))... ( -19.59)
>DroSec_CAF1 36826 76 + 1
UUAACCCCUU-UCUGCUCUACAAAUACAAU-UACAAUUGUUCGCGCUCG---CG-AAAAGGGGCUAAGGCGA------------------------UUUUUACCUA
....((((((-(.............(((((-....)))))((((....)---))-))))))))...(((...------------------------......))). ( -16.50)
>DroSim_CAF1 41927 100 + 1
UUAACCCCUU-UCUGCUCUACAAAUACAAU-UACAAUUGUUCGCGCUCG---CG-AAAAGGGGUUAAGGCGGGUAAAUUUCGAAUUUCACUGACCGUUUUUACCUA
((((((((((-(.............(((((-....)))))((((....)---))-))))))))))))...(((((((...((............))..))))))). ( -27.40)
>DroAna_CAF1 16077 83 + 1
UUAACCCCUU-UUCGCUCUACAAAUACAAUUUGCAAUUGUUAGCGUGGG---CACAAAAGGGGUUAGGCCUG-------------------GGCCAUUCGUACCUA
.(((((((((-((.((.((((....(((((.....)))))....)))))---)..)))))))))))(((...-------------------.)))........... ( -29.40)
>DroPer_CAF1 58260 84 + 1
UUAACCCCUU-UUCGCUCUACAAAUACAAUUUGCAAUUGUUC-CGCCCGGUCCA-GAAAGGGGUUAAGCUGAGUGAA----------------CCG---UUACCUA
((((((((((-((.((................))...((..(-(....))..))-)))))))))))).....((((.----------------...---))))... ( -19.59)
>consensus
UUAACCCCUU_UUCGCUCUACAAAUACAAU_UACAAUUGUUCGCGCUCG___CA_AAAAGGGGUUAAGCCGAGU_AA________________CCGUUUUUACCUA
((((((((((.(.............(((((.....)))))...............).))))))))))....................................... (-12.55 = -12.36 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

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Window 4

Location 20,463,445 – 20,463,546
Length 101
Sequences 6
Columns 106
Reading direction reverse
Mean pairwise identity 73.17
Mean single sequence MFE -25.07
Consensus MFE -15.11
Energy contribution -14.50
Covariance contribution -0.61
Combinations/Pair 1.17
Mean z-score -2.07
Structure conservation index 0.60
SVM decision value 1.85
SVM RNA-class probability 0.979847
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20463445 101 - 22224390
UAGGUAAAAACGGUCAGUGAAAUUUGAAAUUUACCCGCCUUAACCCCUUUU-CG---CGAGCGCGAACAAUUGUA-AUUGUAUUUGUAGAGCAAAAAAGGGGUUAA
..((((((.....((((......))))..)))))).....(((((((((((-((---(....))))(((((....-))))).((((.....)))))))))))))). ( -27.70)
>DroPse_CAF1 58054 84 - 1
UAGGUAA---CGG----------------UUCACUCAGCUUAACCCCUUUC-UGGACCGGGCG-GAACAAUUGCAAAUUGUAUUUGUAGAGCGAA-AAGGGGUUAA
.......---...----------------...........((((((((((.-((..((....)-).((((.(((.....))).))))....)).)-))))))))). ( -20.80)
>DroSec_CAF1 36826 76 - 1
UAGGUAAAAA------------------------UCGCCUUAGCCCCUUUU-CG---CGAGCGCGAACAAUUGUA-AUUGUAUUUGUAGAGCAGA-AAGGGGUUAA
.((((.....------------------------..))))((((((((((.-.(---(....(((((((((....-)))))..))))...))..)-))))))))). ( -24.70)
>DroSim_CAF1 41927 100 - 1
UAGGUAAAAACGGUCAGUGAAAUUCGAAAUUUACCCGCCUUAACCCCUUUU-CG---CGAGCGCGAACAAUUGUA-AUUGUAUUUGUAGAGCAGA-AAGGGGUUAA
...........(((..(((((........)))))..))).((((((((((.-.(---(....(((((((((....-)))))..))))...))..)-))))))))). ( -28.10)
>DroAna_CAF1 16077 83 - 1
UAGGUACGAAUGGCC-------------------CAGGCCUAACCCCUUUUGUG---CCCACGCUAACAAUUGCAAAUUGUAUUUGUAGAGCGAA-AAGGGGUUAA
...........(((.-------------------...)))(((((((((((((.---...))(((.((((.(((.....))).))))..))).))-))))))))). ( -28.30)
>DroPer_CAF1 58260 84 - 1
UAGGUAA---CGG----------------UUCACUCAGCUUAACCCCUUUC-UGGACCGGGCG-GAACAAUUGCAAAUUGUAUUUGUAGAGCGAA-AAGGGGUUAA
.......---...----------------...........((((((((((.-((..((....)-).((((.(((.....))).))))....)).)-))))))))). ( -20.80)
>consensus
UAGGUAAAAACGG________________UU_ACCCGCCUUAACCCCUUUU_CG___CGAGCGCGAACAAUUGCA_AUUGUAUUUGUAGAGCAAA_AAGGGGUUAA
........................................(((((((((.................(((((.....))))).((((.....)))).))))))))). (-15.11 = -14.50 +  -0.61)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:59:16 2006