Locus 5535

Sequence ID 2L_DroMel_CAF1
Location 15,795,362 – 15,795,467
Length 105
Max. P 0.851622
window8780 window8781

overview

Window 0

Location 15,795,362 – 15,795,467
Length 105
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 73.78
Mean single sequence MFE -20.60
Consensus MFE -4.43
Energy contribution -4.99
Covariance contribution 0.56
Combinations/Pair 1.20
Mean z-score -1.68
Structure conservation index 0.22
SVM decision value 0.36
SVM RNA-class probability 0.703049
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15795362 105 + 22407834
GCUAGCUUGGACUGGAUAC-CCGCCCGCCUUGCCUU-UUCGCGAACUAAUUGCUAAAU-------------AUUUUUCAUUAAAAAUCAAAUGCAAUUUCGCUAAAAAAAAGUCUCAAGU
....(((((((((((....-))............((-((.(((((...(((((.....-------------((((((....)))))).....)))))))))).))))...)))).))))) ( -21.40)
>DroSec_CAF1 19183 104 + 1
CCGAGCUUUGGCACGAUUU-CUGUGCGCCUUGCCUU-UUCGUGAACUAAUUGCUAAAU-------------AUUUUUCAUUAAAAAUCAAAUGCAAUUUCGCAAAAAAAAAG-CUCAAGU
..(((((((.(((((....-.)))))..........-...(((((...(((((.....-------------((((((....)))))).....))))))))))......))))-))).... ( -24.50)
>DroAna_CAF1 18157 100 + 1
---AGCUU-GGAAAGAUUUAAAUUGAACUUUGUUUCUUUGGCUUACAAAUUGCCAAAU-------------AUUUUCCAUUAA-AAUGAAAUGCAAUUUU--UACAAAAACCUCUCAAGU
---.((((-(((((((..((((......))))..))))).......(((((((....(-------------(((((.....))-))))....))))))).--............)))))) ( -14.10)
>DroSim_CAF1 10381 100 + 1
-----CUUUGUCACGAUUU-CUGUGCGCCUUGCCUU-UUCGCGAACUAAUUGCUAAAU-------------AUUUUUCAUUAAAAAUCAAAUGCAAUUUCGCUAAAAAAAAGUCUCAAGU
-----....(.((((....-.)))))..((((.(((-((.(((((...(((((.....-------------((((((....)))))).....)))))))))).....)))))...)))). ( -14.30)
>DroEre_CAF1 19447 118 + 1
GCGAGCUGGGACACGAUUA-UAAAGCGCCUUUCCUUUUUCGCGAACUAAUUGCUUCAUUAAAAAUGAUUUCAUUUUUCAUUAAAAAUGAAAUGCAAUUUCGUGAA-AAAAAGUCUCAUGU
....((((((((.((....-.....)).......(((((((((((...(((((.((((.....))))((((((((((....)))))))))).)))))))))))))-)))..)))))).)) ( -28.70)
>consensus
_C_AGCUUGGACACGAUUU_CAGUGCGCCUUGCCUU_UUCGCGAACUAAUUGCUAAAU_____________AUUUUUCAUUAAAAAUCAAAUGCAAUUUCGCUAAAAAAAAGUCUCAAGU
........................................((((...((((((.......................................)))))))))).................. ( -4.43 =  -4.99 +   0.56)

alignment

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secondary structure

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dotplot

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Window 1

Location 15,795,362 – 15,795,467
Length 105
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 73.78
Mean single sequence MFE -23.96
Consensus MFE -2.79
Energy contribution -3.59
Covariance contribution 0.80
Combinations/Pair 1.18
Mean z-score -1.75
Structure conservation index 0.12
SVM decision value 0.79
SVM RNA-class probability 0.851622
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15795362 105 - 22407834
ACUUGAGACUUUUUUUUAGCGAAAUUGCAUUUGAUUUUUAAUGAAAAAU-------------AUUUAGCAAUUAGUUCGCGAA-AAGGCAAGGCGGGCGG-GUAUCCAGUCCAAGCUAGC
.((((...((((((....((((((((((.....((((((....))))))-------------.....)))))...))))))))-))).))))..((((((-....)).))))........ ( -25.20)
>DroSec_CAF1 19183 104 - 1
ACUUGAG-CUUUUUUUUUGCGAAAUUGCAUUUGAUUUUUAAUGAAAAAU-------------AUUUAGCAAUUAGUUCACGAA-AAGGCAAGGCGCACAG-AAAUCGUGCCAAAGCUCGG
...((((-(((((((((((.((((((((.....((((((....))))))-------------.....)))))...))).))))-)))....(((((....-.....))))))))))))). ( -27.70)
>DroAna_CAF1 18157 100 - 1
ACUUGAGAGGUUUUUGUA--AAAAUUGCAUUUCAUU-UUAAUGGAAAAU-------------AUUUGGCAAUUUGUAAGCCAAAGAAACAAAGUUCAAUUUAAAUCUUUCC-AAGCU---
.((((((((((((.....--.((((((..((((((.-...))))))...-------------.((((((.........))))))...........)))))))))))))).)-)))..--- ( -18.20)
>DroSim_CAF1 10381 100 - 1
ACUUGAGACUUUUUUUUAGCGAAAUUGCAUUUGAUUUUUAAUGAAAAAU-------------AUUUAGCAAUUAGUUCGCGAA-AAGGCAAGGCGCACAG-AAAUCGUGACAAAG-----
.((((...((((((....((((((((((.....((((((....))))))-------------.....)))))...))))))))-))).))))..(((((.-...).))).)....----- ( -20.10)
>DroEre_CAF1 19447 118 - 1
ACAUGAGACUUUUU-UUCACGAAAUUGCAUUUCAUUUUUAAUGAAAAAUGAAAUCAUUUUUAAUGAAGCAAUUAGUUCGCGAAAAAGGAAAGGCGCUUUA-UAAUCGUGUCCCAGCUCGC
....(((.((.(((-(((.(((((((((.((((((((((....))))))))))((((.....)))).)))))...)))).))))))((...(((((....-.....)))))))))))).. ( -28.60)
>consensus
ACUUGAGACUUUUUUUUAGCGAAAUUGCAUUUGAUUUUUAAUGAAAAAU_____________AUUUAGCAAUUAGUUCGCGAA_AAGGCAAGGCGCACAG_AAAUCGUGCCAAAGCU_G_
......................((((((.......................................))))))..................(((((..........)))))......... ( -2.79 =  -3.59 +   0.80)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:46:32 2006