Locus 7268

Sequence ID 2L_DroMel_CAF1
Location 20,350,744 – 20,350,836
Length 92
Max. P 0.999899
window11629 window11630

overview

Window 9

Location 20,350,744 – 20,350,836
Length 92
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 69.48
Mean single sequence MFE -35.14
Consensus MFE -17.02
Energy contribution -17.18
Covariance contribution 0.16
Combinations/Pair 1.29
Mean z-score -3.57
Structure conservation index 0.48
SVM decision value 4.45
SVM RNA-class probability 0.999899
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20350744 92 + 22407834
CCUUGAUGUGUCUGCG---GUGAAAUUCGGCCAA-CUGCCU-GAGGUU--------------AUAUUCAAUGCA--UAUCAGGCGGCCAAGCGAAUUUCACGGCACCUAGA-------CU
.........((((((.---((((((((((.....-((((((-((.((.--------------.........)).--..)))))))).....)))))))))).))....)))-------). ( -33.80)
>DroSec_CAF1 7755 92 + 1
CCUUGAUGUGUCUGCG---GUGAAAUUCGGCCAA-CUGCCU-GAGGUU--------------AUAUUCAAUGCA--UAUCAGGCGGCCAAGCGAAUUUCACUGCACCUAGA-------CU
.........(((((((---((((((((((.....-((((((-((.((.--------------.........)).--..)))))))).....)))))))))))))....)))-------). ( -35.90)
>DroEre_CAF1 8222 92 + 1
CCUUGAUGUGUCUGCG---GUGAAAUUCGUCCAA-CUGCCU-GAAGUG--------------ACAUUCAAUGGA--UUUCAGGCGGCCAAGCUAAUUUCACGGCACCUAGA-------CU
.........((((((.---((((((((.((....-((((((-(((((.--------------.(((...))).)--))))))))))....)).)))))))).))....)))-------). ( -32.60)
>DroYak_CAF1 7663 84 + 1
CCUUGAUGUGUCUGCC---GUGAAAUUCGCCCAA-CUUCCU-GCAGUU--------------G--------GCA--GUUCAGGCAGCCAACCGAAUUUCACGGCACCUAGA-------CU
.........(((((((---(((((((((((....-......-)).(((--------------(--------((.--((....)).)))))).))))))))))))....)))-------). ( -32.20)
>DroAna_CAF1 7709 120 + 1
CCUUGAUGUGACUCGGCAUGUGGAAGUGGGCCAGGCUGCCCUUUUGUUAAAAAAAAAGACAAAUAUUAAGUAUAAUUUCCGGGCAGCAUGGCCAACUCCAUUGCCUUUAGACCUUAGACU
..............((((.(((((.((.(((((.(((((((.((((((.........))))))(((.....)))......))))))).))))).)))))))))))............... ( -41.20)
>consensus
CCUUGAUGUGUCUGCG___GUGAAAUUCGGCCAA_CUGCCU_GAAGUU______________AUAUUCAAUGCA__UUUCAGGCGGCCAAGCGAAUUUCACGGCACCUAGA_______CU
.......(((((.......((((((((((......((((((.......................................)))))).....))))))))))))))).............. (-17.02 = -17.18 +   0.16)

alignment

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secondary structure

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dotplot

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Window 0

Location 20,350,744 – 20,350,836
Length 92
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 69.48
Mean single sequence MFE -35.00
Consensus MFE -17.31
Energy contribution -16.83
Covariance contribution -0.48
Combinations/Pair 1.35
Mean z-score -3.29
Structure conservation index 0.49
SVM decision value 4.23
SVM RNA-class probability 0.999844
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20350744 92 - 22407834
AG-------UCUAGGUGCCGUGAAAUUCGCUUGGCCGCCUGAUA--UGCAUUGAAUAU--------------AACCUC-AGGCAG-UUGGCCGAAUUUCAC---CGCAGACACAUCAAGG
.(-------(((....((.((((((((((.(..((.((((((((--((.......)))--------------)...))-)))).)-)..).))))))))))---.))))))......... ( -33.40)
>DroSec_CAF1 7755 92 - 1
AG-------UCUAGGUGCAGUGAAAUUCGCUUGGCCGCCUGAUA--UGCAUUGAAUAU--------------AACCUC-AGGCAG-UUGGCCGAAUUUCAC---CGCAGACACAUCAAGG
.(-------(((....((.((((((((((.(..((.((((((((--((.......)))--------------)...))-)))).)-)..).))))))))))---.))))))......... ( -33.40)
>DroEre_CAF1 8222 92 - 1
AG-------UCUAGGUGCCGUGAAAUUAGCUUGGCCGCCUGAAA--UCCAUUGAAUGU--------------CACUUC-AGGCAG-UUGGACGAAUUUCAC---CGCAGACACAUCAAGG
.(-------(((....((.((((((((.(.(..((.(((((((.--..(((...))).--------------...)))-)))).)-)..).).))))))))---.))))))......... ( -28.60)
>DroYak_CAF1 7663 84 - 1
AG-------UCUAGGUGCCGUGAAAUUCGGUUGGCUGCCUGAAC--UGC--------C--------------AACUGC-AGGAAG-UUGGGCGAAUUUCAC---GGCAGACACAUCAAGG
.(-------(((....(((((((((((((.(..(((.((((...--...--------.--------------.....)-))).))-)..).))))))))))---)))))))......... ( -38.40)
>DroAna_CAF1 7709 120 - 1
AGUCUAAGGUCUAAAGGCAAUGGAGUUGGCCAUGCUGCCCGGAAAUUAUACUUAAUAUUUGUCUUUUUUUUUAACAAAAGGGCAGCCUGGCCCACUUCCACAUGCCGAGUCACAUCAAGG
........(.((...((((.((((((.(((((.(((((((....((((....)))).(((((...........))))).))))))).))))).)).))))..)))).)).)......... ( -41.20)
>consensus
AG_______UCUAGGUGCCGUGAAAUUCGCUUGGCCGCCUGAAA__UGCAUUGAAUAU______________AACCUC_AGGCAG_UUGGCCGAAUUUCAC___CGCAGACACAUCAAGG
..............(((..((((((((((.(..((.((((.......................................)))).).)..).))))))))))...)))............. (-17.31 = -16.83 +  -0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:31:54 2006