Locus 2467

Sequence ID 2L_DroMel_CAF1
Location 6,769,220 – 6,769,331
Length 111
Max. P 1.000000
window3957 window3958

overview

Window 7

Location 6,769,220 – 6,769,331
Length 111
Sequences 3
Columns 119
Reading direction forward
Mean pairwise identity 65.15
Mean single sequence MFE -27.18
Consensus MFE -19.47
Energy contribution -20.36
Covariance contribution 0.89
Combinations/Pair 1.09
Mean z-score -3.55
Structure conservation index 0.72
SVM decision value 8.05
SVM RNA-class probability 1.000000
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6769220 111 + 22407834
--GAUAC--GAUACGAAGUGCAAGGAUCAAAUACUAUCAAGGAUCAAUGAUUAAUAAAUUAACAUUUCAUUUACAAUUAUAACU----GAUCCUUGACACAAUUUUCGCCGAGCAAAGA
--.....--.........(((..((...((((....((((((((((((((((..(((((.........))))).))))))...)----)))))))))....))))...))..))).... ( -20.70)
>DroEre_CAF1 38252 87 + 1
--------AGAUUCGAGGUGCUCGGAUCAAAUGGUGUCAAGGAUAA--------UAUC------------CUGCAGUGCUAAGU----GAUCCUUGACACAAUUUUCUCCGAGCAAAGA
--------....((....((((((((..((((.(((((((((((..--------....------------..((...)).....----.))))))))))).))))..))))))))..)) ( -33.74)
>DroYak_CAF1 38350 99 + 1
ACGAUACGAGAUUCGUGGUGCAAGGAUCAAAUAGUAUCAAGGAUAG--------UACA------------UUAUAAUUAAAAGAAUUGUAUCCUUGAUACAAUUUUCUCCGAGCAAAGA
((((........))))..(((..(((..((((.((((((((((...--------....------------.(((((((.....))))))))))))))))).))))..)))..))).... ( -27.10)
>consensus
__GAUAC_AGAUUCGAGGUGCAAGGAUCAAAUAGUAUCAAGGAUAA________UAAA____________UUACAAUUAUAAGU____GAUCCUUGACACAAUUUUCUCCGAGCAAAGA
..................(((..(((..((((.((((((((((((...........................................)))))))))))).))))..)))..))).... (-19.47 = -20.36 +   0.89)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 8

Location 6,769,220 – 6,769,331
Length 111
Sequences 3
Columns 119
Reading direction reverse
Mean pairwise identity 65.15
Mean single sequence MFE -29.53
Consensus MFE -21.43
Energy contribution -21.76
Covariance contribution 0.34
Combinations/Pair 1.14
Mean z-score -4.38
Structure conservation index 0.73
SVM decision value 7.45
SVM RNA-class probability 1.000000
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6769220 111 - 22407834
UCUUUGCUCGGCGAAAAUUGUGUCAAGGAUC----AGUUAUAAUUGUAAAUGAAAUGUUAAUUUAUUAAUCAUUGAUCCUUGAUAGUAUUUGAUCCUUGCACUUCGUAUC--GUAUC--
....(((..((...((((..(((((((((((----(((.((....((((((.........))))))..)).))))))))))))))..))))...))..))).........--.....-- ( -27.10)
>DroEre_CAF1 38252 87 - 1
UCUUUGCUCGGAGAAAAUUGUGUCAAGGAUC----ACUUAGCACUGCAG------------GAUA--------UUAUCCUUGACACCAUUUGAUCCGAGCACCUCGAAUCU--------
....((((((((..((((.(((((((((((.----.(((.((...))))------------)...--------..))))))))))).))))..))))))))..........-------- ( -34.70)
>DroYak_CAF1 38350 99 - 1
UCUUUGCUCGGAGAAAAUUGUAUCAAGGAUACAAUUCUUUUAAUUAUAA------------UGUA--------CUAUCCUUGAUACUAUUUGAUCCUUGCACCACGAAUCUCGUAUCGU
....(((..(((..((((.((((((((((((..................------------....--------.)))))))))))).))))..)))..)))..(((.....)))..... ( -26.80)
>consensus
UCUUUGCUCGGAGAAAAUUGUGUCAAGGAUC____ACUUAUAAUUGUAA____________UAUA________UUAUCCUUGAUACUAUUUGAUCCUUGCACCUCGAAUCU_GUAUC__
....(((..(((..((((.((((((((((((...........................................)))))))))))).))))..)))..))).................. (-21.43 = -21.76 +   0.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:28:38 2006