Locus 5835

Sequence ID X_DroMel_CAF1
Location 15,098,966 – 15,099,069
Length 103
Max. P 0.767143
window9467

overview

Window 7

Location 15,098,966 – 15,099,069
Length 103
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 77.41
Mean single sequence MFE -29.97
Consensus MFE -22.12
Energy contribution -23.17
Covariance contribution 1.04
Combinations/Pair 1.10
Mean z-score -1.18
Structure conservation index 0.74
SVM decision value 0.52
SVM RNA-class probability 0.767143
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15098966 103 - 22224390
GCAAAAUAACAGACAACUGGGCGAAAUUGCUAGC---CACCCGAUGCGAGUACAAAUGAUAUCAUUUCCA--------------CUGGGCGUGGCCAUCUGUCAUGCAUGCCGCCCAUCA
.................((((((...........---.........(.(((..(((((....)))))..)--------------)).)(((((((.....)))))))....))))))... ( -26.20)
>DroPse_CAF1 25287 80 - 1
GCAAGUCAAGACCGGACC--GCGAAA------------ACCUG---GCAG-------UGUAUCAUUCCC---------------GUGGGCGUGG-CAUCUGUCAUGCAUGCUGCCAGCCA
((..(((.......))).--))....------------..(((---((((-------(((.((((....---------------))))((((((-(....)))))))))))))))))... ( -28.50)
>DroSec_CAF1 11873 107 - 1
GCAAAAUAACAGACAACUGGGCGAAAUUGCUCGCCGACACCCGAUGCGAGUACAAAUGAUAUCAUUUCCA-------------ACGGGGCGUGGCCAUCUGUCAUGCAUGCCGCCCAUCA
.................(((((.....(((((((((.....))..))))))).(((((....)))))...-------------..((.(((((((.....)))))))...)))))))... ( -31.40)
>DroSim_CAF1 16105 107 - 1
GCAAAAUAACAGACAACUGGGCGAAAUUGCUCGCCGCCACCCGAUGCGAGUACAAAUGAUAUCAUUUCCA-------------ACGGGGCGUGGCCAUCUGUCAUGCAUGCCGCCCAUCA
(((..((.(((((.....(((((....)))))(((((..((((.((.((.....((((....))))))))-------------.))))..)))))..))))).))...)))......... ( -30.90)
>DroEre_CAF1 19680 117 - 1
AGAAAACAGCAGACAACUGGGCGAAAUUGCUCGCCG---UCCGUUGCGAGUACAAAUGAUAUCAUUUCCACUUUCCACUUUCCACUGGGCGUGGCCAUCUGUCAUGCAUGCCGCCCAUCA
.................((((((....(((((((..---......))))))).(((((....))))).......(((........)))(((((((.....)))))))....))))))... ( -31.90)
>DroYak_CAF1 16827 103 - 1
GCAAAAUAACAGACAACUGGGCGAAAUUGCUCGCCG---CCCGAUGCGAGUACAAAUGAUAUCAUUUC--------------CACUGGGCGUGGCCAUCUGUCAUGCAUGCCGCCCAUCA
.................((((((....(((((((..---......))))))).(((((....))))).--------------......(((((((.....)))))))....))))))... ( -30.90)
>consensus
GCAAAAUAACAGACAACUGGGCGAAAUUGCUCGCCG__ACCCGAUGCGAGUACAAAUGAUAUCAUUUCCA_____________ACUGGGCGUGGCCAUCUGUCAUGCAUGCCGCCCAUCA
.................((((((....(((((((...........)))))))....................................(((((((.....)))))))....))))))... (-22.12 = -23.17 +   1.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:57:29 2006