Locus 7628

Sequence ID 2L_DroMel_CAF1
Location 21,179,276 – 21,179,380
Length 104
Max. P 0.807087
window12260

overview

Window 0

Location 21,179,276 – 21,179,380
Length 104
Sequences 6
Columns 115
Reading direction reverse
Mean pairwise identity 79.40
Mean single sequence MFE -27.57
Consensus MFE -19.08
Energy contribution -19.97
Covariance contribution 0.89
Combinations/Pair 1.10
Mean z-score -1.60
Structure conservation index 0.69
SVM decision value 0.64
SVM RNA-class probability 0.807087
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21179276 104 - 22407834
GCAAA-CGGGCAAACAACUG-ACGACCCAAUUCGAUGCGUUGUCAAUUAAUUCGGGCAGAUUAAUUAGUUUAUGC-GAAACUAGUUGACAUUUCAUCC--------CGGUGCCGC
.....-..((((......((-(((((.((......)).)))))))......(((((..(((((((((((((....-.)))))))))))....))..))--------))))))).. ( -29.30)
>DroVir_CAF1 20692 98 - 1
ACAAACGAGGCAAACAACUGAACGACCUAAUUCGAUGCAAAGUCAAUUAAUUUGUGCAGAUUAAUUAGUUAAGUC-GAAACUAGUUGACAUC-----G-----------GGCCGC
........(((......(((.((((..(((((.(((.....))))))))..)))).))).((((((((((.....-..))))))))))....-----.-----------.))).. ( -21.10)
>DroPse_CAF1 17686 112 - 1
GCCAA-CAGGCAAACAACUG-UCGACCUAAUUCGAUGCAAAGUCAAUUAAUUCGGGCAGAUUAAUUAGUUUGUUC-GAAACUAGUUGACAUUCCGUCCACACCGGGCUCGGCCGC
(((..-..)))........(-(((((((.....((((.((.((((((((.((((((((((((....)))))))))-)))..)))))))).)).))))......))).)))))... ( -36.10)
>DroMoj_CAF1 19941 101 - 1
AUGGGGCAGGCAAACAAGCGAACGACCUAAUUCGAUGCAAAGUCAAUUAAUUUGAGCAGAUUAAUUAGUUAAGUC-GAAACUAGUUGACAUC-----G--------CCGUGCCGC
....(((((((......(((..(((......))).)))...((((((((.(((((...((((....))))...))-)))..))))))))...-----)--------)).)))).. ( -25.90)
>DroAna_CAF1 15975 110 - 1
UCAAA-CAGACAAACAACUG-UCGACCUAAUUCGAUGCAAAGUCAAUUAAUUCGAGCAGAUUAAUUAGUUUAUGGGGAAACUAGUUGACAUUUCAUCCGC---CGCCACGGCCGC
.....-...........(((-((((..(((((.(((.....))))))))..)))).))).(((((((((((......)))))))))))..........((---((...))))... ( -23.20)
>DroPer_CAF1 17728 112 - 1
GCCAA-CAGGCAAACAACUG-UCGACCUAAUUCGAUGCAAAGUCAAUUAAUUCGGGCAGAUUAAUUAGUUUAUUC-GAAACUAGUUGACAUUCCGUCCACACCGGGCUCGGCCGC
(((..-..)))........(-(((((((.....((((.((.((((((((.((((((.(((((....))))).)))-)))..)))))))).)).))))......))).)))))... ( -29.80)
>consensus
GCAAA_CAGGCAAACAACUG_ACGACCUAAUUCGAUGCAAAGUCAAUUAAUUCGGGCAGAUUAAUUAGUUUAUUC_GAAACUAGUUGACAUU_C_UCC________CUCGGCCGC
........(((......(((.((((..(((((.(((.....))))))))..)))).))).(((((((((((......)))))))))))......................))).. (-19.08 = -19.97 +   0.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:41:26 2006