Locus 959

Sequence ID X_DroMel_CAF1
Location 2,722,316 – 2,722,423
Length 107
Max. P 0.874971
window1559

overview

Window 9

Location 2,722,316 – 2,722,423
Length 107
Sequences 6
Columns 118
Reading direction reverse
Mean pairwise identity 78.64
Mean single sequence MFE -27.93
Consensus MFE -21.50
Energy contribution -22.67
Covariance contribution 1.17
Combinations/Pair 1.00
Mean z-score -1.53
Structure conservation index 0.77
SVM decision value 0.89
SVM RNA-class probability 0.874971
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2722316 107 - 22224390
CCUUCAUU-CUCUG---CAUCCGGUGGGCGUGGCCA--CGGCUUCUAGGCCAACUUCCAAAAAAAAAAAA-AACACAUUUCAAUUUUCCACAUGGGAAAUG----UCGCGCGCCGAAC
........-.....---....(((((.((((((((.--.........)))))..................-...........(((((((....))))))).----.))).)))))... ( -27.90)
>DroSec_CAF1 110919 100 - 1
CCUCCAUU-CUCCG---CAUCCGGUGGGCGUGGCCA--CGGCUUCUAGGCCAACUUCGAAA-------AA-AACACAUUUAAAUUUUCCACAUGGGAAAUG----UCGCGCGCCGAAC
......((-(.(((---(.....))))(((((((..--.((((....))))..........-------..-...........(((((((....))))))))----))))))...))). ( -28.00)
>DroSim_CAF1 98981 100 - 1
CCUCCAUU-CUCCG---CAUCCGGUGGGCGUGGCCA--CGGCUUCUAGGCCAACUUCGAAA-------AA-AACACAUUUCAAUUUUCCACAUGGGAAAUG----UCGCGCGCCGAAC
......((-(.(((---(.....))))(((((((..--.((((....))))......((((-------..-......)))).(((((((....))))))))----))))))...))). ( -28.50)
>DroEre_CAF1 125421 90 - 1
AC---------------CAUCCGGUGGGCGUGGCCA--CGGCUUCUAGGCCAACUCCGAAA-------AAAAGCACAUUUCAAUUUUCCACAUGGGAAAUG----UCGCGCGCCGAAC
..---------------....(((((.((((((((.--.........))))).........-------..............(((((((....))))))).----.))).)))))... ( -27.90)
>DroWil_CAF1 184076 110 - 1
CCACCACUGCUCCCAAUUGUGCUGUGGGCAUGGCAAAACGCAUUUCA-ACGCAUUUCUAGC------CAA-AACACAUUUCAAUUUUCCACAUGGGAAAUGCCUGCCGAGCGCCGAAC
...((((.((.(......).)).))))((.(((((....(((((((.-..((.......))------...-................((....))))))))).))))).))....... ( -27.20)
>DroYak_CAF1 119919 88 - 1
AC---------------CAUCCGGUGGGCGUGGCCA--CGGCUUCUAGGCCAACUCCGAAA-------AAA--CACAUUUCAAUUUUCCACAUGGGAAAUG----UCGCGCGCCGAAC
..---------------....(((((.((((((((.--.........))))).....((((-------...--....)))).(((((((....))))))).----.))).)))))... ( -28.10)
>consensus
CCUCCAUU_CUCCG___CAUCCGGUGGGCGUGGCCA__CGGCUUCUAGGCCAACUUCGAAA_______AA_AACACAUUUCAAUUUUCCACAUGGGAAAUG____UCGCGCGCCGAAC
.....................(((((.((((((((............)))))..............................(((((((....)))))))......))).)))))... (-21.50 = -22.67 +   1.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:58:09 2006