Locus 648

Sequence ID X_DroMel_CAF1
Location 1,810,855 – 1,810,992
Length 137
Max. P 0.582671
window1045 window1046

overview

Window 5

Location 1,810,855 – 1,810,966
Length 111
Sequences 3
Columns 111
Reading direction forward
Mean pairwise identity 92.10
Mean single sequence MFE -42.18
Consensus MFE -36.20
Energy contribution -35.76
Covariance contribution -0.44
Combinations/Pair 1.06
Mean z-score -1.89
Structure conservation index 0.86
SVM decision value 0.10
SVM RNA-class probability 0.582671
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1810855 111 + 22224390
ACGCCAAAGUGAUUUGACCUUUUUUUUUGUCGUGUAGCCGCCCGCAUACAUAAGCAAUGCCAGGAGGCGGGCCGCCGAAGGGAUGUAGCAUCCCUUGGCGGGUGUGAGGUG
....((((....))))(((((...............(((((((((........))...(((....)))))))((((.((((((((...)))))))))))))))..))))). ( -41.63)
>DroSec_CAF1 19238 106 + 1
ACGUCAAAGUGAUUUGCCUUUU-UUUUUGUCGUGUAGCC----ACAUACAUAAGCAAUGCUAGGAGGCGGGCCGCCGAAGGGGUGUAGCAUCCCUUGGCGGGUGUGCGGUG
.(((((......((((((((((-...((((.(((((...----...)))))..))))....))))))))))(((((.((((((((...))))))))))))).)).)))... ( -39.10)
>DroSim_CAF1 21313 107 + 1
ACGUCAAAGUGAUUUGCCUUUUUUUUUUGUCGUGUAGCC----GCAUACAUAAGCAAUGCCAGGGGGCGGGCCGCCGAAGGGGUGUAGCAUCCCUUGGCGGGUGUGCGGUG
(((.(((((.((.........)).))))).)))...(((----((((((........((((....))))..(((((.((((((((...)))))))))))))))))))))). ( -45.80)
>consensus
ACGUCAAAGUGAUUUGCCUUUUUUUUUUGUCGUGUAGCC____GCAUACAUAAGCAAUGCCAGGAGGCGGGCCGCCGAAGGGGUGUAGCAUCCCUUGGCGGGUGUGCGGUG
(((.(((((...............))))).)))...(((.....(((((........((((....))))..(((((.((((((((...)))))))))))))))))).))). (-36.20 = -35.76 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 1,810,888 – 1,810,992
Length 104
Sequences 3
Columns 104
Reading direction forward
Mean pairwise identity 90.91
Mean single sequence MFE -47.13
Consensus MFE -39.28
Energy contribution -38.40
Covariance contribution -0.88
Combinations/Pair 1.12
Mean z-score -1.96
Structure conservation index 0.83
SVM decision value 0.10
SVM RNA-class probability 0.581831
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1810888 104 + 22224390
GUAGCCGCCCGCAUACAUAAGCAAUGCCAGGAGGCGGGCCGCCGAAGGGAUGUAGCAUCCCUUGGCGGGUGUGAGGUGCGGGGAGGGUUCCGCCCAUGUCGUUG
....((((((.(((((........((((....))))..(((((.((((((((...)))))))))))))))))).)).))))...(((.....)))......... ( -48.70)
>DroSec_CAF1 19270 100 + 1
GUAGCC----ACAUACAUAAGCAAUGCUAGGAGGCGGGCCGCCGAAGGGGUGUAGCAUCCCUUGGCGGGUGUGCGGUGGGGGAAGGGCUACGCCCAUGUCGUCG
...(((----.(((((........((((....))))..(((((.((((((((...)))))))))))))))))).))).((.((.((((...))))...)).)). ( -42.60)
>DroSim_CAF1 21346 100 + 1
GUAGCC----GCAUACAUAAGCAAUGCCAGGGGGCGGGCCGCCGAAGGGGUGUAGCAUCCCUUGGCGGGUGUGCGGUGGGGGAAGGGCUACGCCCAUGUCGUCG
...(((----((((((........((((....))))..(((((.((((((((...)))))))))))))))))))))).((.((.((((...))))...)).)). ( -50.10)
>consensus
GUAGCC____GCAUACAUAAGCAAUGCCAGGAGGCGGGCCGCCGAAGGGGUGUAGCAUCCCUUGGCGGGUGUGCGGUGGGGGAAGGGCUACGCCCAUGUCGUCG
...(((.....(((((........((((....))))..(((((.((((((((...)))))))))))))))))).)))..((.(.((((...)))).).)).... (-39.28 = -38.40 +  -0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:50:15 2006