Locus 1990

Sequence ID 3L_DroMel_CAF1
Location 5,466,827 – 5,466,927
Length 100
Max. P 0.909989
window3117

overview

Window 7

Location 5,466,827 – 5,466,927
Length 100
Sequences 5
Columns 100
Reading direction forward
Mean pairwise identity 89.36
Mean single sequence MFE -26.12
Consensus MFE -22.57
Energy contribution -22.41
Covariance contribution -0.16
Combinations/Pair 1.14
Mean z-score -1.67
Structure conservation index 0.86
SVM decision value 1.07
SVM RNA-class probability 0.909989
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5466827 100 + 23771897
AAGUGCAUAUAAAUUGAAUGUAACUUUGCACUCAUGUAUGCAAACAGCGACGCACACAUUCAUACUUCGUCGAGCUGCAUGUGUAUUGGUGUGAGCGGAA
...((((((((...(((.((((....)))).)))))))))))........(((.(((((..((((..(((........))).))))..))))).)))... ( -26.50)
>DroSec_CAF1 28365 100 + 1
AAGUGCAUAUAAAUUGAAUGUAACUUUGCACUCAUGUAUGCAAACAGCGACGCACACAUUCAUACUUUGGCGACCUGCAUGUGUAUUGGUGUGAGCGGGA
...((((((((...(((.((((....)))).)))))))))))........(((.(((((..((((....((.....))....))))..))))).)))... ( -28.80)
>DroSim_CAF1 30001 100 + 1
AAGUGCAUAUAAAUUGAAUGUAACUUUGCACUCAUGUAUGCAAACAGCGACGCACACAUUCAUACUUCGGUGACCUGCAUGUGUAUUGGUGUGAGCGGGA
...((((((((...(((.((((....)))).)))))))))))........(((.(((((..((((....((.....))....))))..))))).)))... ( -27.50)
>DroEre_CAF1 27944 94 + 1
AAGUGCAUAUAAAUUGAAUGUAACUUUGCACUCAUCUAUGCAAACAGCCACUCACACAUCCAUACUUUU----UCUGCGUGUGUGUUGGUGGGAGA--AA
...((((((.....(((.((((....)))).)))..)))))).....((((((((((((.((.......----..)).)))))))..)))))....--.. ( -24.10)
>DroYak_CAF1 15768 96 + 1
AAGUGCAUAUAAAUUGAAUGUAACUUUGCACUCAUGUAUGCAAACAGCGACACACACAGCCAUACUUUU----UCUGCAUGUGUAUUGGUGUGAGUGGGA
...((((((((...(((.((((....)))).)))))))))))........(((.((((.((((((....----.........))).))))))).)))... ( -23.72)
>consensus
AAGUGCAUAUAAAUUGAAUGUAACUUUGCACUCAUGUAUGCAAACAGCGACGCACACAUUCAUACUUUG__GACCUGCAUGUGUAUUGGUGUGAGCGGGA
...((((((((...(((.((((....)))).)))))))))))........(((.((((((.((((.................)))).)))))).)))... (-22.57 = -22.41 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:21:56 2006