Locus 2296

Sequence ID X_DroMel_CAF1
Location 6,225,716 – 6,225,836
Length 120
Max. P 0.895191
window3716

overview

Window 6

Location 6,225,716 – 6,225,836
Length 120
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 83.26
Mean single sequence MFE -47.80
Consensus MFE -36.04
Energy contribution -39.10
Covariance contribution 3.06
Combinations/Pair 1.05
Mean z-score -2.04
Structure conservation index 0.75
SVM decision value 0.99
SVM RNA-class probability 0.895191
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6225716 120 + 22224390
GGUCCAAAUCCGAGCAUCUGGGGGUGGCUAUCUCGUAGCCCACAGCUUCACCAGCUCGAGCGCCAGAGCGCCUCCAGUGCGCCACCAUUGCUGGCCGCGAUGCUCCAGUUGGGCAAACUU
.((((((....((((((((((((((((((((...)))))).............((((........)))))))))))(((.((((.......))))))))))))))...))))))...... ( -52.10)
>DroSec_CAF1 93 108 + 1
GGUCCAAAUCCGAGCAUCUGGGGGUGGCUAUCCCGUAGCCCACAGCUCCUCCAGCUCGAGC---AGAGCGCCUCCAGUGCGCCACCGUUGCUGGCCGCGU---------UGGGCAAACUU
.((((((...((.(((.((((((((((((((...))))))....(((((((......))).---.)))))))))))))))((((.......))))))..)---------)))))...... ( -45.20)
>DroSim_CAF1 1234 117 + 1
GGUCCAAAUCCGAGCAUCUGGGGGUGGCUAUCCCGUAGCCCACAGCUCCUCCAGCUCGAGC---AGAGCGCCUCCAGUGCGCCACCGUUGCUGGCCGCGUUGCUCCAGUUGGGCAAACUU
.((((((....(((((.((((((((((((((...))))))....(((((((......))).---.)))))))))))).((((((.......))).)))..)))))...))))))...... ( -48.80)
>DroYak_CAF1 7672 106 + 1
GCUCCAAGUCCGAGCAUCUGGGGGUGGCUAUCCCGUAGCCCAUAGCUCCUCCAG--------------CGCCUCCGGAUCUCCGGCAUUGCUCGUCGCGAUGCUCCAGUUGGGCAAACUU
((.((((....(((.((((((((((((((((...))))))....(((.....))--------------)))))))))))))).((((((((.....))))))))....))))))...... ( -45.10)
>consensus
GGUCCAAAUCCGAGCAUCUGGGGGUGGCUAUCCCGUAGCCCACAGCUCCUCCAGCUCGAGC___AGAGCGCCUCCAGUGCGCCACCAUUGCUGGCCGCGAUGCUCCAGUUGGGCAAACUU
.((((((....((((((((((((((((((((...)))))).............((((........)))))))))))(((.((((.......))))))))))))))...))))))...... (-36.04 = -39.10 +   3.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:30:49 2006