Locus 1600

Sequence ID X_DroMel_CAF1
Location 4,595,639 – 4,595,749
Length 110
Max. P 0.578887
window2621

overview

Window 1

Location 4,595,639 – 4,595,749
Length 110
Sequences 4
Columns 110
Reading direction forward
Mean pairwise identity 88.48
Mean single sequence MFE -27.64
Consensus MFE -21.13
Energy contribution -21.07
Covariance contribution -0.06
Combinations/Pair 1.15
Mean z-score -1.49
Structure conservation index 0.76
SVM decision value 0.09
SVM RNA-class probability 0.578887
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4595639 110 + 22224390
UUUAUUCCGACCUCGCAACUGCCUUGGCUUAUAAUAAUAAUGAAAAUCAAGGAAUAUGUAGCGAACGAUGUGGCCAAGGCCAUGUGACCUGCAUAUUAGCAGGGCAACUG
............((((.((..(((((..((.............))..))))).....)).))))...(((((((....)))))))..(((((......)))))....... ( -29.62)
>DroSec_CAF1 19368 110 + 1
UUUAUUCCGACCUCGCAGCAGCCUUGGCUUAUAAUAAUAAUGAAAAUCAAGGAAUAUGUAGCGAACGAUGUGGCCAAGGCCAUGUGACCUGCAUUUAAGCAGGGCAACUG
............((((.(((.(((((..((.............))..)))))....))).))))...(((((((....)))))))..(((((......)))))....... ( -32.12)
>DroEre_CAF1 22820 100 + 1
UUUAUUCCGACCUCGGGAAUGCCUUGGCUUAUAAUAAUAAUGAAAAUCAAGGAAUAUGUAGCGAACGAUGUGGCCAAGGCCAUAUGACCUGCAUUUA-GCC---------
....(((((....)))))...(((((..((.............))..)))))...((((((.(....(((((((....)))))))..)))))))...-...--------- ( -24.72)
>DroYak_CAF1 20220 101 + 1
UUUAUUCCGACCUCGGAAAUGCCUUGGCUUAUAAUAAUAAUGAAAAUCAAGGAAUAUGUAGCGAACGAUGCGGCCAAGGCCACAUGACCUGCAUUUAAGCA---------
....(((((....)))))..(((((((((...........((.....))...........(((.....))))))))))))..........((......)).--------- ( -24.10)
>consensus
UUUAUUCCGACCUCGCAAAUGCCUUGGCUUAUAAUAAUAAUGAAAAUCAAGGAAUAUGUAGCGAACGAUGUGGCCAAGGCCAUAUGACCUGCAUUUAAGCA_________
....(((((....)))))...(((((..((.............))..)))))...((((((.(....(((((((....)))))))..)))))))................ (-21.13 = -21.07 +  -0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:14:23 2006