Locus 1100

Sequence ID X_DroMel_CAF1
Location 3,239,235 – 3,239,332
Length 97
Max. P 0.694802
window1781

overview

Window 1

Location 3,239,235 – 3,239,332
Length 97
Sequences 4
Columns 97
Reading direction reverse
Mean pairwise identity 92.52
Mean single sequence MFE -23.77
Consensus MFE -19.83
Energy contribution -20.82
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -1.67
Structure conservation index 0.83
SVM decision value 0.34
SVM RNA-class probability 0.694802
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3239235 97 - 22224390
AUAAAACCCAACUGAUGGUAAGUAACCGCAACGAAAUCGAAACCUGCAGAAGAAAUGCCUGAGUGGGCAUGAGUCAGAUUCUUUCAGGAGAAUCAAC
...........(((..(((..((....))..((....))..)))..)))..((.((((((....))))))...)).(((((((....)))))))... ( -22.00)
>DroSec_CAF1 7956 93 - 1
AUAAAACCCAACUGGUGGC----AACCGCAACGAAAUCGAAACCUGCAGAAGAAAUGCCUGAGUGGGCAUGAGUCAGAUUCUUUCAGGAGAAUCAAC
...........(((((((.----..))))..((....)).......)))..((.((((((....))))))...)).(((((((....)))))))... ( -23.00)
>DroEre_CAF1 15799 95 - 1
ACAAAACCCGACUGGUGGU--GUAACCGCAACGAAAUCGAAACCUGCAGCAGAAAUGCCUGAGUGGGCAUGAGUCAGAUUCUUUCAGGAGAAUCAUC
.........((((.(((((--(....)))..((....))...((..(.(((....)))....)..))))).)))).(((((((....)))))))... ( -26.00)
>DroYak_CAF1 15572 90 - 1
AUAAAACCCGACUGG-------UAACCGCAACGAAAUCGAAACCUGCAGAAGAAAUGCCUGAGUGGGCAUGAGUCAGAUUCUUUCAGGAGAAUCAAC
.........((((.(-------(..((((..((....)).......(((.(....)..))).))))..)).)))).(((((((....)))))))... ( -24.10)
>consensus
AUAAAACCCAACUGGUGGU___UAACCGCAACGAAAUCGAAACCUGCAGAAGAAAUGCCUGAGUGGGCAUGAGUCAGAUUCUUUCAGGAGAAUCAAC
...........(((((((.......))))..((....)).......)))..((.((((((....))))))...)).(((((((....)))))))... (-19.83 = -20.82 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:01:31 2006