Locus 2021

Sequence ID X_DroMel_CAF1
Location 5,542,170 – 5,542,289
Length 119
Max. P 0.954963
window3286

overview

Window 6

Location 5,542,170 – 5,542,289
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 91.49
Mean single sequence MFE -39.02
Consensus MFE -31.48
Energy contribution -31.92
Covariance contribution 0.44
Combinations/Pair 1.04
Mean z-score -2.05
Structure conservation index 0.81
SVM decision value 1.45
SVM RNA-class probability 0.954963
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5542170 119 + 22224390
UACAAAGGCACCCCUCUUU-UCGCCCAGUGUACAGCUGAAUGUUGCUGCCACGCUCCAGACGUGUCGCCGCAAUUUGCAGCCAAACGCCGGCGACAUCGGCUUGGCGCCUAAAAUCAAAC
.....((((.((((.....-(((((..((((...((((...(((((.((.((((.......)))).)).)))))...))))...)))).)))))....))...)).)))).......... ( -40.20)
>DroSec_CAF1 4097 119 + 1
UACAAAGGCACCCCUCUUU-UCGCCCAGUGUACAGCUGAAUGUUGCUGCCACGCUCCAGACGUGUCGCCGCAAUUUGCAGCCAAACGCCGGCGACAUCGGCUUGGCGCCUAAAAUCAAAC
.....((((.((((.....-(((((..((((...((((...(((((.((.((((.......)))).)).)))))...))))...)))).)))))....))...)).)))).......... ( -40.20)
>DroSim_CAF1 3806 119 + 1
UACAAAGGCACCCCUCUUU-UCGCCCAGUGUACUGCUGAAUGUUGCUGCCACGCUCCAGACGUGUCGCCGCAAUUUGCAGCCAAACGCCGGCGACAUCGGCUUGGCGCCUAAAAUCAAAC
.....((((.((((.....-(((((..((((...((((...(((((.((.((((.......)))).)).)))))...))))...)))).)))))....))...)).)))).......... ( -40.20)
>DroEre_CAF1 4294 113 + 1
----A---AAGCACAUUUGUACGCCCAGUGUACUGCUGAAUGCUGCUGCCACGCUCCAGACGUGUCGCCGCAAUUUGCAGCCAAACGCCGGCGACAUCGGCUUGGCGCCUAAAAUCAAAC
----.---.(((((((((((((((...))))))....))))).))))((((.(((......(((((((((...((((....))))...))))))))).))).)))).............. ( -36.40)
>DroYak_CAF1 3985 112 + 1
----A---CAGCCCGCCUU-UUGCGCAGUGUACUGCUGAAUGUUGCUGCCACGCUCCAGACGUGUCGCCGCAAUUUGCAGCCAAACGCCGGCGACAUCGGCUUGGCGCCUAAAAUCAAAC
----.---..(((.(((..-.(((((.((((...((((...(((((.((.((((.......)))).)).)))))...))))...))))..))).))..)))..))).............. ( -38.10)
>consensus
UACAAAGGCACCCCUCUUU_UCGCCCAGUGUACUGCUGAAUGUUGCUGCCACGCUCCAGACGUGUCGCCGCAAUUUGCAGCCAAACGCCGGCGACAUCGGCUUGGCGCCUAAAAUCAAAC
....................(((((..((((...((((...(((((.((.((((.......)))).)).)))))...))))...)))).)))))....(((.....)))........... (-31.48 = -31.92 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:24:18 2006