Locus 7488

Sequence ID 3L_DroMel_CAF1
Location 20,098,979 – 20,099,084
Length 105
Max. P 0.548008
window12175

overview

Window 5

Location 20,098,979 – 20,099,084
Length 105
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 76.31
Mean single sequence MFE -22.25
Consensus MFE -2.60
Energy contribution -3.64
Covariance contribution 1.04
Combinations/Pair 1.28
Mean z-score -1.43
Structure conservation index 0.12
SVM decision value 0.03
SVM RNA-class probability 0.548008
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20098979 105 - 23771897
AUAAAUGUACGAUUAUGGCGAGA----GUUCAGAACGUGACU--GAGACGCAGA-AUCAUCAAUAAACUGGCUAA--AAUGAUAGAAAAAUCGAAGUCGAA------CCCCAAUCGGGAA
......((.(((((.((((.((.----((((((.......))--)).))...((-....))......)).)))).--..((((......)))).))))).)------)(((....))).. ( -18.30)
>DroSec_CAF1 13525 105 - 1
AUAAAUGUACGAUUAUGGCGAGA----GUUCAGAACGUGACU--GAGCAGCAGA-AGCAUCAAUAAACUGGCCAA--AAUUAAAGGGAAACCGAAGACGAA------CCCUAAUCGGAAA
.........((((((((((.((.----((((((.......))--)))).((...-.)).........)).)))).--.......((....)).........------...)))))).... ( -28.00)
>DroSim_CAF1 13730 105 - 1
AUAAAUGUACGAUUAUGGCGAGA----AUUCAGAACGUGACU--GAGCAGCAGA-AGCAUCAAUAAACUGGCCAA--AAUUAAAGGGAAAUCGAAGGCGAA------CCCUAAACGGAAA
.....(((..((((.((((.((.----.(((((.......))--)))..((...-.)).........)).)))).--))))..((((...(((....))).------))))..))).... ( -21.30)
>DroEre_CAF1 13210 105 - 1
AGAAAUGUACGAUUAUGGCCAGA----GUUCAGAACGUGACU--GAGCAGCAGA-AACAUCCAUAAACUGGCUGA--AAUUAAAGGCAAAUCGAAAGCGAA------CCCCAAUCGGAAA
.........(((((..((((((.----((((((.......))--))))....((-....))......))))))..--.......((....(((....))).------..))))))).... ( -22.10)
>DroAna_CAF1 12863 117 - 1
AUAAAUGCACGAUUAGGUCGAGAAAGUAUUCGGAACGUGACCCGGAGACGCAUUAGGAAUCAAUAAAAGGCCUGGGAAUGUAAACGGAAAACCAAACAAAAUAUAGGGUCUAAUAGG---
...(((((.((((...)))).....((.(((((........))))).))))))).............((((((............((....))............))))))......--- ( -21.55)
>consensus
AUAAAUGUACGAUUAUGGCGAGA____GUUCAGAACGUGACU__GAGCAGCAGA_AGCAUCAAUAAACUGGCUAA__AAUUAAAGGGAAAUCGAAGGCGAA______CCCUAAUCGGAAA
.........(((((.((((.((.......(((.....)))....((.............))......)).))))..........((....))...................))))).... ( -2.60 =  -3.64 +   1.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:48:28 2006