Locus 4059

Sequence ID 3L_DroMel_CAF1
Location 11,835,319 – 11,835,437
Length 118
Max. P 0.969475
window6322

overview

Window 2

Location 11,835,319 – 11,835,437
Length 118
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 76.75
Mean single sequence MFE -32.32
Consensus MFE -15.52
Energy contribution -18.00
Covariance contribution 2.48
Combinations/Pair 1.14
Mean z-score -2.34
Structure conservation index 0.48
SVM decision value 1.64
SVM RNA-class probability 0.969475
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11835319 118 - 23771897
CAGA--GGGGCUUUGAGAGGUCAAAUAAUCGCUAAAUCAGGGAAAUGAAUAUGAGUCCCGAUCGUCUGGCUCGAUGAAAAUGUUUGGUCUCUUAAUGCCUUUUACGAUUUUAUGUCGAAU
..((--(((((.(((((((..((((((............((((.((....))...))))..(((((......)))))...))))))..))))))).))))))).((((.....))))... ( -38.70)
>DroSec_CAF1 12708 98 - 1
CAAA--GGGGCUUUGAGAGGUCAAAUAAUCGCUAAAUCAGGGGAA--AAUGCGACUUCAGAU------------------UGUUUGGUCUCUUAGUGCCCUUUAGGAUUUUAGGUCAAAU
..((--(((((.(((((((..(((((((((((....((....)).--...))(....).)))------------------))))))..))))))).)))))))..(((.....))).... ( -34.90)
>DroSim_CAF1 12183 100 - 1
CAGAGAGAGGCUUUGAGAGGUCAAAUAAUCGCUAAAUCAGGGGAA--AAUGCGACUUCAGAU------------------UGUUUGGUCUCUUAAUGCCUUUUACGAUUUUAGGUCAAAU
..(.(((((((.(((((((..(((((((((((....((....)).--...))(....).)))------------------))))))..))))))).))))))).)(((.....))).... ( -34.20)
>DroEre_CAF1 11757 115 - 1
CAA---GGGGCAUGGAAAGGUCAAAUAAUCGCUAAAUCAGGGGAG--AAUAUGACUGCAGAACGUCUGGCCCGAUGAAAAUUAUUGGUCUCUUAAUGCCGUUUACGAUUUUGUGUCGAAU
.((---(.((((((((..(((((.((..((.((......)).)).--.)).))))).(((.....)))..(((((((...)))))))..)))..))))).))).((((.....))))... ( -26.80)
>DroYak_CAF1 12683 115 - 1
CAG---GGGCCUUGGAAAGGUCAAAUAAUCGCUAAAUCAGGGUAG--AAUAUGACUUCAGAGCGUCUGACCCGAUCGAAAUUAUUGGUCCCUUAAUGCCUUUUGUGAUUUUAGGUCGAAU
..(---(((((((((...(((.........)))...)))))))..--.........((((.....)))))))((((((((((((.(((........)))....)))))))).)))).... ( -27.00)
>consensus
CAGA__GGGGCUUUGAGAGGUCAAAUAAUCGCUAAAUCAGGGGAA__AAUAUGACUUCAGAUCGUCUG_C_CGAU__AAAUGUUUGGUCUCUUAAUGCCUUUUACGAUUUUAGGUCGAAU
......(((((.(((((((..((((((.((.((.....)).))...................((((......))))....))))))..))))))).)))))....(((.....))).... (-15.52 = -18.00 +   2.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:13:33 2006