Locus 6561

Sequence ID	3R_DroMel_CAF1
Location	17,281,366 – 17,281,463
Length	97
Max. P	0.962388

overview

Window 1

Location	17,281,366 – 17,281,463
Length	97
Sequences	5
Columns	103
Reading direction	forward
Mean pairwise identity	71.91
Mean single sequence MFE	-18.94
Consensus MFE	-5.36
Energy contribution	-5.68
Covariance contribution	0.32
Combinations/Pair	1.21
Mean z-score	-2.14
Structure conservation index	0.28
SVM decision value	1.54
SVM RNA-class probability	0.962388
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17281366 97 + 27905053
UUGAUACUUAGUAUCACUUAAAAGUGUACAUCAAUUUAAAGAUUUCCUUUUGGAGGAAGUAU------GGGGUAGUAUCCCAUACUUUGAAAGUAUUUUCAAA
..(((((((.(((.((((....))))))).((...........((((....))))(((((((------(((((...)))))))))))))))))))))...... ( -27.70)
>DroSec_CAF1 14064 88 + 1
UUGAUACUUAGUAUCACAUAAAAGUGUACAUCAAUUUAAAGAUUUCUUUUCGGAGUAAAUGU---------------CCCAAUACUUUGAAAGUAUUUUCGAA
..(((((((.(((.(((......))))))....................((((((((.....---------------.....)))))))))))))))...... ( -14.30)
>DroSim_CAF1 14332 80 + 1
UUGAUACUUAGUAUCACUUUAAAGUGUACAUCAAU--------UUCCUUUCGGAGUAAAUGU---------------CCCAAUACUUUAAAAAUAUUUUCAAA
.((((((...)))))).((((((((((((((....--------((((....))))...))))---------------....))))))))))............ ( -15.10)
>DroEre_CAF1 15719 94 + 1
UUGAUACUUAGUAUCACUUUAAUGUGCACAUCAAUUUAAGGAUUUCCUUAGCAAGUCACUCU--CAAUGCG-AA------AGUACUUUGAAAGUAUUCUCAAA
((((.((((.((..(((......))).))......((((((....)))))).)))).(((.(--((((((.-..------.)))..)))).)))....)))). ( -16.90)
>DroYak_CAF1 15482 102 + 1
GCGAUACUUAGUAUCACUUAAAAGUGCUCAUCAAUUUAAGGAUUUCCUUUGGAAGUCACUGUCACAAUGCG-UACCCUUCAGUACCCUAAAGGUGUUUUUAAA
..(((((...)))))..((((((((((.(((.......(((((((((...))))))).))......))).)-)))((((.((....)).))))...)))))). ( -20.72)
>consensus
UUGAUACUUAGUAUCACUUAAAAGUGUACAUCAAUUUAAAGAUUUCCUUUCGGAGUAAAUGU______G_G__A___CCCAAUACUUUGAAAGUAUUUUCAAA
..(((((((((((((((......))).................((((....))))..........................)))))....)))))))...... ( -5.36 =  -5.68 +   0.32)

alignment

secondary structure

dotplot

Window 2

Location	17,281,366 – 17,281,463
Length	97
Sequences	5
Columns	103
Reading direction	reverse
Mean pairwise identity	71.91
Mean single sequence MFE	-19.40
Consensus MFE	-6.08
Energy contribution	-5.92
Covariance contribution	-0.16
Combinations/Pair	1.39
Mean z-score	-2.09
Structure conservation index	0.31
SVM decision value	1.37
SVM RNA-class probability	0.947019
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17281366 97 - 27905053
UUUGAAAAUACUUUCAAAGUAUGGGAUACUACCCC------AUACUUCCUCCAAAAGGAAAUCUUUAAAUUGAUGUACACUUUUAAGUGAUACUAAGUAUCAA
.......((((((((((.(((((((.......)))------))))(((((.....))))).........)))).(((((((....)))).))).))))))... ( -22.60)
>DroSec_CAF1 14064 88 - 1
UUCGAAAAUACUUUCAAAGUAUUGGG---------------ACAUUUACUCCGAAAAGAAAUCUUUAAAUUGAUGUACACUUUUAUGUGAUACUAAGUAUCAA
.......((((((((((....(((((---------------........)))))((((....))))...)))).((((((......))).))).))))))... ( -12.30)
>DroSim_CAF1 14332 80 - 1
UUUGAAAAUAUUUUUAAAGUAUUGGG---------------ACAUUUACUCCGAAAGGAA--------AUUGAUGUACACUUUAAAGUGAUACUAAGUAUCAA
...........(((((((((......---------------(((((...(((....))).--------...)))))..)))))))))((((((...)))))). ( -18.00)
>DroEre_CAF1 15719 94 - 1
UUUGAGAAUACUUUCAAAGUACU------UU-CGCAUUG--AGAGUGACUUGCUAAGGAAAUCCUUAAAUUGAUGUGCACAUUAAAGUGAUACUAAGUAUCAA
........(((((((((.((...------..-.)).)))--))))))......(((((....)))))..((((((....))))))..((((((...)))))). ( -21.20)
>DroYak_CAF1 15482 102 - 1
UUUAAAAACACCUUUAGGGUACUGAAGGGUA-CGCAUUGUGACAGUGACUUCCAAAGGAAAUCCUUAAAUUGAUGAGCACUUUUAAGUGAUACUAAGUAUCGC
.......((.(((((((....))))))))).-.......(((.((((.(((.((((((....)))....)))..))))))).))).(((((((...))))))) ( -22.90)
>consensus
UUUGAAAAUACUUUCAAAGUAUUGGA___U__C_C______ACAGUUACUCCCAAAGGAAAUCCUUAAAUUGAUGUACACUUUUAAGUGAUACUAAGUAUCAA
(((((((....)))))))((((...........................(((....))).(((........))))))).........((((((...)))))). ( -6.08 =  -5.92 +  -0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:24:34 2006