Locus 9186

Sequence ID	3R_DroMel_CAF1
Location	24,498,070 – 24,498,169
Length	99
Max. P	0.943654

overview

Window 5

Location	24,498,070 – 24,498,169
Length	99
Sequences	5
Columns	99
Reading direction	forward
Mean pairwise identity	83.84
Mean single sequence MFE	-28.52
Consensus MFE	-22.36
Energy contribution	-23.24
Covariance contribution	0.88
Combinations/Pair	1.10
Mean z-score	-2.22
Structure conservation index	0.78
SVM decision value	1.34
SVM RNA-class probability	0.943654
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24498070 99 + 27905053
UCAUUUUCCGUCUAGAUGUCGCACGCGUGCGGUUUUGAAUUCUCAAUAGUGGGCGCCAAAAAGCAUCGACUAGCGCCAUCUAUUAACAAAAGUACAUAU
............((((((.(((..((((.((.(.((((....)))).).)).)))).....((......)).))).))))))................. ( -21.20)
>DroSec_CAF1 40986 99 + 1
UUAUUUUCCGUUUAGAUGUCGCACGCGUGCGGUUUCGAAUUCUCAAUAGUGGGCGCCAGACAUCAUCGACUGGCGCCAUCUAUUAUCAAAAGUACUUAU
.((((((.......((..(((((....)))))..))........(((((..((((((((.(......).))))))))..)))))....))))))..... ( -29.40)
>DroSim_CAF1 52914 99 + 1
AUUUUGUCCGUCUAGAUGUCGCACGCGUGCGGUUUCGAAUUCUCAAUAGUGGGCGCCAGACAUCGUCGACUGGCGCCAUCUAUUGUCAAAAGUACUUAU
.(((((........((..(((((....)))))..)).......((((((..((((((((.(......).))))))))..)))))).)))))........ ( -32.60)
>DroEre_CAF1 49835 91 + 1
UUAGUUUCUGUCUAGAUGUCGCUCAUGUGUACUUUCGAAUUCUCAAUAGUGGGCGCCAGGCAUCAUCGUCUGGCGCCAUCUAUUAUCAGAA--------
.....(((((....((.(((((....))).))..))........(((((..((((((((((......))))))))))..)))))..)))))-------- ( -31.80)
>DroYak_CAF1 50086 99 + 1
UAAUUUUCCGCCUAGAUGUCGCACAUGUGCAGUUUCGAAUACUCAAUAGUGGGCGCCAGGCAUCAUCCACUGGCGCCAUCUAUUAUCAGAAGUACAUUU
.............((((((((((....)))...(((((....))(((((..((((((((..........))))))))..)))))....)))).)))))) ( -27.60)
>consensus
UUAUUUUCCGUCUAGAUGUCGCACGCGUGCGGUUUCGAAUUCUCAAUAGUGGGCGCCAGACAUCAUCGACUGGCGCCAUCUAUUAUCAAAAGUACAUAU
..............((..(((((....)))))..))........(((((..((((((((..........))))))))..)))))............... (-22.36 = -23.24 +   0.88)

alignment

secondary structure

dotplot

Window 6

Location	24,498,070 – 24,498,169
Length	99
Sequences	5
Columns	99
Reading direction	reverse
Mean pairwise identity	83.84
Mean single sequence MFE	-27.68
Consensus MFE	-24.90
Energy contribution	-24.38
Covariance contribution	-0.52
Combinations/Pair	1.26
Mean z-score	-1.81
Structure conservation index	0.90
SVM decision value	0.94
SVM RNA-class probability	0.885360
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24498070 99 - 27905053
AUAUGUACUUUUGUUAAUAGAUGGCGCUAGUCGAUGCUUUUUGGCGCCCACUAUUGAGAAUUCAAAACCGCACGCGUGCGACAUCUAGACGGAAAAUGA
..((((....((.(((((((..((((((((..........))))))))..))))))).))........((((....))))))))............... ( -24.50)
>DroSec_CAF1 40986 99 - 1
AUAAGUACUUUUGAUAAUAGAUGGCGCCAGUCGAUGAUGUCUGGCGCCCACUAUUGAGAAUUCGAAACCGCACGCGUGCGACAUCUAAACGGAAAAUAA
....((..((((((((((((..((((((((.(......).))))))))..)))))).....)))))).((((....))))))................. ( -28.10)
>DroSim_CAF1 52914 99 - 1
AUAAGUACUUUUGACAAUAGAUGGCGCCAGUCGACGAUGUCUGGCGCCCACUAUUGAGAAUUCGAAACCGCACGCGUGCGACAUCUAGACGGACAAAAU
........(((((.((((((..((((((((.(......).))))))))..))))))............((((....)))).............))))). ( -30.70)
>DroEre_CAF1 49835 91 - 1
--------UUCUGAUAAUAGAUGGCGCCAGACGAUGAUGCCUGGCGCCCACUAUUGAGAAUUCGAAAGUACACAUGAGCGACAUCUAGACAGAAACUAA
--------(((((.((((((..((((((((.(......).))))))))..))))))(((..(((...((....))...)))..)))...)))))..... ( -27.50)
>DroYak_CAF1 50086 99 - 1
AAAUGUACUUCUGAUAAUAGAUGGCGCCAGUGGAUGAUGCCUGGCGCCCACUAUUGAGUAUUCGAAACUGCACAUGUGCGACAUCUAGGCGGAAAAUUA
........(((((....(((((((((((((.(.......)))))))).....................((((....)))).))))))..)))))..... ( -27.60)
>consensus
AUAAGUACUUUUGAUAAUAGAUGGCGCCAGUCGAUGAUGUCUGGCGCCCACUAUUGAGAAUUCGAAACCGCACGCGUGCGACAUCUAGACGGAAAAUAA
........(((((.((((((..((((((((..........))))))))..))))))............((((....)))).........)))))..... (-24.90 = -24.38 +  -0.52)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:28:30 2006