Locus 7856

Sequence ID	3L_DroMel_CAF1
Location	20,999,938 – 21,000,070
Length	132
Max. P	0.896249

overview

Window 9

Location	20,999,938 – 21,000,030
Length	92
Sequences	5
Columns	92
Reading direction	reverse
Mean pairwise identity	91.74
Mean single sequence MFE	-28.24
Consensus MFE	-22.96
Energy contribution	-22.96
Covariance contribution	0.00
Combinations/Pair	1.08
Mean z-score	-1.74
Structure conservation index	0.81
SVM decision value	0.90
SVM RNA-class probability	0.877839
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20999938 92 - 23771897
UUAUUAGGCACUCGAAUCCCGGAUUCGUCGCCGGGUUUCUCCCCUCACUGGAUCCACGCGCGAUCGAUUGGCUUCCAAUUGAAAACGAUCCC
......(((...((((((...))))))..)))(((......))).....(((((..(....).((((((((...))))))))....))))). ( -26.10)
>DroSec_CAF1 17638 92 - 1
UUAUUAGGCACUCGAAUCCCGGAUUCGUCGCCGGACUUCUCCCCUCACUGGAUCCCCGCGCGUUCGAUUGGCUUCCAAUUGAAAACGAUCCC
......(((...((((((...))))))..)))(((....))).......(((((.....(..(((((((((...)))))))))..)))))). ( -25.00)
>DroSim_CAF1 25087 92 - 1
UUAUUAGGCACUCGAAUCCCGGAUUCGUCGCCGGACUUCUCUCCUCACUGGAUCCCCGCGCGUUCGAUUGGCUUCCAAUUGAAAACGAUCCC
......(((...((((((...))))))..)))(((......(((.....)))......((..(((((((((...)))))))))..)).))). ( -26.10)
>DroEre_CAF1 26200 92 - 1
UUAUUAGGCACUCGAAUCCAGAAUUCGCCGCCGGGCUUGUGCCCUCGGUGGAUCCUGGCGCGAUCGAUUGGCUUCCAAUUGAAACCGAUCCC
......((...(((...((((.((((((((..((((....)))).)))))))).))))..)))((((((((...))))))))..))...... ( -36.80)
>DroYak_CAF1 23638 92 - 1
UUAUUAGGCACUCGAAUCCCGGAUUCGUCGCCGGGCUUGUCCCCUCAGUGGAUUGUCGCGCGAUCGAUUGGCUUCCAAUUGAAAACGAUCCC
......(((...((((((...))))))..)))(((......))).....((((((((....))((((((((...))))))))...)))))). ( -27.20)
>consensus
UUAUUAGGCACUCGAAUCCCGGAUUCGUCGCCGGGCUUCUCCCCUCACUGGAUCCCCGCGCGAUCGAUUGGCUUCCAAUUGAAAACGAUCCC
......(((...((((((...))))))..)))(((......))).....(((((.........((((((((...))))))))....))))). (-22.96 = -22.96 +   0.00)

alignment

secondary structure

dotplot

Window 0

Location	20,999,973 – 21,000,070
Length	97
Sequences	5
Columns	97
Reading direction	reverse
Mean pairwise identity	91.75
Mean single sequence MFE	-20.28
Consensus MFE	-18.12
Energy contribution	-18.12
Covariance contribution	-0.00
Combinations/Pair	1.11
Mean z-score	-1.46
Structure conservation index	0.89
SVM decision value	0.99
SVM RNA-class probability	0.896249
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20999973 97 - 23771897
UCAAUGUAUUUCCAUGAAUAUCAACAUCAAUAUCAAAAGCUUAUUAGGCACUCGAAUCCCGGAUUCGUCGCCGGGUUUCUCCCCUCACUGGAUCCAC
..........(((((((.....................(((.....)))....(((.(((((........))))).))).....))).))))..... ( -19.90)
>DroSec_CAF1 17673 97 - 1
UCAAUGUAUUUCCAUGAAUAUCAACAUCAAUAUCAAAAGCUUAUUAGGCACUCGAAUCCCGGAUUCGUCGCCGGACUUCUCCCCUCACUGGAUCCCC
..........(((((((.............................(((...((((((...))))))..)))(((....)))..))).))))..... ( -17.60)
>DroSim_CAF1 25122 97 - 1
UCAAUGUAUUUCCAUGAAUAUCAACAUCAAUAUCAAAAGCUUAUUAGGCACUCGAAUCCCGGAUUCGUCGCCGGACUUCUCUCCUCACUGGAUCCCC
..........(((((((.............................(((...((((((...))))))..)))(((......)))))).))))..... ( -18.20)
>DroEre_CAF1 26235 97 - 1
UCAAUGUAUUUCCAUGAAUACCAACAUCAAUAUUAAAAGCUUAUUAGGCACUCGAAUCCAGAAUUCGCCGCCGGGCUUGUGCCCUCGGUGGAUCCUG
((...((((((....)))))).................(((.....)))....))...(((.((((((((..((((....)))).)))))))).))) ( -25.60)
>DroYak_CAF1 23673 97 - 1
UCAAUGUAUUUCCAUGAAUAUCAACAUCAAUGUUAAAAGCUUAUUAGGCACUCGAAUCCCGGAUUCGUCGCCGGGCUUGUCCCCUCAGUGGAUUGUC
..........(((((((.....((((....))))..((((((....(((...((((((...))))))..)))))))))......))).))))..... ( -20.10)
>consensus
UCAAUGUAUUUCCAUGAAUAUCAACAUCAAUAUCAAAAGCUUAUUAGGCACUCGAAUCCCGGAUUCGUCGCCGGGCUUCUCCCCUCACUGGAUCCCC
..........(((((((.............................(((...((((((...))))))..)))(((......)))))).))))..... (-18.12 = -18.12 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:58:46 2006