Locus 7745

Sequence ID	3R_DroMel_CAF1
Location	20,786,146 – 20,786,306
Length	160
Max. P	0.995747

overview

Window 1

Location	20,786,146 – 20,786,266
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	97.22
Mean single sequence MFE	-39.17
Consensus MFE	-38.76
Energy contribution	-38.43
Covariance contribution	-0.33
Combinations/Pair	1.09
Mean z-score	-1.68
Structure conservation index	0.99
SVM decision value	0.53
SVM RNA-class probability	0.769687
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20786146 120 - 27905053
CUGCCUGGCCAGCAACGCCCACAUUUGUGGGAUGCUGGAUGCAAUUCGUCUACGUCAAGCGGGCACUAAAAAUAAAAUGCCCCCGGCUGGAUUCGAAGUUGAUUCAUUCCGUUCUGUGCU
((((.(((((((((...(((((....))))).)))))((((.....))))...)))).))))((((............(((...))).(((...(((.....)))..))).....)))). ( -38.70)
>DroSec_CAF1 1936 120 - 1
CUGCCUGGCCAGCAACGCCUACAUUUGUGGGAUGUUGGAUGCAAUUCGUCUACGUCAGGCGGGCACUAAAAAUAAAAUGCCCCCGGCUGGAUUCGAAGUUGAUUCAUUCCAUUCUGUUCU
..(((((((...((((((((((....))))).)))))((((.....))))...)))))))(((((............)))))..(..((((...(((.....)))..))))..)...... ( -38.30)
>DroSim_CAF1 1922 120 - 1
CUGCCUGGCCAGCAACGCCUACAUUUGUGGGAUGCUGGAUGCAAUUCGUCUACGUCAGGCGGGCACUAAAAAUAAAAUGCCCCCGGCUGGAUUCGAAGUUGAUUCAUUCCAUUCUGUUCU
..((((((((((((...(((((....))))).)))))((((.....))))...)))))))(((((............)))))..(..((((...(((.....)))..))))..)...... ( -40.50)
>consensus
CUGCCUGGCCAGCAACGCCUACAUUUGUGGGAUGCUGGAUGCAAUUCGUCUACGUCAGGCGGGCACUAAAAAUAAAAUGCCCCCGGCUGGAUUCGAAGUUGAUUCAUUCCAUUCUGUUCU
..((((((((((((...(((((....))))).)))))((((.....))))...)))))))(((((............)))))..(..((((...(((.....)))..))))..)...... (-38.76 = -38.43 +  -0.33)

alignment

secondary structure

dotplot

Window 2

Location	20,786,186 – 20,786,306
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	96.10
Mean single sequence MFE	-42.73
Consensus MFE	-42.93
Energy contribution	-42.60
Covariance contribution	-0.33
Combinations/Pair	1.08
Mean z-score	-3.33
Structure conservation index	1.00
SVM decision value	2.61
SVM RNA-class probability	0.995747
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20786186 120 - 27905053
GUGAUCUUGGCUAUUUUUUUUUUAAUUGCCUCGACCGUGUCUGCCUGGCCAGCAACGCCCACAUUUGUGGGAUGCUGGAUGCAAUUCGUCUACGUCAAGCGGGCACUAAAAAUAAAAUGC
..(.((..(((.(((........))).)))..)).)((((((((.(((((((((...(((((....))))).)))))((((.....))))...)))).)))))))).............. ( -40.90)
>DroSec_CAF1 1976 119 - 1
GUGAUCUUGGCUAUUUUU-UUUUAAUUGCUUGGACCGUGUCUGCCUGGCCAGCAACGCCUACAUUUGUGGGAUGUUGGAUGCAAUUCGUCUACGUCAGGCGGGCACUAAAAAUAAAAUGC
..(.(((.(((.(((...-....))).))).))).)(((((((((((((...((((((((((....))))).)))))((((.....))))...))))))))))))).............. ( -42.30)
>DroSim_CAF1 1962 118 - 1
GUGAUCUUGGCUAUUUU--UUUUAAUUGCUUGGACCGUGUCUGCCUGGCCAGCAACGCCUACAUUUGUGGGAUGCUGGAUGCAAUUCGUCUACGUCAGGCGGGCACUAAAAAUAAAAUGC
..(.(((.(((.(((..--....))).))).))).)((((((((((((((((((...(((((....))))).)))))((((.....))))...))))))))))))).............. ( -45.00)
>consensus
GUGAUCUUGGCUAUUUUU_UUUUAAUUGCUUGGACCGUGUCUGCCUGGCCAGCAACGCCUACAUUUGUGGGAUGCUGGAUGCAAUUCGUCUACGUCAGGCGGGCACUAAAAAUAAAAUGC
..(.((..(((.(((........))).)))..)).)((((((((((((((((((...(((((....))))).)))))((((.....))))...))))))))))))).............. (-42.93 = -42.60 +  -0.33)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:53:39 2006