Locus 3641

Sequence ID	3R_DroMel_CAF1
Location	9,834,328 – 9,834,429
Length	101
Max. P	0.989352

overview

Window 3

Location	9,834,328 – 9,834,429
Length	101
Sequences	5
Columns	103
Reading direction	forward
Mean pairwise identity	95.21
Mean single sequence MFE	-24.27
Consensus MFE	-20.90
Energy contribution	-21.10
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-1.68
Structure conservation index	0.86
SVM decision value	1.22
SVM RNA-class probability	0.932204
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9834328 101 + 27905053
AAUGUGCCACAUCCAUUUGUCUGGUCUUUGUCCCUUUUAUUUUUCGACAAGAAAAAGUCUGGCCAGACCAGACGCCUUCUAUCGUUAAUCCAU--UCAUGGGC
..................(((((((((..(((.......((((((.....))))))....))).)))))))))((((................--....)))) ( -23.05)
>DroSec_CAF1 40200 103 + 1
AAUGUGCCACAUCCAUUUGUCUGGUCUUUGUCCCUUUUAUUUUUCGACAAGAAAAAGUCUGGCCAGACCAGACGCCUGCGAUCGUUAAUCCAUUUUCAUGGGC
.....((((((((((..((((((((((..(((.......((((((.....))))))....))).))))))))))..)).))).)).....(((....)))))) ( -26.50)
>DroSim_CAF1 42054 103 + 1
AAUGUGCCACAUCCAUUUGUCUGGUCUUUGUCCCUUUUAUUUUUCGACAAGAAAAAGUCUGGCCAGACCAGACGCCUGCGAUCGUUAAUCCAUUUUCAUGGGC
.....((((((((((..((((((((((..(((.......((((((.....))))))....))).))))))))))..)).))).)).....(((....)))))) ( -26.50)
>DroEre_CAF1 41474 100 + 1
AAUGUGCCACAUCCAUUUGUCUGGUCUUUGUCCCUUUAUU-UUUCGACAAGAAAAAGUCUGGCCAGACCAGACGCCUUCAAUCGUUAAUCCAU--UCAUUGGC
.....((((.........(((((((((..(((......((-((((.....))))))....))).)))))))))((........))........--....)))) ( -23.10)
>DroYak_CAF1 41811 101 + 1
AAUGUGCCACAUCCAUUUGUCUGGUCUUUGUCCCUUUGUUUUUUCGACAAGAAAAAGUCUGGCCAGACCAGACGCCUUCAAUCGUUAAUCCAU--UCAUUGGC
.....((((.........(((((((((..(((.....((((((((.....))))))).).))).)))))))))((........))........--....)))) ( -22.20)
>consensus
AAUGUGCCACAUCCAUUUGUCUGGUCUUUGUCCCUUUUAUUUUUCGACAAGAAAAAGUCUGGCCAGACCAGACGCCUUCAAUCGUUAAUCCAU__UCAUGGGC
.....(((..........(((((((((..(((.......((((((.....))))))....))).)))))))))((........))...............))) (-20.90 = -21.10 +   0.20)

alignment

secondary structure

dotplot

Window 4

Location	9,834,328 – 9,834,429
Length	101
Sequences	5
Columns	103
Reading direction	reverse
Mean pairwise identity	95.21
Mean single sequence MFE	-28.98
Consensus MFE	-24.70
Energy contribution	-24.90
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-2.15
Structure conservation index	0.85
SVM decision value	2.16
SVM RNA-class probability	0.989352
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9834328 101 - 27905053
GCCCAUGA--AUGGAUUAACGAUAGAAGGCGUCUGGUCUGGCCAGACUUUUUCUUGUCGAAAAAUAAAAGGGACAAAGACCAGACAAAUGGAUGUGGCACAUU
((((((..--.........((((((((((.((((((.....)))))).))))).)))))....................(((......)))))).)))..... ( -28.90)
>DroSec_CAF1 40200 103 - 1
GCCCAUGAAAAUGGAUUAACGAUCGCAGGCGUCUGGUCUGGCCAGACUUUUUCUUGUCGAAAAAUAAAAGGGACAAAGACCAGACAAAUGGAUGUGGCACAUU
((((((....))).....((.(((.((...(((((((((..((....((((((.....))))))......))....)))))))))...))))))))))..... ( -30.50)
>DroSim_CAF1 42054 103 - 1
GCCCAUGAAAAUGGAUUAACGAUCGCAGGCGUCUGGUCUGGCCAGACUUUUUCUUGUCGAAAAAUAAAAGGGACAAAGACCAGACAAAUGGAUGUGGCACAUU
((((((....))).....((.(((.((...(((((((((..((....((((((.....))))))......))....)))))))))...))))))))))..... ( -30.50)
>DroEre_CAF1 41474 100 - 1
GCCAAUGA--AUGGAUUAACGAUUGAAGGCGUCUGGUCUGGCCAGACUUUUUCUUGUCGAAA-AAUAAAGGGACAAAGACCAGACAAAUGGAUGUGGCACAUU
((((.(.(--((.(.....).))).)....(((((((((..((....((((((.....))))-)).....))....))))))))).........))))..... ( -27.80)
>DroYak_CAF1 41811 101 - 1
GCCAAUGA--AUGGAUUAACGAUUGAAGGCGUCUGGUCUGGCCAGACUUUUUCUUGUCGAAAAAACAAAGGGACAAAGACCAGACAAAUGGAUGUGGCACAUU
((((.(.(--((.(.....).))).)....(((((((((..((....((((((.....))))))......))....))))))))).........))))..... ( -27.20)
>consensus
GCCCAUGA__AUGGAUUAACGAUCGAAGGCGUCUGGUCUGGCCAGACUUUUUCUUGUCGAAAAAUAAAAGGGACAAAGACCAGACAAAUGGAUGUGGCACAUU
(((........((......)).........(((((((((..((....((((((.....))))))......))....)))))))))..........)))..... (-24.70 = -24.90 +   0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:06:21 2006