Locus 8759

Sequence ID	3R_DroMel_CAF1
Location	23,378,991 – 23,379,094
Length	103
Max. P	0.999607

overview

Window 6

Location	23,378,991 – 23,379,094
Length	103
Sequences	5
Columns	103
Reading direction	forward
Mean pairwise identity	95.15
Mean single sequence MFE	-38.98
Consensus MFE	-33.98
Energy contribution	-34.14
Covariance contribution	0.16
Combinations/Pair	1.03
Mean z-score	-2.99
Structure conservation index	0.87
SVM decision value	3.78
SVM RNA-class probability	0.999607
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23378991 103 + 27905053
CUGCCAGUCACGAAGGGUAUGCUGCAAUUGCUGAACCGCCCAGAAGUGAGGCAAGUCUUUCGUGACUGUGUAAUGGGAAUGCAGCGUCACCGGUGACACAUAA
.((((((((((((((((..((((.((....(((.......)))...)).))))..))))))))))))).)))...........(.((((....)))).).... ( -37.20)
>DroSec_CAF1 4610 103 + 1
UUGCCAGUCACGAAGGGUAUGCUGCAAUUGCUGAACCGCCCAGAAGUGAGGCAAGUCUUUCGUGACUGAGUAAUGGGAAUGCAGCGUCACCGGUGACACAUAA
(((((((((((((((((..((((.((....(((.......)))...)).))))..))))))))))))).))))..........(.((((....)))).).... ( -37.80)
>DroSim_CAF1 4749 103 + 1
UUGCCAGGCACGAAGGGUAUGCUGCAAUUGGUGAACCGCCCAGAAGUGAGGCAAGUCUUUCGUGACUGAGUAAUGGGAAUGCAGCGUCACCGGUGACACAUAA
(((((((.(((((((((..((((.((.((((........))))...)).))))..))))))))).))).))))..........(.((((....)))).).... ( -32.60)
>DroEre_CAF1 4560 103 + 1
UUGCCAGUCACGAAGGGUAUGCUGCAAUUGCUGCACCGCCCAAAAGUGAGGCAAGCCUUUCGUGACUGAGUAAUAGGCAUGCACCGUCAUCGGUGACACAUAA
((((((((((((((((((.(((.((....)).)))..(((((....)).)))..)))))))))))))).))))......(((((((....))))).))..... ( -45.10)
>DroYak_CAF1 4540 103 + 1
UUGCCAGUCACGAAGGGUAUGCUGCAAUUGCUGAACCGCCCAAAAGUGAGGCAAGCCUUUCGUGACUGAGUAAUGGGAAUGCACCGUCACCGGUGACACAUAA
((((((((((((((((((.((((((....)).....(((......))).)))).)))))))))))))).))))......(((((((....))))).))..... ( -42.20)
>consensus
UUGCCAGUCACGAAGGGUAUGCUGCAAUUGCUGAACCGCCCAGAAGUGAGGCAAGUCUUUCGUGACUGAGUAAUGGGAAUGCAGCGUCACCGGUGACACAUAA
(((((((((((((((((..((((...(((..((.......))..)))..))))..))))))))))))).))))............((((....))))...... (-33.98 = -34.14 +   0.16)

alignment

secondary structure

dotplot

Window 7

Location	23,378,991 – 23,379,094
Length	103
Sequences	5
Columns	103
Reading direction	reverse
Mean pairwise identity	95.15
Mean single sequence MFE	-33.82
Consensus MFE	-27.12
Energy contribution	-27.60
Covariance contribution	0.48
Combinations/Pair	1.04
Mean z-score	-2.17
Structure conservation index	0.80
SVM decision value	1.22
SVM RNA-class probability	0.932735
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23378991 103 - 27905053
UUAUGUGUCACCGGUGACGCUGCAUUCCCAUUACACAGUCACGAAAGACUUGCCUCACUUCUGGGCGGUUCAGCAAUUGCAGCAUACCCUUCGUGACUGGCAG
....((((((....))))))...............((((((((((.((.((((((.......)))))).)).((....)).........)))))))))).... ( -33.00)
>DroSec_CAF1 4610 103 - 1
UUAUGUGUCACCGGUGACGCUGCAUUCCCAUUACUCAGUCACGAAAGACUUGCCUCACUUCUGGGCGGUUCAGCAAUUGCAGCAUACCCUUCGUGACUGGCAA
....((((((....))))))..............(((((((((((.((.((((((.......)))))).)).((....)).........)))))))))))... ( -32.80)
>DroSim_CAF1 4749 103 - 1
UUAUGUGUCACCGGUGACGCUGCAUUCCCAUUACUCAGUCACGAAAGACUUGCCUCACUUCUGGGCGGUUCACCAAUUGCAGCAUACCCUUCGUGCCUGGCAA
.....(((((..(((((.(((((.............((((......))))..((........)))))))))))).......((((.......)))).))))). ( -25.70)
>DroEre_CAF1 4560 103 - 1
UUAUGUGUCACCGAUGACGGUGCAUGCCUAUUACUCAGUCACGAAAGGCUUGCCUCACUUUUGGGCGGUGCAGCAAUUGCAGCAUACCCUUCGUGACUGGCAA
....(((.(((((....)))))))).........(((((((((((.((..(((((.......)))))((((.((....)).)))).)).)))))))))))... ( -38.70)
>DroYak_CAF1 4540 103 - 1
UUAUGUGUCACCGGUGACGGUGCAUUCCCAUUACUCAGUCACGAAAGGCUUGCCUCACUUUUGGGCGGUUCAGCAAUUGCAGCAUACCCUUCGUGACUGGCAA
....(((.(((((....)))))))).........(((((((((((.((..(((((((....)))).......((....)).)))..)).)))))))))))... ( -38.90)
>consensus
UUAUGUGUCACCGGUGACGCUGCAUUCCCAUUACUCAGUCACGAAAGACUUGCCUCACUUCUGGGCGGUUCAGCAAUUGCAGCAUACCCUUCGUGACUGGCAA
....(((.((.((....)).)))))..........((((((((((.((.((((((.......)))))).)).((....)).........)))))))))).... (-27.12 = -27.60 +   0.48)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:19:02 2006