Locus 6574

Sequence ID	2L_DroMel_CAF1
Location	18,496,581 – 18,496,672
Length	91
Max. P	0.926411

overview

Window 8

Location	18,496,581 – 18,496,672
Length	91
Sequences	5
Columns	92
Reading direction	forward
Mean pairwise identity	92.32
Mean single sequence MFE	-24.52
Consensus MFE	-18.11
Energy contribution	-18.75
Covariance contribution	0.64
Combinations/Pair	1.05
Mean z-score	-2.87
Structure conservation index	0.74
SVM decision value	1.18
SVM RNA-class probability	0.926411
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18496581 91 + 22407834
CUGUGUCGCAGCUUCUGGUUACCUGGUUUUUAUUAAAAAAGUUAGUUUUUU-CGAACUCACCUUUCAUGGCUGCGACAGUUUGCAAUUGCAA
...((((((((((...(((...((..(((((.....)))))..))......-.(....))))......))))))))))..((((....)))) ( -23.50)
>DroSec_CAF1 17081 89 + 1
CUGUGUCGCAGCUUCUGGUUACCUGCUUUUUAUUAAA-AAGUUGGUU-UUU-CGAACUCACCUUUCAUGGCUGCGACAGUUUGCAAUUGCAA
...((((((((((...(((.(((.((((((.....))-)))).))).-...-.......)))......))))))))))..((((....)))) ( -27.30)
>DroSim_CAF1 16379 90 + 1
CUGUGUCGCAGCUUCUGGUUACCUGCUUUUUAUUAAA-AAUUUGGUUUUUU-CGAACUCACCUUUCAUGGCUGCGACAGUUUGCAAUUGCAA
...((((((((((...(((.(((....((((....))-))...))).....-.(....))))......))))))))))..((((....)))) ( -22.00)
>DroEre_CAF1 17573 90 + 1
CUGUGUCGCAGCUUCUUGUUGGCUGCUUUUUACUAAA-AAGUUGAUUUUUUU-GAACUCACCUUUCAUGGCUGCGACAGUUUGCAAUUGCAA
...((((((((((...((..((..((((((.....))-))))((((((....-))).)))))...)).))))))))))..((((....)))) ( -24.30)
>DroYak_CAF1 17084 91 + 1
CUGUGUCGCAGCUUCUUGUUAGUUGCUUCUUACUAAA-AAGUUGAUUUUUUUCAAACUCACCUUUCAUGGCUGCGACAGUUUGCAAUUGCAA
...((((((((((.(((.(((((........))))).-)))((((......)))).............))))))))))..((((....)))) ( -25.50)
>consensus
CUGUGUCGCAGCUUCUGGUUACCUGCUUUUUAUUAAA_AAGUUGGUUUUUU_CGAACUCACCUUUCAUGGCUGCGACAGUUUGCAAUUGCAA
...((((((((((...(((............(((((.....))))).............)))......))))))))))..((((....)))) (-18.11 = -18.75 +   0.64)

alignment

secondary structure

dotplot

Window 9

Location	18,496,581 – 18,496,672
Length	91
Sequences	5
Columns	92
Reading direction	reverse
Mean pairwise identity	92.32
Mean single sequence MFE	-24.72
Consensus MFE	-17.58
Energy contribution	-17.02
Covariance contribution	-0.56
Combinations/Pair	1.16
Mean z-score	-3.47
Structure conservation index	0.71
SVM decision value	1.03
SVM RNA-class probability	0.903839
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18496581 91 - 22407834
UUGCAAUUGCAAACUGUCGCAGCCAUGAAAGGUGAGUUCG-AAAAAACUAACUUUUUUAAUAAAAACCAGGUAACCAGAAGCUGCGACACAG
((((....))))..(((((((((...(((((((.((((..-....)))).)))))))............((...))....)))))))))... ( -25.10)
>DroSec_CAF1 17081 89 - 1
UUGCAAUUGCAAACUGUCGCAGCCAUGAAAGGUGAGUUCG-AAA-AACCAACUU-UUUAAUAAAAAGCAGGUAACCAGAAGCUGCGACACAG
((((....))))..(((((((((..((((((((..(((..-...-)))..))))-))))..........((...))....)))))))))... ( -25.40)
>DroSim_CAF1 16379 90 - 1
UUGCAAUUGCAAACUGUCGCAGCCAUGAAAGGUGAGUUCG-AAAAAACCAAAUU-UUUAAUAAAAAGCAGGUAACCAGAAGCUGCGACACAG
((((....))))..((((((((((((.....)))..(((.-.....(((...((-((.....))))...))).....))))))))))))... ( -21.50)
>DroEre_CAF1 17573 90 - 1
UUGCAAUUGCAAACUGUCGCAGCCAUGAAAGGUGAGUUC-AAAAAAAUCAACUU-UUUAGUAAAAAGCAGCCAACAAGAAGCUGCGACACAG
((((....))))..(((((((((..((((((((..(((.-.....)))..))))-))))((.....))............)))))))))... ( -24.20)
>DroYak_CAF1 17084 91 - 1
UUGCAAUUGCAAACUGUCGCAGCCAUGAAAGGUGAGUUUGAAAAAAAUCAACUU-UUUAGUAAGAAGCAACUAACAAGAAGCUGCGACACAG
((((....))))..(((((((((..((((((((((.(((....))).)).))))-))))((.((......)).)).....)))))))))... ( -27.40)
>consensus
UUGCAAUUGCAAACUGUCGCAGCCAUGAAAGGUGAGUUCG_AAAAAACCAACUU_UUUAAUAAAAAGCAGGUAACCAGAAGCUGCGACACAG
((((....))))..(((((((((.......(((.............)))......(((....)))...............)))))))))... (-17.58 = -17.02 +  -0.56)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:14:33 2006