Locus 6586

Sequence ID	2L_DroMel_CAF1
Location	18,513,344 – 18,513,487
Length	143
Max. P	0.946999

overview

Window 2

Location	18,513,344 – 18,513,447
Length	103
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	88.71
Mean single sequence MFE	-30.88
Consensus MFE	-27.21
Energy contribution	-27.45
Covariance contribution	0.24
Combinations/Pair	1.04
Mean z-score	-1.42
Structure conservation index	0.88
SVM decision value	0.40
SVM RNA-class probability	0.719563
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18513344 103 - 22407834
ACGCGACAGAGGCAAAAACGUAUCUGAAAGCUGCCAGUCCCGGUGGCCGGGCUUAAAAGGCAAUUCACACAGACACCAAAACGGAUCUGCUGUAAGCCA-----------------AGCU
..((..((((.((......)).))))...((..((......))..))..((((((...((((((((................)))).)))).)))))).-----------------.)). ( -28.99)
>DroPse_CAF1 40482 119 - 1
CUGUGGCAGAAGCAAAAACGUAUCUGAAAGCUGCCAGUCCCGGUGGCCGGGCUUAAAAGGCAAAGCACAGAAACGCCAAAACGGAUCUGCUGUAAGCCC-CCACCGACCGAAAGAGAGCU
...((((((...((..........))....))))))....((((((..(((((((...((((.......((..((......))..)))))).)))))))-))))))..(....)...... ( -37.31)
>DroSec_CAF1 33783 103 - 1
ACGCGACAGAGGCAAAAACGUAUCUGAAAGCUGCCAGUCCCGGUGGCCGGGCUUAAAAGGCAAUUCACACAGACACCAAAACGGAUCUGCUGUAAGCCA-----------------AGCU
..((..((((.((......)).))))...((..((......))..))..((((((...((((((((................)))).)))).)))))).-----------------.)). ( -28.99)
>DroSim_CAF1 32335 103 - 1
ACGCGACAGAGGCAAAAACGUAUCUGAAAGCUGCCAGUCCCGGUGGCCGGGCUUAAAAGGCAAUUCACACAGACACCAAAACGGAUCUGCUGUAAGCCA-----------------AGCU
..((..((((.((......)).))))...((..((......))..))..((((((...((((((((................)))).)))).)))))).-----------------.)). ( -28.99)
>DroYak_CAF1 33749 110 - 1
ACGCGACAGAGGCAAAAACGUAUCUGAAAGCUGCCAGUCCCGGUGGCCGGGCUUAAAAGGCAAUUCACACAGACACCAAAACGGAUCUGCUGUAAGCCAAGCACCA----------AGCU
..((..((((.((......)).))))...((..((......))..)).((((((....(((.....(((((((..((.....)).)))).)))..))))))).)).----------.)). ( -30.10)
>consensus
ACGCGACAGAGGCAAAAACGUAUCUGAAAGCUGCCAGUCCCGGUGGCCGGGCUUAAAAGGCAAUUCACACAGACACCAAAACGGAUCUGCUGUAAGCCA_________________AGCU
..((..((((.((......)).))))...((..((......))..))..((((((...((((((((................)))).)))).))))))...................)). (-27.21 = -27.45 +   0.24)

alignment

secondary structure

dotplot

Window 3

Location	18,513,367 – 18,513,487
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	93.00
Mean single sequence MFE	-42.12
Consensus MFE	-37.48
Energy contribution	-38.24
Covariance contribution	0.76
Combinations/Pair	1.12
Mean z-score	-1.56
Structure conservation index	0.89
SVM decision value	1.37
SVM RNA-class probability	0.946999
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18513367 120 + 22407834
UUUGGUGUCUGUGUGAAUUGCCUUUUAAGCCCGGCCACCGGGACUGGCAGCUUUCAGAUACGUUUUUGCCUCUGUCGCGUUCAGAGUCAGAGUCGGAUUUAUCGUCUGGGUCUGGGUCUG
....(((((((...((.(((((.......(((((...)))))...))))).)).)))))))......((.......))...((((.(((((.((((((.....)))))).))))).)))) ( -42.80)
>DroPse_CAF1 40521 120 + 1
UUUGGCGUUUCUGUGCUUUGCCUUUUAAGCCCGGCCACCGGGACUGGCAGCUUUCAGAUACGUUUUUGCUUCUGCCACAGUCAGAGUCAGAGUCAGAGUCUGGGUCUAAGACAGAGUCUG
....((((.((((.(((..(((.......(((((...)))))...))))))...)))).))))(((((.((((((....).))))).))))).((((.((((.........)))).)))) ( -39.40)
>DroSec_CAF1 33806 120 + 1
UUUGGUGUCUGUGUGAAUUGCCUUUUAAGCCCGGCCACCGGGACUGGCAGCUUUCAGAUACGUUUUUGCCUCUGUCGCGUUCAGAGUCAGAGUCGGAUUUAUCGUCUGGGUCUGGGUCUG
....(((((((...((.(((((.......(((((...)))))...))))).)).)))))))......((.......))...((((.(((((.((((((.....)))))).))))).)))) ( -42.80)
>DroSim_CAF1 32358 120 + 1
UUUGGUGUCUGUGUGAAUUGCCUUUUAAGCCCGGCCACCGGGACUGGCAGCUUUCAGAUACGUUUUUGCCUCUGUCGCGUUCAGAGUCAGAGUCGGAUUUAUCGUCUGGGUCUGGGUCUG
....(((((((...((.(((((.......(((((...)))))...))))).)).)))))))......((.......))...((((.(((((.((((((.....)))))).))))).)))) ( -42.80)
>DroYak_CAF1 33779 120 + 1
UUUGGUGUCUGUGUGAAUUGCCUUUUAAGCCCGGCCACCGGGACUGGCAGCUUUCAGAUACGUUUUUGCCUCUGUCGCGUUCAGAGUCAGAGUCGGAUUUAUCGUCUGGGUCUGGGUCUG
....(((((((...((.(((((.......(((((...)))))...))))).)).)))))))......((.......))...((((.(((((.((((((.....)))))).))))).)))) ( -42.80)
>consensus
UUUGGUGUCUGUGUGAAUUGCCUUUUAAGCCCGGCCACCGGGACUGGCAGCUUUCAGAUACGUUUUUGCCUCUGUCGCGUUCAGAGUCAGAGUCGGAUUUAUCGUCUGGGUCUGGGUCUG
....(((((((...((.(((((.......(((((...)))))...))))).)).)))))))....................((((.(((((.((((((.....)))))).))))).)))) (-37.48 = -38.24 +   0.76)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:14:56 2006