Locus 5905

Sequence ID	X_DroMel_CAF1
Location	15,228,473 – 15,228,578
Length	105
Max. P	0.999525

overview

Window 5

Location	15,228,473 – 15,228,578
Length	105
Sequences	5
Columns	117
Reading direction	forward
Mean pairwise identity	78.19
Mean single sequence MFE	-28.90
Consensus MFE	-20.08
Energy contribution	-21.28
Covariance contribution	1.20
Combinations/Pair	1.00
Mean z-score	-3.47
Structure conservation index	0.69
SVM decision value	3.69
SVM RNA-class probability	0.999525
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15228473 105 + 22224390
UCAAUGAUGCUUACUCUCAUGCUCCUGUUACUGAAACAUAUGUUUCAACUAACAGGAGCAUGAGAAACU-------UAACGUGAAACUUAACCGGCACUGUAACCUUAACAU-----
...((..((((...((((((((((((((((.((((((....))))))..))))))))))))))))....-------....((........)).))))..))...........----- ( -36.30)
>DroSec_CAF1 48910 110 + 1
UCAAUGAUGCUUAUUCUCAUACUCCGGUUACUGAAACAUAUGUUUCUGCUAACAGGAGCAUGAGAAACU-------UAACGUGAAACUUAACCGGCACUGUAACCUUAACAUACAAG
...((..((((..(((((((.((((.(((((.(((((....))))).).)))).)))).)))))))...-------....((........)).))))..))................ ( -25.80)
>DroSim_CAF1 58204 105 + 1
UAAAUGUUGCUUAUUCUCAUAAUCCUGUUACUGAAACAUAUGUUUCUGCUAACAGGAGCAUGAGAAAUU-------UUACGUGAAACUUAACCGGCACUGUAACCUUAACUU-----
.....(((((...(((((((..(((((((((.(((((....))))).).))))))))..)))))))...-------....(((...(......).))).)))))........----- ( -30.30)
>DroEre_CAF1 50129 112 + 1
UAAAUGAUGCUUGUUCUCAUACUCCUGCAAUGGAAACAACUCUUUCUGUUAACCGGAGCAUGAGAAACGGAGCACUUAACGUGAAACUUAACCGGCACUGUAACCUCGACAU-----
.......(((((.(((((((.((((...((((((((......))))))))....)))).)))))))...)))))......(((...(......).)))..............----- ( -24.90)
>DroYak_CAF1 48780 100 + 1
UAAAUAAUGCUUGUUCUCAUACUCCUGUUAUUGAAACGGGUAUUUCUGCUAACUGGAGCAUGAGAAAGUUAACGUGACACGUGAAACUUAACCGGCACU------------U-----
.......((((.((((((((.((((.((((..((((......))))...)))).)))).))))))(((((.(((.....)))..))))).)).))))..------------.----- ( -27.20)
>consensus
UAAAUGAUGCUUAUUCUCAUACUCCUGUUACUGAAACAUAUGUUUCUGCUAACAGGAGCAUGAGAAACU_______UAACGUGAAACUUAACCGGCACUGUAACCUUAACAU_____
.......((((..(((((((.((((.((((..(((((....)))))...)))).)))).)))))))..............((........)).)))).................... (-20.08 = -21.28 +   1.20)

alignment

secondary structure

dotplot

Window 6

Location	15,228,473 – 15,228,578
Length	105
Sequences	5
Columns	117
Reading direction	reverse
Mean pairwise identity	78.19
Mean single sequence MFE	-32.68
Consensus MFE	-25.76
Energy contribution	-25.96
Covariance contribution	0.20
Combinations/Pair	1.15
Mean z-score	-3.40
Structure conservation index	0.79
SVM decision value	3.50
SVM RNA-class probability	0.999310
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15228473 105 - 22224390
-----AUGUUAAGGUUACAGUGCCGGUUAAGUUUCACGUUA-------AGUUUCUCAUGCUCCUGUUAGUUGAAACAUAUGUUUCAGUAACAGGAGCAUGAGAGUAAGCAUCAUUGA
-----(((((..(((......))).................-------...(((((((((((((((((.(((((((....))))))))))))))))))))))))..)))))...... ( -40.70)
>DroSec_CAF1 48910 110 - 1
CUUGUAUGUUAAGGUUACAGUGCCGGUUAAGUUUCACGUUA-------AGUUUCUCAUGCUCCUGUUAGCAGAAACAUAUGUUUCAGUAACCGGAGUAUGAGAAUAAGCAUCAUUGA
..((.(((((..(((......))).................-------...((((((((((((.((((.(.(((((....))))).))))).))))))))))))..))))))).... ( -32.80)
>DroSim_CAF1 58204 105 - 1
-----AAGUUAAGGUUACAGUGCCGGUUAAGUUUCACGUAA-------AAUUUCUCAUGCUCCUGUUAGCAGAAACAUAUGUUUCAGUAACAGGAUUAUGAGAAUAAGCAACAUUUA
-----..(((..(((......))).............((..-------...((((((((.((((((((.(.(((((....))))).))))))))).))))))))...)))))..... ( -29.00)
>DroEre_CAF1 50129 112 - 1
-----AUGUCGAGGUUACAGUGCCGGUUAAGUUUCACGUUAAGUGCUCCGUUUCUCAUGCUCCGGUUAACAGAAAGAGUUGUUUCCAUUGCAGGAGUAUGAGAACAAGCAUCAUUUA
-----.......(((......)))..................(((((..(((.((((((((((.((.....((((......))))....)).))))))))))))).)))))...... ( -28.40)
>DroYak_CAF1 48780 100 - 1
-----A------------AGUGCCGGUUAAGUUUCACGUGUCACGUUAACUUUCUCAUGCUCCAGUUAGCAGAAAUACCCGUUUCAAUAACAGGAGUAUGAGAACAAGCAUUAUUUA
-----.------------(((((..((.(((((..(((.....))).)))))(((((((((((.((((...(((((....)))))..)))).)))))))))))))..)))))..... ( -32.50)
>consensus
_____AUGUUAAGGUUACAGUGCCGGUUAAGUUUCACGUUA_______AGUUUCUCAUGCUCCUGUUAGCAGAAACAUAUGUUUCAGUAACAGGAGUAUGAGAAUAAGCAUCAUUUA
...................((((((...........)).............((((((((((((.((((...(((((....)))))..)))).))))))))))))...))))...... (-25.76 = -25.96 +   0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:59:17 2006