Locus 3625

Sequence ID	X_DroMel_CAF1
Location	9,700,875 – 9,700,980
Length	105
Max. P	0.988206

overview

Window 4

Location	9,700,875 – 9,700,980
Length	105
Sequences	5
Columns	108
Reading direction	forward
Mean pairwise identity	90.99
Mean single sequence MFE	-30.53
Consensus MFE	-24.62
Energy contribution	-25.26
Covariance contribution	0.64
Combinations/Pair	1.03
Mean z-score	-1.74
Structure conservation index	0.81
SVM decision value	0.82
SVM RNA-class probability	0.859209
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9700875 105 + 22224390
GAUCCGGGGGCGUGGCACAUGCUGUUGCCUAAAA--AAACGAAUUUCCGCCACGCCCACCAAACAACAAUAAA-CUUGCGCUGUUUUGUCGUCCCCAUAAGGGGCACA
(((..(((((((((((....((....))......--....(......)))))))))).))(((((.(((....-.)))...))))).)))((((((....)))).)). ( -33.90)
>DroSec_CAF1 42379 107 + 1
GAUCCGGGGGCGUGGCACAUGCUCUUGCCUAAAAAAAAACUAAUUUCCGCCACGCCCACCAAACAACAAUAAA-CUUACGCUGUUUUGUCGUCCCCAUAAGGGGCACA
(((..(((((((((((....((....))......(((......)))..))))))))).))..........(((-(.......)))).)))((((((....)))).)). ( -32.00)
>DroSim_CAF1 16804 106 + 1
GAUCCGGGGGCGUGGCACAUGCUGUUGCCUAAAA-AAAACUAAUUUCCGCCACGCCCACCAAACAACAAUAAA-CUUACGCUGUUUUGUCGUCCCCAUAAGGGGCACA
(((..(((((((((((.......(((........-..)))........))))))))).))..........(((-(.......)))).)))((((((....)))).)). ( -32.66)
>DroEre_CAF1 19815 105 + 1
GAUCCGGGGGCGUGGCACGCGCUGUCGCCUACGA--AAACUAAUUUCCGCCACGACCACCAAACAACAAUAAA-CUGGCGCUGUUUUGUCGUCCCCAUAAGAGGCACA
.....(((((((((((..(((....)))....((--((.....)))).)))))(((....(((((.((.....-.))....))))).)))))))))............ ( -28.50)
>DroYak_CAF1 18526 106 + 1
GAUCCGGGGGCGUGGCACACGCUGUCGCCUACAA--AAACUAAUUUCCGCCACGACCACCAAACAACAAUGUUUGUUUUGCUGUUUUGUCGUUCCCAUAAGAGGCACA
.....(..((((((((....)))).))))..)..--............((((((((....(((((.(((........))).))))).)))))((......)))))... ( -25.60)
>consensus
GAUCCGGGGGCGUGGCACAUGCUGUUGCCUAAAA__AAACUAAUUUCCGCCACGCCCACCAAACAACAAUAAA_CUUACGCUGUUUUGUCGUCCCCAUAAGGGGCACA
(((..(((((((((((....((....))........(((....)))..))))))))).))(((((.(............).))))).)))((((((....)))).)). (-24.62 = -25.26 +   0.64)

alignment

secondary structure

dotplot

Window 5

Location	9,700,875 – 9,700,980
Length	105
Sequences	5
Columns	108
Reading direction	reverse
Mean pairwise identity	90.99
Mean single sequence MFE	-38.74
Consensus MFE	-32.72
Energy contribution	-33.12
Covariance contribution	0.40
Combinations/Pair	1.06
Mean z-score	-2.12
Structure conservation index	0.84
SVM decision value	2.11
SVM RNA-class probability	0.988206
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9700875 105 - 22224390
UGUGCCCCUUAUGGGGACGACAAAACAGCGCAAG-UUUAUUGUUGUUUGGUGGGCGUGGCGGAAAUUCGUUU--UUUUAGGCAACAGCAUGUGCCACGCCCCCGGAUC
.((.((((....))))))(((((...(((....)-))..)))))((((((.((((((((((((((......)--)))).(....).......))))))))))))))). ( -43.50)
>DroSec_CAF1 42379 107 - 1
UGUGCCCCUUAUGGGGACGACAAAACAGCGUAAG-UUUAUUGUUGUUUGGUGGGCGUGGCGGAAAUUAGUUUUUUUUUAGGCAAGAGCAUGUGCCACGCCCCCGGAUC
.((.((((....))))))(((((...(((....)-))..)))))((((((.((((((((((((((........)))))..((....))....))))))))))))))). ( -42.10)
>DroSim_CAF1 16804 106 - 1
UGUGCCCCUUAUGGGGACGACAAAACAGCGUAAG-UUUAUUGUUGUUUGGUGGGCGUGGCGGAAAUUAGUUUU-UUUUAGGCAACAGCAUGUGCCACGCCCCCGGAUC
.((.((((....))))))(((((...(((....)-))..)))))((((((.((((((((((((((........-)))).(....)......)))))))))))))))). ( -42.10)
>DroEre_CAF1 19815 105 - 1
UGUGCCUCUUAUGGGGACGACAAAACAGCGCCAG-UUUAUUGUUGUUUGGUGGUCGUGGCGGAAAUUAGUUU--UCGUAGGCGACAGCGCGUGCCACGCCCCCGGAUC
.((.((((....))))))(((((...(((....)-))..)))))((((((.((.(((((((((((.....))--))....(((....))).))))))).)))))))). ( -34.20)
>DroYak_CAF1 18526 106 - 1
UGUGCCUCUUAUGGGAACGACAAAACAGCAAAACAAACAUUGUUGUUUGGUGGUCGUGGCGGAAAUUAGUUU--UUGUAGGCGACAGCGUGUGCCACGCCCCCGGAUC
...........((((.(((((.(((((((((........)))))))))....)))))((((((((.....))--))(((.(((....))).)))..)))))))).... ( -31.80)
>consensus
UGUGCCCCUUAUGGGGACGACAAAACAGCGCAAG_UUUAUUGUUGUUUGGUGGGCGUGGCGGAAAUUAGUUU__UUUUAGGCAACAGCAUGUGCCACGCCCCCGGAUC
.((.((((....))))))....((((((((..........))))))))((.((((((((((.(.....((((......)))).......).))))))))))))..... (-32.72 = -33.12 +   0.40)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:04:05 2006