Locus 234

Sequence ID	X_DroMel_CAF1
Location	804,140 – 804,248
Length	108
Max. P	0.987189

overview

Window 0

Location	804,140 – 804,248
Length	108
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	75.57
Mean single sequence MFE	-43.87
Consensus MFE	-24.20
Energy contribution	-24.95
Covariance contribution	0.75
Combinations/Pair	1.17
Mean z-score	-1.62
Structure conservation index	0.55
SVM decision value	0.24
SVM RNA-class probability	0.649097
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 804140 108 + 22224390
UUCUGCCUGCGUGCCCUUC------------AGGCUCUUCUUCGUGGCCUCCAGAUUGGCCACAUUGCGACCCACCAGCGCCAAAGUGGCACCUUCGCGAGCAAGAACUUGGGCGAUGGC
....(((....((((((((------------..((((......((((((........))))))...((((.......(.(((.....))).)..))))))))..)))...)))))..))) ( -40.60)
>DroPse_CAF1 601 120 + 1
CUCCGCCCGAAUGCCCUUCACCUGCUGCUGUAGGGUCUUCCGGGUGGCCUCCAGGUUAGCUACGUUGCGACCCACCAGCGCCAGAAGGGCUCCCUCGCGGGCCAAAACCUGGGCAAUGGC
....(((((...(((((((....((.((((..(((((.......(((((....)))))((......)))))))..))))))..))))))).(((....)))........)))))...... ( -48.50)
>DroEre_CAF1 592 108 + 1
UUCCGCCUGUGUGCCCUUC------------AGGUUCUUCUUGGUGGCCUCCAGAUUGGCCACAUUGCGACCCACCAGCGCCAAAGUGGCACCUUCGCGAGCCAGCACCUGGGCGAUUGC
...((((((.((((.....------------.(((((......((((((........))))))...((((.......(.(((.....))).)..))))))))).)))).))))))..... ( -39.90)
>DroWil_CAF1 592 120 + 1
UUGUACCUUAAUGCCGGCAAAUUUCUCCAGCAAAGUCUUUUGAGUGGCCUCCAAAUUGGCCACAUUGCGACCCACCAAUGACAAUUGGGCACCUUCACGUGCCAAUACCUGGGCAAUGGC
............((((.............((((..((....))((((((........)))))).))))(.((((.((((....))))(((((......)))))......)))))..)))) ( -35.80)
>DroYak_CAF1 592 108 + 1
UUCCGCCUGCGUGCCCUUG------------AGGUUCUUCUUCGUGGCCUCCAGAUUGGCCACAUUGCGGCCCACCAGCGCCAAAGUGGCGCCUUCGCGGGCCAGCACUUGGGCAAUUGC
....(((((.((((....(------------(((.....))))((((((........)))))).....(((((.(..(((((.....)))))....).))))).)))).)))))...... ( -49.90)
>DroPer_CAF1 601 120 + 1
CUCCGCCCGAAUGCCCUUCACCUGCUGCUGUAGGGUCUUCCGGGUGGCCUCCAGGUUAGCUACGUUGCGACCCACCAGCGCCAGAAGGGCUCCCUCGCGGGCCAAAACCUGGGCAAUGGC
....(((((...(((((((....((.((((..(((((.......(((((....)))))((......)))))))..))))))..))))))).(((....)))........)))))...... ( -48.50)
>consensus
UUCCGCCUGAAUGCCCUUC____________AGGGUCUUCUGGGUGGCCUCCAGAUUGGCCACAUUGCGACCCACCAGCGCCAAAGGGGCACCUUCGCGGGCCAAAACCUGGGCAAUGGC
....(((....(((((...........................((((((........)))))).((((((.........(((.....)))....))))))..........)))))..))) (-24.20 = -24.95 +   0.75)

alignment

secondary structure

dotplot

Window 1

Location	804,140 – 804,248
Length	108
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	75.57
Mean single sequence MFE	-50.70
Consensus MFE	-36.16
Energy contribution	-36.83
Covariance contribution	0.67
Combinations/Pair	1.30
Mean z-score	-2.28
Structure conservation index	0.71
SVM decision value	2.07
SVM RNA-class probability	0.987189
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 804140 108 - 22224390
GCCAUCGCCCAAGUUCUUGCUCGCGAAGGUGCCACUUUGGCGCUGGUGGGUCGCAAUGUGGCCAAUCUGGAGGCCACGAAGAAGAGCCU------------GAAGGGCACGCAGGCAGAA
(((...((((...(((..((((((((.((((((.....))))))......))))..(((((((........))))))).....))))..------------))))))).....))).... ( -46.80)
>DroPse_CAF1 601 120 - 1
GCCAUUGCCCAGGUUUUGGCCCGCGAGGGAGCCCUUCUGGCGCUGGUGGGUCGCAACGUAGCUAACCUGGAGGCCACCCGGAAGACCCUACAGCAGCAGGUGAAGGGCAUUCGGGCGGAG
((((..((....))..))))((((..(((.(((((((..((((((..(((((((......))....((((.(....)))))..)))))..)))).))....))))))).)))..)))).. ( -57.30)
>DroEre_CAF1 592 108 - 1
GCAAUCGCCCAGGUGCUGGCUCGCGAAGGUGCCACUUUGGCGCUGGUGGGUCGCAAUGUGGCCAAUCUGGAGGCCACCAAGAAGAACCU------------GAAGGGCACACAGGCGGAA
....(((((...((((((((((((...((((((.....)))))).))))))).....((((((........))))))............------------....)))))...))))).. ( -46.90)
>DroWil_CAF1 592 120 - 1
GCCAUUGCCCAGGUAUUGGCACGUGAAGGUGCCCAAUUGUCAUUGGUGGGUCGCAAUGUGGCCAAUUUGGAGGCCACUCAAAAGACUUUGCUGGAGAAAUUUGCCGGCAUUAAGGUACAA
((((.(((....))).))))..(((..(((((((((...((.(..(..((((.....((((((........))))))......))).)..)..).))...)))..))))))....))).. ( -41.80)
>DroYak_CAF1 592 108 - 1
GCAAUUGCCCAAGUGCUGGCCCGCGAAGGCGCCACUUUGGCGCUGGUGGGCCGCAAUGUGGCCAAUCUGGAGGCCACGAAGAAGAACCU------------CAAGGGCACGCAGGCGGAA
((...(((((...(((.(((((((...((((((.....)))))).)))))))))).(((((((........)))))))...........------------...))))).....)).... ( -54.10)
>DroPer_CAF1 601 120 - 1
GCCAUUGCCCAGGUUUUGGCCCGCGAGGGAGCCCUUCUGGCGCUGGUGGGUCGCAACGUAGCUAACCUGGAGGCCACCCGGAAGACCCUACAGCAGCAGGUGAAGGGCAUUCGGGCGGAG
((((..((....))..))))((((..(((.(((((((..((((((..(((((((......))....((((.(....)))))..)))))..)))).))....))))))).)))..)))).. ( -57.30)
>consensus
GCCAUUGCCCAGGUUCUGGCCCGCGAAGGUGCCACUUUGGCGCUGGUGGGUCGCAAUGUGGCCAAUCUGGAGGCCACCAAGAAGACCCU____________GAAGGGCACUCAGGCGGAA
(((..(((((..((..((((((((...((((((.....)))))).))))))))..))((((((........))))))...........................)))))....))).... (-36.16 = -36.83 +   0.67)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:39:34 2006