Locus 1633

Sequence ID	3L_DroMel_CAF1
Location	4,758,042 – 4,758,149
Length	107
Max. P	0.867936

overview

Window 8

Location	4,758,042 – 4,758,149
Length	107
Sequences	4
Columns	115
Reading direction	forward
Mean pairwise identity	91.99
Mean single sequence MFE	-34.51
Consensus MFE	-28.65
Energy contribution	-29.14
Covariance contribution	0.50
Combinations/Pair	1.00
Mean z-score	-2.01
Structure conservation index	0.83
SVM decision value	0.86
SVM RNA-class probability	0.867936
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4758042 107 + 23771897
UUCCUUCUGCCAUUACGCACGUGAUUCAUAUGCAGAGCUUCUUAUAAAGUGUCCUUUCGCUGGCUCUCGCCUCCGCUUGCGU--------GUGUGUGUGUGUGGCUGUGAUAGGU
..(((((.(((((.(((((((.....((((((((.(((.........((((......))))(((....)))...))))))))--------)))))))))))))))...)).))). ( -37.60)
>DroSec_CAF1 20750 103 + 1
UUCCUUCUGCCAUUACGCACGUGAUUCAUAUGCAGAGCUUCUUAUAAAGUGUCCUUUCCCUGGCUCUCGCCUCCGCUUG------------UGUGUGUGUGUGGCUGUGAUAGGU
..(((((.(((((((((((((..(.......((((((((......((((....))))....)))))).))......)..------------)))))))).)))))...)).))). ( -31.42)
>DroSim_CAF1 18078 103 + 1
UUCCUUCUGCCAUUACGCACGUGAUUCAUAUGCAGAGCUUCUUAUAAAGUGUCCUUUCGCUGGCUCUCGCCUCCGCUUG------------UGUGUGUGUGUGGCUGUGAUAGGU
..(((((.(((((((((((((..(.......((((((((........((((......)))))))))).))......)..------------)))))))).)))))...)).))). ( -32.72)
>DroYak_CAF1 16781 115 + 1
UUCCUUCUGCCAUUACGCACGUGAUUCAUAUGCAGAGCUUCUUAUAAAGUGUCCUUUCGCUGGCUUUCGCCUCAGCUGGUGUGCGAGUGUGUGUGUGUGUGUGGCUGUGAUAGGU
..(((((.((((((((((((..(((((.(((((..((((........((((......))))(((....)))..)))).))))).)))).)..))))))).)))))...)).))). ( -36.30)
>consensus
UUCCUUCUGCCAUUACGCACGUGAUUCAUAUGCAGAGCUUCUUAUAAAGUGUCCUUUCGCUGGCUCUCGCCUCCGCUUG____________UGUGUGUGUGUGGCUGUGAUAGGU
..(((((.(((((((((((((.............((((.........((((......))))(((....)))...)))).............)))))))).)))))...)).))). (-28.65 = -29.14 +   0.50)

alignment

secondary structure

dotplot

Window 9

Location	4,758,042 – 4,758,149
Length	107
Sequences	4
Columns	115
Reading direction	reverse
Mean pairwise identity	91.99
Mean single sequence MFE	-26.38
Consensus MFE	-25.02
Energy contribution	-25.28
Covariance contribution	0.25
Combinations/Pair	1.00
Mean z-score	-1.36
Structure conservation index	0.95
SVM decision value	0.25
SVM RNA-class probability	0.654912
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4758042 107 - 23771897
ACCUAUCACAGCCACACACACACAC--------ACGCAAGCGGAGGCGAGAGCCAGCGAAAGGACACUUUAUAAGAAGCUCUGCAUAUGAAUCACGUGCGUAAUGGCAGAAGGAA
.(((.((...((((...((.(((..--------...((.((((((((....))).((.((((....)))).......)))))))...))......))).))..)))).))))).. ( -26.50)
>DroSec_CAF1 20750 103 - 1
ACCUAUCACAGCCACACACACACA------------CAAGCGGAGGCGAGAGCCAGGGAAAGGACACUUUAUAAGAAGCUCUGCAUAUGAAUCACGUGCGUAAUGGCAGAAGGAA
.(((.((...((((...((.(((.------------...((((((((....)))....((((....)))).........)))))....(.....)))).))..)))).))))).. ( -25.90)
>DroSim_CAF1 18078 103 - 1
ACCUAUCACAGCCACACACACACA------------CAAGCGGAGGCGAGAGCCAGCGAAAGGACACUUUAUAAGAAGCUCUGCAUAUGAAUCACGUGCGUAAUGGCAGAAGGAA
.(((.((...((((...((.(((.------------...((((((((....))).((.((((....)))).......)))))))....(.....)))).))..)))).))))).. ( -26.30)
>DroYak_CAF1 16781 115 - 1
ACCUAUCACAGCCACACACACACACACACUCGCACACCAGCUGAGGCGAAAGCCAGCGAAAGGACACUUUAUAAGAAGCUCUGCAUAUGAAUCACGUGCGUAAUGGCAGAAGGAA
.(((.((...((((...((.(((......((((.((.....)).(((....))).))))..(((..((((....)))).))).............))).))..)))).))))).. ( -26.80)
>consensus
ACCUAUCACAGCCACACACACACA____________CAAGCGGAGGCGAGAGCCAGCGAAAGGACACUUUAUAAGAAGCUCUGCAUAUGAAUCACGUGCGUAAUGGCAGAAGGAA
.(((.((...((((...((.(((................((((((((....)))....((((....)))).........)))))....(.....)))).))..)))).))))).. (-25.02 = -25.28 +   0.25)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:12:28 2006