Locus 460

Sequence ID	X_DroMel_CAF1
Location	1,354,608 – 1,354,703
Length	95
Max. P	0.916444

overview

Window 4

Location	1,354,608 – 1,354,703
Length	95
Sequences	5
Columns	95
Reading direction	forward
Mean pairwise identity	95.57
Mean single sequence MFE	-37.84
Consensus MFE	-36.84
Energy contribution	-36.48
Covariance contribution	-0.36
Combinations/Pair	1.11
Mean z-score	-1.22
Structure conservation index	0.97
SVM decision value	0.82
SVM RNA-class probability	0.859301
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1354608 95 + 22224390
GGAAAAAGGUCCGGGGCGUGGCAGGAUUAGGCCCGAGGGCCAUUCUUGACCUGCUAGUGACUCCAAGGAUGCGCCUUCUUCUUACGACGGCGCCA
........(((((((((((((((((.(((((((....)))).....)))))))))).)).))))..))))(((((.((.......)).))))).. ( -38.00)
>DroSec_CAF1 14828 94 + 1
GGAAAAA-GUCUGGGGCGUGGCAGGAUUAGGCCCGAGGGCCAUUCUUGACCUGCUAGUGACUCCAAGGAUGCGCCUUCUUCUUACGACGGCGCCA
(((....-(((...((((.(((((((...((((....))))..))))).))))))...))))))......(((((.((.......)).))))).. ( -37.40)
>DroSim_CAF1 18280 94 + 1
GGAAAAA-GUCUGGGGCGUGGCAGGAUUAGGCCCGAGGGCCAUUCUUGACCUGCUAGUGACUCCAAGGAUGCGCCUUCUUCUUACGACGGCGCCA
(((....-(((...((((.(((((((...((((....))))..))))).))))))...))))))......(((((.((.......)).))))).. ( -37.40)
>DroEre_CAF1 15156 95 + 1
GGGAAAAGGUCUGGGGCGUGGCAGGAUUAGGCUCGAGGGCCAUUCUUGACCUGCCAGUGACUCCAAGGAUGCGCCUCCUUCUUGCGACGGCGCCA
.(((....(((...((((.(((((((...((((....))))..))))).))))))...))))))......((((((((.....).)).))))).. ( -36.70)
>DroYak_CAF1 15565 95 + 1
GGAAAGCGGUCUGGGGCGUGGCAGGAUUAGGCCCGAGGGCCAUUCUUGACCUGCCAGUGACUCCAAGGAUGCGCCUUCUUCUUGCGACGGCGCCA
((...((.(((.(((((((((((((.(((((((....)))).....)))))))))).)).))))((((.....))))........))).)).)). ( -39.70)
>consensus
GGAAAAAGGUCUGGGGCGUGGCAGGAUUAGGCCCGAGGGCCAUUCUUGACCUGCUAGUGACUCCAAGGAUGCGCCUUCUUCUUACGACGGCGCCA
(((.....(((...((((.(((((((...((((....))))..))))).))))))...))))))......(((((.((.......)).))))).. (-36.84 = -36.48 +  -0.36)

alignment

secondary structure

dotplot

Window 5

Location	1,354,608 – 1,354,703
Length	95
Sequences	5
Columns	95
Reading direction	reverse
Mean pairwise identity	95.57
Mean single sequence MFE	-34.60
Consensus MFE	-31.86
Energy contribution	-31.90
Covariance contribution	0.04
Combinations/Pair	1.05
Mean z-score	-1.41
Structure conservation index	0.92
SVM decision value	1.11
SVM RNA-class probability	0.916444
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1354608 95 - 22224390
UGGCGCCGUCGUAAGAAGAAGGCGCAUCCUUGGAGUCACUAGCAGGUCAAGAAUGGCCCUCGGGCCUAAUCCUGCCACGCCCCGGACCUUUUUCC
..(((((.((....))....))))).(((..((.((.....(((((........((((....))))....))))).)).))..)))......... ( -33.80)
>DroSec_CAF1 14828 94 - 1
UGGCGCCGUCGUAAGAAGAAGGCGCAUCCUUGGAGUCACUAGCAGGUCAAGAAUGGCCCUCGGGCCUAAUCCUGCCACGCCCCAGAC-UUUUUCC
..(((((.((....))....)))))....((((.((.....(((((........((((....))))....)))))...)).))))..-....... ( -32.90)
>DroSim_CAF1 18280 94 - 1
UGGCGCCGUCGUAAGAAGAAGGCGCAUCCUUGGAGUCACUAGCAGGUCAAGAAUGGCCCUCGGGCCUAAUCCUGCCACGCCCCAGAC-UUUUUCC
..(((((.((....))....)))))....((((.((.....(((((........((((....))))....)))))...)).))))..-....... ( -32.90)
>DroEre_CAF1 15156 95 - 1
UGGCGCCGUCGCAAGAAGGAGGCGCAUCCUUGGAGUCACUGGCAGGUCAAGAAUGGCCCUCGAGCCUAAUCCUGCCACGCCCCAGACCUUUUCCC
..(((((.((....))....)))))....((((.((...(((((((........(((......)))....))))))).)).)))).......... ( -34.20)
>DroYak_CAF1 15565 95 - 1
UGGCGCCGUCGCAAGAAGAAGGCGCAUCCUUGGAGUCACUGGCAGGUCAAGAAUGGCCCUCGGGCCUAAUCCUGCCACGCCCCAGACCGCUUUCC
..(((((.((....))....)))))....((((.((...(((((((........((((....))))....))))))).)).)))).......... ( -39.20)
>consensus
UGGCGCCGUCGUAAGAAGAAGGCGCAUCCUUGGAGUCACUAGCAGGUCAAGAAUGGCCCUCGGGCCUAAUCCUGCCACGCCCCAGACCUUUUUCC
..(((((.((....))....)))))....((((.((.....(((((........((((....))))....)))))...)).)))).......... (-31.86 = -31.90 +   0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:45:04 2006