Locus 2290

Sequence ID	2R_DroMel_CAF1
Location	8,434,910 – 8,435,064
Length	154
Max. P	0.999953

overview

Window 3

Location	8,434,910 – 8,435,030
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	94.17
Mean single sequence MFE	-39.70
Consensus MFE	-37.14
Energy contribution	-37.38
Covariance contribution	0.24
Combinations/Pair	1.03
Mean z-score	-2.75
Structure conservation index	0.94
SVM decision value	4.82
SVM RNA-class probability	0.999953
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8434910 120 + 20766785
AGUAAGAAUUCCGUCAAAAUUCGCCAACACGACAGUGAGGUGAGCCCAAGACCUCGACGAUCUUACCAGGGUGACUCGUCGUCGUCGCGUUACUAUCCAAAGAAUAGUGACAUUUUGGGU
....................(((((..(((....))).)))))(((((((((..((((((..((((....)))).))))))..)))..((((((((.......))))))))...)))))) ( -40.60)
>DroSec_CAF1 45905 120 + 1
AGCAAGAAUUCCGUCAAAAUUCGCCAACACGACAGUGAGGUGAGCCCAAGACCUCGACGAUCUUACCAGGGUGACUCGUCGUCGUCGCGUUACUAUCCAAAGAAUAGUGACAUUUUGGGU
....................(((((..(((....))).)))))(((((((((..((((((..((((....)))).))))))..)))..((((((((.......))))))))...)))))) ( -40.60)
>DroSim_CAF1 45688 120 + 1
AGCAAGAAUUCCGUCAAAAUUCGCCAACACGACAGUGAGGUGAGCCCAAGACCUCGACGAUCUUACCAGGGUGACUCGUCGUCGUCGCGUUACUAUCCAAAGAAUAGUGACAUUUUGGGU
....................(((((..(((....))).)))))(((((((((..((((((..((((....)))).))))))..)))..((((((((.......))))))))...)))))) ( -40.60)
>DroWil_CAF1 68439 120 + 1
AGCAAGAACUCCGCCAAAAUUCGUCAACACGAUAGUGAGGUGAGCCCAAGACCUCGACGAUCUUACCAGGGUGACUCGUCGUCGUCGCGUUACUAUAACAAAAAUAGUGACUUAUUGGGU
...........((((..(..((((....))))...)..)))).(((((((((..((((((..((((....)))).))))))..)))..((((((((.......))))))))...)))))) ( -39.20)
>DroAna_CAF1 47238 120 + 1
AAUAAGAAUUCCGCCAAAAUUCGCCAACACGAUAGCGAAGUGAGCCCAAGACCUCGACGAUCUUACCAGGGUGAUUCGUCGUCGUCGCGUUACUAUCAAAAAAAUAGUGACAUUUUGGGU
..............((...(((((..........))))).)).(((((((((..((((((..((((....)))).))))))..)))..((((((((.......))))))))...)))))) ( -37.50)
>consensus
AGCAAGAAUUCCGUCAAAAUUCGCCAACACGACAGUGAGGUGAGCCCAAGACCUCGACGAUCUUACCAGGGUGACUCGUCGUCGUCGCGUUACUAUCCAAAGAAUAGUGACAUUUUGGGU
....................(((((..(((....))).)))))(((((((((..((((((..((((....)))).))))))..)))..((((((((.......))))))))...)))))) (-37.14 = -37.38 +   0.24)

alignment

secondary structure

dotplot

Window 4

Location	8,434,950 – 8,435,064
Length	114
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	87.21
Mean single sequence MFE	-43.24
Consensus MFE	-33.54
Energy contribution	-33.78
Covariance contribution	0.24
Combinations/Pair	1.03
Mean z-score	-3.06
Structure conservation index	0.78
SVM decision value	2.47
SVM RNA-class probability	0.994353
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8434950 114 + 20766785
UGAGCCCAAGACCUCGACGAUCUUACCAGGGUGACUCGUCGUCGUCGCGUUACUAUCCAAAGAAUAGUGACAUUUUGGGUCAAGG---CUUAGGCGGCAACUCCGACAG---CUACAACG
(((.((((((((..((((((..((((....)))).))))))..)))..((((((((.......))))))))...)))))))).((---((..((.(....).))...))---))...... ( -41.80)
>DroSec_CAF1 45945 114 + 1
UGAGCCCAAGACCUCGACGAUCUUACCAGGGUGACUCGUCGUCGUCGCGUUACUAUCCAAAGAAUAGUGACAUUUUGGGUCAAGG---CUUAGGCGGCAACUCCGAAAG---CUACAACG
(((.((((((((..((((((..((((....)))).))))))..)))..((((((((.......))))))))...)))))))).((---(((.((.(....).))..)))---))...... ( -42.80)
>DroSim_CAF1 45728 114 + 1
UGAGCCCAAGACCUCGACGAUCUUACCAGGGUGACUCGUCGUCGUCGCGUUACUAUCCAAAGAAUAGUGACAUUUUGGGUCAAGG---CUUAGGCGGCAACUCCGAAAG---CUACAACG
(((.((((((((..((((((..((((....)))).))))))..)))..((((((((.......))))))))...)))))))).((---(((.((.(....).))..)))---))...... ( -42.80)
>DroWil_CAF1 68479 110 + 1
UGAGCCCAAGACCUCGACGAUCUUACCAGGGUGACUCGUCGUCGUCGCGUUACUAUAACAAAAAUAGUGACUUAUUGGGUACAGGAGGUGCAGGCGGCAGCA---GCAG---CU----CG
((.(((((((((..((((((..((((....)))).))))))..)))..((((((((.......))))))))...)))))).)).(((.(((..((....)).---))).---))----). ( -44.60)
>DroAna_CAF1 47278 120 + 1
UGAGCCCAAGACCUCGACGAUCUUACCAGGGUGAUUCGUCGUCGUCGCGUUACUAUCAAAAAAAUAGUGACAUUUUGGGUCAAGGCGGCAUCGGCGGUAAUACCGACAACGUCUACAACG
(((.((((((((..((((((..((((....)))).))))))..)))..((((((((.......))))))))...))))))))(((((...((((........))))...)))))...... ( -44.20)
>consensus
UGAGCCCAAGACCUCGACGAUCUUACCAGGGUGACUCGUCGUCGUCGCGUUACUAUCCAAAGAAUAGUGACAUUUUGGGUCAAGG___CUUAGGCGGCAACUCCGACAG___CUACAACG
...(((((((((..((((((..((((....)))).))))))..)))..((((((((.......))))))))...))))))............((.(....).))................ (-33.54 = -33.78 +   0.24)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:25:51 2006