Locus 9274

Sequence ID	3R_DroMel_CAF1
Location	24,731,653 – 24,731,744
Length	91
Max. P	0.940303

overview

Window 9

Location	24,731,653 – 24,731,744
Length	91
Sequences	6
Columns	91
Reading direction	forward
Mean pairwise identity	76.78
Mean single sequence MFE	-40.15
Consensus MFE	-25.02
Energy contribution	-26.55
Covariance contribution	1.53
Combinations/Pair	1.26
Mean z-score	-1.99
Structure conservation index	0.62
SVM decision value	1.31
SVM RNA-class probability	0.940303
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24731653 91 + 27905053
AGAUGACGGCCACGGAUUUGGCCACACUUAGGGCAGCAGCAGCCGCAGAAGCGGAGGCCAGAUCUCGAGCACAGGCGGAGGCGGAAGCUCU
......(.(((.(((((((((((.........((....))..((((....)))).))))))))).))......))).).(((....))).. ( -34.00)
>DroVir_CAF1 16789 91 + 1
AAAUGACCGCCACGGAGCUAGCCAAUCUUCGGGCCGCAGCUGCCGCCGAGGCCGAGGCAGAGGCUCGUGCCCAAGCCGAGGCCAAGGCGCG
.......(((...((((((.((...((....))..)))))).))(((..((((..(((...(((....)))...)))..))))..)))))) ( -40.40)
>DroPse_CAF1 6028 91 + 1
AGAUGACGGCCACAGAUUUGGCCAAUCUUCGGGCCACAGCCGCCGCCGAGGCUGUGGCCCAGGCCCGUGCCCAGGCGGAAACAGAGGCACG
((((...(((((......))))).))))..(((((((((((........))))))))))).....((((((.....(....)...)))))) ( -47.10)
>DroWil_CAF1 4698 91 + 1
AAAUGACGGCCACAGAUUUGGUCAAUCUACGUGCAGCAGCCGCUGCCGAAGCAGAGGCACAAGCUCGAGCACUAGCCGAAGCACAGGCAAG
........(((..(((((.....)))))..((((....(((.((((....)))).)))......(((.((....))))).)))).)))... ( -29.90)
>DroMoj_CAF1 14594 91 + 1
AAAUGACGGCCACGGAGCUGGCCAAUAUGCGUGCCGCUGCUGCCGCCGAGGCCGAGGCACGGGCUCGUGCUGAAGCCGAGGCCAAGGCACG
.......(((((......)))))......(((((((((.(.(((.....))).).)))..((.((((.((....)))))).))..)))))) ( -42.40)
>DroPer_CAF1 6065 91 + 1
AGAUGACGGCCACAGAUUUGGCCAAUCUUCGGGCCACAGCCGCUGCCGAGGCUGUGGCCCAGGCCCGUGCCCAGGCGGAAACAGAGGCACG
((((...(((((......))))).))))..(((((((((((........))))))))))).....((((((.....(....)...)))))) ( -47.10)
>consensus
AAAUGACGGCCACAGAUUUGGCCAAUCUUCGGGCCGCAGCCGCCGCCGAGGCCGAGGCACAGGCUCGUGCCCAAGCCGAAGCAGAGGCACG
.......(((((......))))).......(((((...(((.(.((....)).).)))...)))))(((((...((....))...))))). (-25.02 = -26.55 +   1.53)

alignment

secondary structure

dotplot

Window 0

Location	24,731,653 – 24,731,744
Length	91
Sequences	6
Columns	91
Reading direction	reverse
Mean pairwise identity	76.78
Mean single sequence MFE	-41.53
Consensus MFE	-22.02
Energy contribution	-22.83
Covariance contribution	0.81
Combinations/Pair	1.26
Mean z-score	-1.97
Structure conservation index	0.53
SVM decision value	0.69
SVM RNA-class probability	0.823988
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24731653 91 - 27905053
AGAGCUUCCGCCUCCGCCUGUGCUCGAGAUCUGGCCUCCGCUUCUGCGGCUGCUGCUGCCCUAAGUGUGGCCAAAUCCGUGGCCGUCAUCU
.((((....((....))....))))(.(((.(((((..(((((..(((((....)))))...))))).))))).))))............. ( -31.20)
>DroVir_CAF1 16789 91 - 1
CGCGCCUUGGCCUCGGCUUGGGCACGAGCCUCUGCCUCGGCCUCGGCGGCAGCUGCGGCCCGAAGAUUGGCUAGCUCCGUGGCGGUCAUUU
((((((..((((..(((..((((....))))..)))..))))..)))((.((((..((((........))))))))))...)))....... ( -43.20)
>DroPse_CAF1 6028 91 - 1
CGUGCCUCUGUUUCCGCCUGGGCACGGGCCUGGGCCACAGCCUCGGCGGCGGCUGUGGCCCGAAGAUUGGCCAAAUCUGUGGCCGUCAUCU
(((((((..((....))..)))))))((((((((((((((((.(....).)))))))))))).(((((.....)))))..))))....... ( -49.40)
>DroWil_CAF1 4698 91 - 1
CUUGCCUGUGCUUCGGCUAGUGCUCGAGCUUGUGCCUCUGCUUCGGCAGCGGCUGCUGCACGUAGAUUGACCAAAUCUGUGGCCGUCAUUU
.......(((...((((((((((...(((....(((.((((....)))).))).))))))).((((((.....)))))))))))).))).. ( -36.00)
>DroMoj_CAF1 14594 91 - 1
CGUGCCUUGGCCUCGGCUUCAGCACGAGCCCGUGCCUCGGCCUCGGCGGCAGCAGCGGCACGCAUAUUGGCCAGCUCCGUGGCCGUCAUUU
((((((...(((..((((...(((((....)))))...))))..))).((....))))))))......(((((......)))))....... ( -39.40)
>DroPer_CAF1 6065 91 - 1
CGUGCCUCUGUUUCCGCCUGGGCACGGGCCUGGGCCACAGCCUCGGCAGCGGCUGUGGCCCGAAGAUUGGCCAAAUCUGUGGCCGUCAUCU
(((((((..((....))..)))))))((((((((((((((((.(....).)))))))))))).(((((.....)))))..))))....... ( -50.00)
>consensus
CGUGCCUCUGCCUCCGCCUGGGCACGAGCCUGGGCCUCAGCCUCGGCGGCGGCUGCGGCCCGAAGAUUGGCCAAAUCCGUGGCCGUCAUCU
(((((....((....))....)))))....((((((...((....)).((....)))))))).....((((((......))))))...... (-22.02 = -22.83 +   0.81)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:30:29 2006