Locus 5395

Sequence ID	2L_DroMel_CAF1
Location	15,385,221 – 15,385,329
Length	108
Max. P	0.999736

overview

Window 5

Location	15,385,221 – 15,385,329
Length	108
Sequences	6
Columns	108
Reading direction	forward
Mean pairwise identity	93.89
Mean single sequence MFE	-27.62
Consensus MFE	-25.72
Energy contribution	-26.33
Covariance contribution	0.61
Combinations/Pair	1.10
Mean z-score	-2.71
Structure conservation index	0.93
SVM decision value	3.97
SVM RNA-class probability	0.999736
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15385221 108 + 22407834
CCGCUUUUCAGUUCUCAAUUCUCGGCUUCUCUCAGUCGCUAACCUUGAAUUUUCGUUUCCAGAGAUCUCCAGCAUCUCGAGUGGAAACAAGAAUUCUGCCGCUGCCUU
........((((..........(((((......)))))........(((((((.(((((((((((((....).)))))...))))))).)))))))....)))).... ( -24.30)
>DroSec_CAF1 131017 108 + 1
CCGCUUUUCAGUUCUCAAUUCUCGGCUUCUCUCAGUCGCUAACCUUAAAUUUUUGUUUCCAGAGAUCUCCAGCAUCUCGAGUGGAAACAAGAAUUCUGCCGCUGCCUU
..((....(((...........(((((......))))).........((((((((((((((((((((....).)))))...))))))))))))))))).....))... ( -24.80)
>DroSim_CAF1 135930 108 + 1
CCGCUUUUCAGUUCUCAAUUCUCGGCUUCUCUCAGUCGCUAACCUUGAAUUUUUGUUUCCAGAGAUCUCCAGCAUCUCGAGUGGAAACAAGAAUUCUGCCGCUGCCUU
........((((..........(((((......)))))........(((((((((((((((((((((....).)))))...)))))))))))))))....)))).... ( -28.40)
>DroEre_CAF1 137366 108 + 1
CCGCUUUUCAGCUCUCAAUUCUCGGCUUCUCUCAGUCGCUAACCUUGAAUUUUUGUUUCCAGAGAUCUCCAGCAUCUCGAGUGGAAACAAGAAUUCUGCCGCUGCCUU
........((((..........(((((......)))))........(((((((((((((((((((((....).)))))...)))))))))))))))....)))).... ( -30.90)
>DroYak_CAF1 137989 108 + 1
CCGCUUUUCAGUUCUCAAUUCUCGGCUUCUCUCAGUCGCUAACCUUGAAUUUUUGUUUCCAGAGAUCUCCAGCAUCUCGAGUGGAAACAAGAAUUCUGCCGCUGCCUU
........((((..........(((((......)))))........(((((((((((((((((((((....).)))))...)))))))))))))))....)))).... ( -28.40)
>DroAna_CAF1 138300 101 + 1
CCGCUUCUCAG-------UACUUGGCUUCUCUCAGCCGCUAACCUUGAAUUUAUGUUUCCACAGAUCUCCAGCAUCUCGAGUGGAAACAAGAAUUCUGCUGGUGUUUU
.......((((-------((...((((......)))).........((((((.((((((((((((((....).))))...))))))))).))))))))))))...... ( -28.90)
>consensus
CCGCUUUUCAGUUCUCAAUUCUCGGCUUCUCUCAGUCGCUAACCUUGAAUUUUUGUUUCCAGAGAUCUCCAGCAUCUCGAGUGGAAACAAGAAUUCUGCCGCUGCCUU
........((((..........(((((......)))))........(((((((((((((((((((((....).)))))...)))))))))))))))....)))).... (-25.72 = -26.33 +   0.61)

alignment

secondary structure

dotplot

Window 6

Location	15,385,221 – 15,385,329
Length	108
Sequences	6
Columns	108
Reading direction	reverse
Mean pairwise identity	93.89
Mean single sequence MFE	-28.05
Consensus MFE	-24.32
Energy contribution	-24.57
Covariance contribution	0.25
Combinations/Pair	1.11
Mean z-score	-1.37
Structure conservation index	0.87
SVM decision value	0.04
SVM RNA-class probability	0.552515
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15385221 108 - 22407834
AAGGCAGCGGCAGAAUUCUUGUUUCCACUCGAGAUGCUGGAGAUCUCUGGAAACGAAAAUUCAAGGUUAGCGACUGAGAGAAGCCGAGAAUUGAGAACUGAAAAGCGG
......((..(((..((((((((((((...(((((.......))))))))))))...(((((..((((..(......)...))))..)))))))))))))....)).. ( -27.30)
>DroSec_CAF1 131017 108 - 1
AAGGCAGCGGCAGAAUUCUUGUUUCCACUCGAGAUGCUGGAGAUCUCUGGAAACAAAAAUUUAAGGUUAGCGACUGAGAGAAGCCGAGAAUUGAGAACUGAAAAGCGG
......((..(((..((((((((((((...(((((.......))))))))))))...(((((..((((..(......)...))))..)))))))))))))....)).. ( -25.50)
>DroSim_CAF1 135930 108 - 1
AAGGCAGCGGCAGAAUUCUUGUUUCCACUCGAGAUGCUGGAGAUCUCUGGAAACAAAAAUUCAAGGUUAGCGACUGAGAGAAGCCGAGAAUUGAGAACUGAAAAGCGG
.......((((.(((((.(((((((((...(((((.......)))))))))))))).)))))..((((...)))).......))))...........((....))... ( -27.30)
>DroEre_CAF1 137366 108 - 1
AAGGCAGCGGCAGAAUUCUUGUUUCCACUCGAGAUGCUGGAGAUCUCUGGAAACAAAAAUUCAAGGUUAGCGACUGAGAGAAGCCGAGAAUUGAGAGCUGAAAAGCGG
.......((((.(((((.(((((((((...(((((.......)))))))))))))).)))))..((((...)))).......))))..........(((....))).. ( -31.70)
>DroYak_CAF1 137989 108 - 1
AAGGCAGCGGCAGAAUUCUUGUUUCCACUCGAGAUGCUGGAGAUCUCUGGAAACAAAAAUUCAAGGUUAGCGACUGAGAGAAGCCGAGAAUUGAGAACUGAAAAGCGG
.......((((.(((((.(((((((((...(((((.......)))))))))))))).)))))..((((...)))).......))))...........((....))... ( -27.30)
>DroAna_CAF1 138300 101 - 1
AAAACACCAGCAGAAUUCUUGUUUCCACUCGAGAUGCUGGAGAUCUGUGGAAACAUAAAUUCAAGGUUAGCGGCUGAGAGAAGCCAAGUA-------CUGAGAAGCGG
......((.((.(((((..(((((((((...((((.......)))))))))))))..)))))..(((....((((......))))....)-------)).....)))) ( -29.20)
>consensus
AAGGCAGCGGCAGAAUUCUUGUUUCCACUCGAGAUGCUGGAGAUCUCUGGAAACAAAAAUUCAAGGUUAGCGACUGAGAGAAGCCGAGAAUUGAGAACUGAAAAGCGG
.......((((.(((((.(((((((((...(((((.......)))))))))))))).)))))..((((...)))).......))))...................... (-24.32 = -24.57 +   0.25)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:43:07 2006