Locus 5742

Sequence ID	2L_DroMel_CAF1
Location	16,340,339 – 16,340,487
Length	148
Max. P	0.693451

overview

Window 6

Location	16,340,339 – 16,340,447
Length	108
Sequences	6
Columns	108
Reading direction	reverse
Mean pairwise identity	82.22
Mean single sequence MFE	-42.23
Consensus MFE	-27.85
Energy contribution	-28.10
Covariance contribution	0.25
Combinations/Pair	1.17
Mean z-score	-1.53
Structure conservation index	0.66
SVM decision value	-0.04
SVM RNA-class probability	0.511927
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16340339 108 - 22407834
CCGAAUAGUGGAAAGGCGGCGAGCAGUUGUGCCGCCGAAGCGGCGACGGCUGCCGUGAAGUCAUUGGCCAUCUCGCAGUUCCUGAAGAAGGAGGUGCGUGUCACCUGC
.......((((...(((.(((.(((((((((((((....))))).)))))))))))(....)....)))..(.((((.(((((.....))))).)))).))))).... ( -45.50)
>DroVir_CAF1 1435 108 - 1
CCCAACAACGCCAUGGCCGCCAGCAGCUGUGCCGCCGAGGCGGCUACUGCUGCGGUCAAAUCGCUUGCCAUAUCGCAGUUUCUAAAAAAGGAGGUGCGUGUUACAUGU
......(((((..(((((((.(((((.((.(((((....)))))))))))))))))))................(((.(((((.....))))).))))))))...... ( -43.60)
>DroPse_CAF1 2119 108 - 1
CCGAACAGUGGCAAGGCGGCCAGCAGCUGUGCCGCCGAAGCGGCGACAGCGGCUGUGAAAUCCCUGGCCAUCUCGCAGUUUCUCAAGAAGGAGGUUCGUGUCACCUGU
.(((((.(((((.(((...(((((.((((((((((....))))).))))).)))).).....))).)))))..........(((......)))))))).......... ( -42.70)
>DroWil_CAF1 2205 108 - 1
CCCAAUAAUGGAAAGGCGGCCAGCAGUUGUGCCGCUGAAGCGGCAACCGCAGCUGUCAAAUCUUUGGCCAUCUCUCAGUUUCUCAAGAAGGAGGUUCGUGUCACGUGC
.(((....)))...(((((((((((((((((((((....)))))....))))))))........)))))((((((....(((....)))))))))....)))...... ( -36.00)
>DroMoj_CAF1 19150 108 - 1
CCUAACAACGGCAUGGCCGCAAGCAGCUGUGCCGCAGAGGCAGCUACUGCAGCGGUCAAAUCGCUUGCCAUAUCGCAGUUUCUAAAAAAGGAGGUGCGUGUUACAUGC
..(((((..(((((((((((..((((..(((((.....)))).)..)))).))))))).......))))....((((.(((((.....))))).)))))))))..... ( -41.01)
>DroAna_CAF1 12128 108 - 1
CCGAACAAUGGGAAGGCGGCCAGCAGUUGUGCGGCGGAAGCUGCCACCGCGGCGGUCAAAUCCCUGGCCAUUUCGCAGUUCCUCAAGAAGGAGGUGCGUGUCACCUGC
.........((((.(((.(((.((.((.(.(((((....)))))))).))))).)))...))))((((.....((((.(((((.....))))).)))).))))..... ( -44.60)
>consensus
CCGAACAAUGGCAAGGCGGCCAGCAGCUGUGCCGCCGAAGCGGCGACCGCAGCGGUCAAAUCCCUGGCCAUCUCGCAGUUUCUCAAGAAGGAGGUGCGUGUCACCUGC
..............((((((((((.((.(((((((....))))).)).)).)).(......)..)))))....((((.(((((.....))))).)))).)))...... (-27.85 = -28.10 +   0.25)

alignment

secondary structure

dotplot

Window 7

Location	16,340,379 – 16,340,487
Length	108
Sequences	6
Columns	108
Reading direction	forward
Mean pairwise identity	80.49
Mean single sequence MFE	-43.47
Consensus MFE	-27.86
Energy contribution	-30.82
Covariance contribution	2.95
Combinations/Pair	1.38
Mean z-score	-1.70
Structure conservation index	0.64
SVM decision value	0.33
SVM RNA-class probability	0.693451
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16340379 108 + 22407834
GCCAAUGACUUCACGGCAGCCGUCGCCGCUUCGGCGGCACAACUGCUCGCCGCCUUUCCACUAUUCGGUGGCGCAUACUUGGAGAUGUCAAACUUCCGCUUCGGCGUC
.....((((.((..(((((..((.(((((....)))))))..)))))(((((((............)))))))..........)).))))......(((....))).. ( -43.60)
>DroVir_CAF1 1475 108 + 1
GCAAGCGAUUUGACCGCAGCAGUAGCCGCCUCGGCGGCACAGCUGCUGGCGGCCAUGGCGUUGUUGGGAGGCGCAUACUUAGAGAUGUCAAACUUGCGUUUGGGCGUU
.((((((...((.((((((((((.(((((....)))))...)))))).)))).))(((((((.....(((.......)))...)))))))......))))))...... ( -42.90)
>DroWil_CAF1 2245 108 + 1
GCCAAAGAUUUGACAGCUGCGGUUGCCGCUUCAGCGGCACAACUGCUGGCCGCCUUUCCAUUAUUGGGUGGUGCAUACUUGGAGAUGUCAAAUUUACGCUUCGGCGGC
(((..((((((((((((((((((((((((....))))))..))))).)))((((..((((....)))).))))............))))))))))..((....))))) ( -47.20)
>DroMoj_CAF1 19190 108 + 1
GCAAGCGAUUUGACCGCUGCAGUAGCUGCCUCUGCGGCACAGCUGCUUGCGGCCAUGCCGUUGUUAGGAGGGGCAUACUUAGAGAGAUCAAACUUGCGUUUGGGUGUU
.((((((.(((((.(.(((.(((((((.(((((((((((..((((....))))..)))))).....)))))))).)))))))...).)))))....))))))...... ( -40.10)
>DroAna_CAF1 12168 108 + 1
GCCAGGGAUUUGACCGCCGCGGUGGCAGCUUCCGCCGCACAACUGCUGGCCGCCUUCCCAUUGUUCGGCGGCGCAUACUUGGAGAUGUCGAACUUCCGCUUUGGUGUC
((((((((((((((..(((((((((......))))))).....(((..((((((............))))))))).....))....)))))).))))....))))... ( -40.90)
>DroPer_CAF1 2154 108 + 1
GCCAGGGAUUUCACAGCCGCUGUCGCCGCUUCGGCGGCACAACUGCUGGCCGCCUUGCCACUGUUCGGUGGCGCAUACUUGGAAAUGUCGAACUUCCGCUUGGGCGUC
(((.((((.(((.((((.(.(((.(((((....)))))))).).))))((((((..((....))..))))))((((........)))).))).)))).....)))... ( -46.10)
>consensus
GCCAGCGAUUUGACCGCAGCAGUAGCCGCUUCGGCGGCACAACUGCUGGCCGCCUUGCCAUUGUUCGGUGGCGCAUACUUGGAGAUGUCAAACUUCCGCUUGGGCGUC
(((.(((((((((((.(((((((.(((((....)))))...)))))..((((((............))))))........))...))))))).)))).....)))... (-27.86 = -30.82 +   2.95)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:51:35 2006