Locus 8237

Sequence ID	3L_DroMel_CAF1
Location	21,643,191 – 21,643,283
Length	92
Max. P	0.940672

overview

Window 9

Location	21,643,191 – 21,643,283
Length	92
Sequences	6
Columns	95
Reading direction	forward
Mean pairwise identity	75.61
Mean single sequence MFE	-31.59
Consensus MFE	-19.65
Energy contribution	-21.57
Covariance contribution	1.92
Combinations/Pair	1.14
Mean z-score	-1.38
Structure conservation index	0.62
SVM decision value	0.31
SVM RNA-class probability	0.682470
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21643191 92 + 23771897
GACGCGGAU--UGGAGGCUAAAGAAGUGCCGCCAGUUGGCUU-GGCCAACGCAAUGGGUCCGAUAAUCGGGCCGGACCCAUGCUUGCGGCUCUUU
...((.(((--(((.(((.........))).)))))).))..-((((.(.(((.((((((((..........))))))))))).)..)))).... ( -39.90)
>DroSec_CAF1 19891 84 + 1
GACGCGGAU--UAGAGGCUAAAGAAGUGCCGCCA---------GGCCAACGAAAUGGGACCGAUAAUCGGGCCGGACCCAUGCCUGCGGCUCUUU
...((....--.....))....((((.(((((.(---------(((.......(((((.(((..........))).)))))))))))))).)))) ( -28.71)
>DroSim_CAF1 20150 92 + 1
GACGCGGAU--UAGAGGCUAAAGAAGUGCCGCCAGUUGGCUU-GGCCAACGAAAUGGGACCGAUAAUCGGGCCGGACCCAUGCUUGCGGCUCUUU
...((....--.....))....((((.(((((..((((((..-.))))))...(((((.(((..........))).)))))....))))).)))) ( -31.50)
>DroEre_CAF1 18565 89 + 1
-----AGAUUCUAGAGGAUGAGGAAGUGCCGCCAGUUGGCUU-GGCCAACGAAAUGGGUCCGAUAAUCGGGCCGGACCUCUGCUUGCGGCUCUUU
-----..((((....))))...((((.(((((..((((((..-.))))))......((((((.....))))))............))))).)))) ( -33.10)
>DroYak_CAF1 28043 83 + 1
-----------UAGAGGAUAAGGAAGUGCCGCCAGUUGGCUU-GGCCAAAAAAAUGGGUCCAAUAAUCUGGCCGGUCCUUUGCUUGCGGCUCUUU
-----------...........((((.(((((.(((.((.((-(((((......((....))......))))))).))...))).))))).)))) ( -30.00)
>DroAna_CAF1 17410 82 + 1
GAUGCGGAU--UAGAACCGAUAGAAGUGCCGACUGUUGGCCAAGGCCA--GAAAUGUGUCAG---------UUGGACCGUUGCUCGGGGCUCUUC
......((.--.((..(((((((..((.((((((((((((....))))--)........)))---------))))))..))).))))..))..)) ( -26.30)
>consensus
GACGCGGAU__UAGAGGCUAAAGAAGUGCCGCCAGUUGGCUU_GGCCAACGAAAUGGGUCCGAUAAUCGGGCCGGACCCAUGCUUGCGGCUCUUU
......................((((.(((((.(((((((....)))).......(((.(((..........))).)))..))).))))).)))) (-19.65 = -21.57 +   1.92)

alignment

secondary structure

dotplot

Window 0

Location	21,643,191 – 21,643,283
Length	92
Sequences	6
Columns	95
Reading direction	reverse
Mean pairwise identity	75.61
Mean single sequence MFE	-30.05
Consensus MFE	-15.86
Energy contribution	-17.42
Covariance contribution	1.56
Combinations/Pair	1.06
Mean z-score	-2.17
Structure conservation index	0.53
SVM decision value	1.31
SVM RNA-class probability	0.940672
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21643191 92 - 23771897
AAAGAGCCGCAAGCAUGGGUCCGGCCCGAUUAUCGGACCCAUUGCGUUGGCC-AAGCCAACUGGCGGCACUUCUUUAGCCUCCA--AUCCGCGUC
((((((((((..((((((((((((........))))))))).)))((((((.-..))))))..)))))...)))))........--......... ( -39.80)
>DroSec_CAF1 19891 84 - 1
AAAGAGCCGCAGGCAUGGGUCCGGCCCGAUUAUCGGUCCCAUUUCGUUGGCC---------UGGCGGCACUUCUUUAGCCUCUA--AUCCGCGUC
(((((((((((((((((((.((((........)))).))))).......)))---------).)))))...)))))........--......... ( -29.51)
>DroSim_CAF1 20150 92 - 1
AAAGAGCCGCAAGCAUGGGUCCGGCCCGAUUAUCGGUCCCAUUUCGUUGGCC-AAGCCAACUGGCGGCACUUCUUUAGCCUCUA--AUCCGCGUC
((((((((((....(((((.((((........)))).)))))...((((((.-..))))))..)))))...)))))........--......... ( -32.20)
>DroEre_CAF1 18565 89 - 1
AAAGAGCCGCAAGCAGAGGUCCGGCCCGAUUAUCGGACCCAUUUCGUUGGCC-AAGCCAACUGGCGGCACUUCCUCAUCCUCUAGAAUCU-----
.(((.(((((.....(.(((((((........)))))))).....((((((.-..))))))..))))).)))..................----- ( -30.80)
>DroYak_CAF1 28043 83 - 1
AAAGAGCCGCAAGCAAAGGACCGGCCAGAUUAUUGGACCCAUUUUUUUGGCC-AAGCCAACUGGCGGCACUUCCUUAUCCUCUA-----------
..((((.(....)..((((((((((((((..(.((....)).)..)))))))-..(((....)))))....)))))...)))).----------- ( -27.50)
>DroAna_CAF1 17410 82 - 1
GAAGAGCCCCGAGCAACGGUCCAA---------CUGACACAUUUC--UGGCCUUGGCCAACAGUCGGCACUUCUAUCGGUUCUA--AUCCGCAUC
((((.((((((.....))).....---------..(((.......--((((....))))...)))))).))))...(((.....--..))).... ( -20.50)
>consensus
AAAGAGCCGCAAGCAUGGGUCCGGCCCGAUUAUCGGACCCAUUUCGUUGGCC_AAGCCAACUGGCGGCACUUCUUUAGCCUCUA__AUCCGCGUC
.(((.(((((.......((.((((........)))).))........((((....))))....))))).)))....................... (-15.86 = -17.42 +   1.56)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:10:09 2006