Locus 599

Sequence ID	3R_DroMel_CAF1
Location	2,227,145 – 2,227,284
Length	139
Max. P	0.920128

overview

Window 1

Location	2,227,145 – 2,227,244
Length	99
Sequences	6
Columns	102
Reading direction	reverse
Mean pairwise identity	74.72
Mean single sequence MFE	-35.57
Consensus MFE	-24.35
Energy contribution	-25.55
Covariance contribution	1.20
Combinations/Pair	1.46
Mean z-score	-1.51
Structure conservation index	0.68
SVM decision value	1.13
SVM RNA-class probability	0.920128
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2227145 99 - 27905053
GAUUUGGCAUCAGCGACAGGCAAAC--GUGAAUCAUUCCGCUUUGGGACUUGAAAAGUGGGUGGGGAUUGAAGCCCCCGCUCACCUCAUGCUGUUC-UGCUC
.....((((.(((((.((((((((.--(((........)))))))...))))....((((((((((........))))))))))....)))))...-)))). ( -33.50)
>DroSec_CAF1 16361 100 - 1
GAUUUGGCAUCAGCGGCAGGCACCC--AUGAAUCAUUCCGCUUGGGGGCUUGAAUAGUGGGUGGGUAUUGGAGCCCCCGCCCACCUCAUGCUGUUCAUGCUC
.....(((((.((((((((((.(((--(..............)))).)))(((...(((((((((..........))))))))).)))))))))).))))). ( -40.14)
>DroSim_CAF1 16603 100 - 1
GAUUUGGCAUCAGCGGCAGGCACCC--AUGAAUCAUUCCGCUUGGGGGCUUGAGAAGUGGGUGGGGAUUGGAGCCCCCGCCCACCUCAUGCUGUUCAUGCUC
.....(((((.((((((((((.(((--(..............)))).)))((((..((((((((((........))))))))))))))))))))).))))). ( -47.54)
>DroEre_CAF1 16488 98 - 1
GAUUUGGCGUCAGCGGCAGGCACCC--AUGAAUCAUUCCGCUUUGGGGCUUGAAAAGUGGGUGGGGAUUGUG-CCCCCACCCACCUCAUGCUGUU-AUGCUU
.....(((((.((((((((((.(((--(...............)))))))(((...((((((((((......-.)))))))))).))))))))))-))))). ( -43.56)
>DroYak_CAF1 15369 98 - 1
UAUUUGGUGUCAGCGGCAGGCAUCC--AUGAAUCAUUCCGCUUUGGGGCUUGAAAUAUAGGUGGGGAUUAAA-GCCCCACCCACCUCAUGCUGUU-AUGCUU
.....((((((((((.(((((.(((--(...............))))))))).......(((((((......-.))))))).......)))))..-))))). ( -29.96)
>DroAna_CAF1 16139 81 - 1
GAUC-AACGUCAGUGGCAGGCGCGCAAAUGAAUCAUUCU---CGGUAGCAG--GAAGGGGGUCUGGACUCUG-CCUGGG--CGACUC------------UUU
....-..((((...(((((((.((..((((...))))..---))))..(((--(.......))))....)))-))..))--))....------------... ( -18.70)
>consensus
GAUUUGGCAUCAGCGGCAGGCACCC__AUGAAUCAUUCCGCUUGGGGGCUUGAAAAGUGGGUGGGGAUUGAA_CCCCCGCCCACCUCAUGCUGUU_AUGCUC
.....(((((.(((((((.................((((.....))))........((((((((((........))))))))))....))))))).))))). (-24.35 = -25.55 +   1.20)

alignment

secondary structure

dotplot

Window 2

Location	2,227,183 – 2,227,284
Length	101
Sequences	6
Columns	103
Reading direction	forward
Mean pairwise identity	81.70
Mean single sequence MFE	-26.37
Consensus MFE	-17.01
Energy contribution	-19.18
Covariance contribution	2.17
Combinations/Pair	1.24
Mean z-score	-1.77
Structure conservation index	0.65
SVM decision value	0.20
SVM RNA-class probability	0.628785
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2227183 101 + 27905053
CACCCACUUUUCAAGUCCCAAAGCGGAAUGAUUCAC--GUUUGCCUGUCGCUGAUGCCAAAUCGCAUUCGGUUGAUGAAUUUAAAUUGUUCAGAACCGAAUGU
...((.((((.........)))).))...((((..(--(((.((.....)).))))...))))((((((((((..(((((.......))))).)))))))))) ( -24.50)
>DroSec_CAF1 16400 101 + 1
CACCCACUAUUCAAGCCCCCAAGCGGAAUGAUUCAU--GGGUGCCUGCCGCUGAUGCCAAAUCGCAUUCGGUUGAUGAAUUUAAAUUGUUCUCAACCGAAUGC
((((((....(((..((.......))..)))....)--))))).........(((.....)))((((((((((((.((((.......)))))))))))))))) ( -34.90)
>DroSim_CAF1 16642 101 + 1
CACCCACUUCUCAAGCCCCCAAGCGGAAUGAUUCAU--GGGUGCCUGCCGCUGAUGCCAAAUCGCAUUCGGUUGAUGAAUUUAAAUUGUUCUCAACCGAAUGC
((((((....(((..((.......))..)))....)--))))).........(((.....)))((((((((((((.((((.......)))))))))))))))) ( -34.20)
>DroEre_CAF1 16525 101 + 1
CACCCACUUUUCAAGCCCCAAAGCGGAAUGAUUCAU--GGGUGCCUGCCGCUGACGCCAAAUCGCAUUCGGUUGAUGAAUUUAAAUUGUUCUUAACCGAAUGU
((((((....(((..((.......))..)))....)--)))))......((....))......((((((((((((.((((.......)))))))))))))))) ( -30.60)
>DroYak_CAF1 15406 101 + 1
CACCUAUAUUUCAAGCCCCAAAGCGGAAUGAUUCAU--GGAUGCCUGCCGCUGACACCAAAUAUCUUUCGGUUAUUGAAUUUAAGUUGUUCUUAACCGAAUCU
.....................(((((...((((...--.))).)...)))))..............((((((((..((((.......)))).))))))))... ( -19.20)
>DroAna_CAF1 16163 97 + 1
GACCCCCUUC--CUGCUACCG---AGAAUGAUUCAUUUGCGCGCCUGCCACUGACGUU-GAUCGCAUUCGCUUGAUGAAUUUCAAUUGUUUUCAACACAAAGC
..........--........(---(((((((((((((...(((..(((..........-....)))..)))..))))))))......)))))).......... ( -14.84)
>consensus
CACCCACUUUUCAAGCCCCAAAGCGGAAUGAUUCAU__GGGUGCCUGCCGCUGACGCCAAAUCGCAUUCGGUUGAUGAAUUUAAAUUGUUCUCAACCGAAUGC
.....................(((((....((((....)))).....)))))...........((((((((((((.((((.......)))))))))))))))) (-17.01 = -19.18 +   2.17)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:47:04 2006