Locus 218

Sequence ID	X_DroMel_CAF1
Location	773,113 – 773,204
Length	91
Max. P	0.739029

overview

Window 0

Location	773,113 – 773,204
Length	91
Sequences	6
Columns	111
Reading direction	forward
Mean pairwise identity	80.27
Mean single sequence MFE	-31.60
Consensus MFE	-17.40
Energy contribution	-18.27
Covariance contribution	0.86
Combinations/Pair	1.20
Mean z-score	-2.19
Structure conservation index	0.55
SVM decision value	0.44
SVM RNA-class probability	0.739029
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 773113 91 + 22224390
GAGGCCAUUUCGUUGCGAGUUCUUUAAGAGGCCGCC--AGGACUC-UUCGUCCUUGGGCGC-----------------CUGGUGUGCUUUUAAUUAGAAGACGGGCCAUAA
..((((...(((...)))((..((((((((((((((--(((....-..((((....)))))-----------------)))))).)))))...)))))..)).)))).... ( -33.70)
>DroSec_CAF1 87212 83 + 1
GAGGCCAUUUCGUUGCGAGUUCUUUACGA----------GGACUC-UUCGUCCUUGGGAGC-----------------CUGGUGUACUUUUAAUUAGAAGACGGGCCAUAA
..((((........((.((((((...(((----------((((..-...))))))))))).-----------------)).))((.(((((....))))))).)))).... ( -25.90)
>DroSim_CAF1 48459 91 + 1
GAGGCCAUUUCGCUGCGAGUUCUUUACGAGGCCGCC--AGGACUC-UUCGUCCUUGGGCGC-----------------CUGGUGUGCUUUUAAUUAGAAGACGGGCCAUAA
..((((.((((..((.((((....(((.((((.(((--(((((..-...)))))..)))))-----------------)).))).)))).))....))))...)))).... ( -33.60)
>DroEre_CAF1 101736 92 + 1
GAGGCCAUUUCGCUGCGAGUUCUUUACGAUGCCGCC--AGGACUCGUUCGUCCUUGGGCGC-----------------CUGGUGUGUUUUUAAUUAGAGAACGGGCCAUAA
..((((...(((...)))((((((((....((((((--(((...((((((....)))))))-----------------)))))).)).......)))))))).)))).... ( -33.80)
>DroYak_CAF1 89230 91 + 1
GAGGCCAUUUCGCUGCGAGUUCUUUACGAUGCCGCC--AGGACAC-UUCGUCCUUGGGCGC-----------------CUGGUGUGUUUUUAAUUAGAAGACGGGCCAUAA
.((((...((((...))))...........(((.(.--(((((..-...))))).))))))-----------------))(((.(((((((.....))))))).))).... ( -29.10)
>DroAna_CAF1 103932 109 + 1
GGCGCCAUUUCGUAGCGACAUCUUUACGAUCCCGCCCAAGGACA--UUUAUCCUUGGGCGCUACUCCCUACUCCCACCCCUCCGCUCUUCUAAUUAGAAGCCAAGCCAUAA
(((........((((((..(((.....)))..)(((((((((..--....))))))))))))))......................(((((....)))))....))).... ( -33.50)
>consensus
GAGGCCAUUUCGCUGCGAGUUCUUUACGAUGCCGCC__AGGACUC_UUCGUCCUUGGGCGC_________________CUGGUGUGCUUUUAAUUAGAAGACGGGCCAUAA
..((((..........................((((..(((((......)))))..)))).......................((.(((((....))))))).)))).... (-17.40 = -18.27 +   0.86)

alignment

secondary structure

dotplot

Window 1

Location	773,113 – 773,204
Length	91
Sequences	6
Columns	111
Reading direction	reverse
Mean pairwise identity	80.27
Mean single sequence MFE	-26.86
Consensus MFE	-18.76
Energy contribution	-19.40
Covariance contribution	0.64
Combinations/Pair	1.17
Mean z-score	-1.35
Structure conservation index	0.70
SVM decision value	0.21
SVM RNA-class probability	0.636785
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 773113 91 - 22224390
UUAUGGCCCGUCUUCUAAUUAAAAGCACACCAG-----------------GCGCCCAAGGACGAA-GAGUCCU--GGCGGCCUCUUAAAGAACUCGCAACGAAAUGGCCUC
....((((.(((((........))).))...((-----------------(((((..(((((...-..)))))--))).))))......................)))).. ( -25.10)
>DroSec_CAF1 87212 83 - 1
UUAUGGCCCGUCUUCUAAUUAAAAGUACACCAG-----------------GCUCCCAAGGACGAA-GAGUCC----------UCGUAAAGAACUCGCAACGAAAUGGCCUC
....((((.((((..................))-----------------))......((((...-..))))----------((((...(....)...))))...)))).. ( -15.77)
>DroSim_CAF1 48459 91 - 1
UUAUGGCCCGUCUUCUAAUUAAAAGCACACCAG-----------------GCGCCCAAGGACGAA-GAGUCCU--GGCGGCCUCGUAAAGAACUCGCAGCGAAAUGGCCUC
....((((.(((((........))).))((.((-----------------(((((..(((((...-..)))))--))).)))).))...................)))).. ( -26.80)
>DroEre_CAF1 101736 92 - 1
UUAUGGCCCGUUCUCUAAUUAAAAACACACCAG-----------------GCGCCCAAGGACGAACGAGUCCU--GGCGGCAUCGUAAAGAACUCGCAGCGAAAUGGCCUC
....((((..(((.((................(-----------------.((((..(((((......)))))--)))).).((.....))......)).)))..)))).. ( -26.90)
>DroYak_CAF1 89230 91 - 1
UUAUGGCCCGUCUUCUAAUUAAAAACACACCAG-----------------GCGCCCAAGGACGAA-GUGUCCU--GGCGGCAUCGUAAAGAACUCGCAGCGAAAUGGCCUC
....((((........................(-----------------.((((..(((((...-..)))))--)))).).((((...(....)...))))...)))).. ( -25.50)
>DroAna_CAF1 103932 109 - 1
UUAUGGCUUGGCUUCUAAUUAGAAGAGCGGAGGGGUGGGAGUAGGGAGUAGCGCCCAAGGAUAAA--UGUCCUUGGGCGGGAUCGUAAAGAUGUCGCUACGAAAUGGCGCC
.(((..(((.((((((....)))..))).)))..)))((.((.....(((((((((((((((...--.))))))))))((.(((.....))).)))))))......)).)) ( -41.10)
>consensus
UUAUGGCCCGUCUUCUAAUUAAAAGCACACCAG_________________GCGCCCAAGGACGAA_GAGUCCU__GGCGGCAUCGUAAAGAACUCGCAACGAAAUGGCCUC
....((((...........................................((((..(((((......)))))..))))...((((...(....)...))))...)))).. (-18.76 = -19.40 +   0.64)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:39:15 2006