Locus 856

Sequence ID	3L_DroMel_CAF1
Location	2,580,391 – 2,580,485
Length	94
Max. P	0.999963

overview

Window 5

Location	2,580,391 – 2,580,485
Length	94
Sequences	5
Columns	99
Reading direction	forward
Mean pairwise identity	86.39
Mean single sequence MFE	-37.16
Consensus MFE	-36.60
Energy contribution	-36.12
Covariance contribution	-0.48
Combinations/Pair	1.11
Mean z-score	-3.73
Structure conservation index	0.98
SVM decision value	4.94
SVM RNA-class probability	0.999963
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2580391 94 + 23771897
----CACACCUUU-UCUGACCAUGUGUGUCGGCAUCUGGAAGCCGAGUGAGGUGUCUCCAUGGAUUCACUUGCUUUGCUCUUAGAGGCGGACACACAAA
----.........-........((((((((.((.((((..(((.((((.(((((..((....))..))))))))).)))..)))).)).)))))))).. ( -37.60)
>DroSec_CAF1 7377 92 + 1
------ACUCUUU-UCUGUACAUGUGUGUCGGCAUCUGGAAGCCGAGUGAGGUGUCUCCCUGGAUUCACUUGCUUCGCUCUUAGAGGCGGACACACAAA
------.......-........((((((((.((.((((..(((.((((.(((((..((....))..))))))))).)))..)))).)).)))))))).. ( -37.60)
>DroSim_CAF1 7366 92 + 1
------CACCUUU-UCCGUCCAUGUGUGUCGGCAUCUGGAAGCCGAGUGAGGUGUCUCCUUGGAUUCACUUGCUUCGCUCUUAGAGGCGGACACACAAA
------.......-........((((((((.((.((((..(((.((((.(((((..((....))..))))))))).)))..)))).)).)))))))).. ( -37.60)
>DroEre_CAF1 4683 98 + 1
UUUUCUUUCCUUU-UCUGUGCAUGUGUGUCGGCAUCUGGCAGCCGAGUGAGGUGUCUCUUUGGACUCGCUUGCUUCGCUCUUAGAGGCGGACACACAAA
.............-........((((((((.((.(((((.(((.(((..(((.((((....)))).).))..))).))).))))).)).)))))))).. ( -38.60)
>DroYak_CAF1 7381 99 + 1
AUGUCUUUCCUUUUUUUGUCCAUGUGUGUCGGCAUCUGGCAGCCGAGUGAGCUGUUCCUUUGGAUUCACUUGCUUUGCUCUUAGAGGCAGACACACAAA
......................((((((((.((.(((((.(((.(((..((.((.(((...)))..))))..))).))).))))).)).)))))))).. ( -34.40)
>consensus
____C_CACCUUU_UCUGUCCAUGUGUGUCGGCAUCUGGAAGCCGAGUGAGGUGUCUCCUUGGAUUCACUUGCUUCGCUCUUAGAGGCGGACACACAAA
......................((((((((.((.(((((.(((.(((..((..((((....))))...))..))).))).))))).)).)))))))).. (-36.60 = -36.12 +  -0.48)

alignment

secondary structure

dotplot

Window 6

Location	2,580,391 – 2,580,485
Length	94
Sequences	5
Columns	99
Reading direction	reverse
Mean pairwise identity	86.39
Mean single sequence MFE	-27.44
Consensus MFE	-24.04
Energy contribution	-24.48
Covariance contribution	0.44
Combinations/Pair	1.04
Mean z-score	-1.53
Structure conservation index	0.88
SVM decision value	0.36
SVM RNA-class probability	0.706525
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2580391 94 - 23771897
UUUGUGUGUCCGCCUCUAAGAGCAAAGCAAGUGAAUCCAUGGAGACACCUCACUCGGCUUCCAGAUGCCGACACACAUGGUCAGA-AAAGGUGUG----
..((((((((.((.(((..((((..((...(((..((....))..)))....))..))))..))).)).))))))))........-.........---- ( -28.40)
>DroSec_CAF1 7377 92 - 1
UUUGUGUGUCCGCCUCUAAGAGCGAAGCAAGUGAAUCCAGGGAGACACCUCACUCGGCUUCCAGAUGCCGACACACAUGUACAGA-AAAGAGU------
..((((((((.((.(((....(.(((((.(((((......(....)...)))))..))))))))).)).))))))))........-.......------ ( -28.90)
>DroSim_CAF1 7366 92 - 1
UUUGUGUGUCCGCCUCUAAGAGCGAAGCAAGUGAAUCCAAGGAGACACCUCACUCGGCUUCCAGAUGCCGACACACAUGGACGGA-AAAGGUG------
..((((((((.((.(((....(.(((((.(((((......(....)...)))))..))))))))).)).))))))))........-.......------ ( -27.80)
>DroEre_CAF1 4683 98 - 1
UUUGUGUGUCCGCCUCUAAGAGCGAAGCAAGCGAGUCCAAAGAGACACCUCACUCGGCUGCCAGAUGCCGACACACAUGCACAGA-AAAGGAAAGAAAA
..((((((((.((.(((..(.((..(((...(((((.....(((....))))))))))))))))).)).))))))))........-............. ( -25.60)
>DroYak_CAF1 7381 99 - 1
UUUGUGUGUCUGCCUCUAAGAGCAAAGCAAGUGAAUCCAAAGGAACAGCUCACUCGGCUGCCAGAUGCCGACACACAUGGACAAAAAAAGGAAAGACAU
..((((((((.((.(((...(((..((..(((...(((...)))...)))..))..)))...))).)).))))))))...................... ( -26.50)
>consensus
UUUGUGUGUCCGCCUCUAAGAGCGAAGCAAGUGAAUCCAAGGAGACACCUCACUCGGCUUCCAGAUGCCGACACACAUGGACAGA_AAAGGAA_G____
..((((((((.((.(((..((((..((..((((..((....))..)).))..))..))))..))).)).))))))))...................... (-24.04 = -24.48 +   0.44)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:52:51 2006