Locus 5207

Sequence ID	3L_DroMel_CAF1
Location	14,358,892 – 14,358,989
Length	97
Max. P	0.976539

overview

Window 8

Location	14,358,892 – 14,358,989
Length	97
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	78.82
Mean single sequence MFE	-28.55
Consensus MFE	-13.18
Energy contribution	-14.60
Covariance contribution	1.42
Combinations/Pair	1.05
Mean z-score	-2.94
Structure conservation index	0.46
SVM decision value	1.41
SVM RNA-class probability	0.951157
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14358892 97 + 23771897
GUGCGUUUUG------------GAGUUGGGAACUCCAUAUUUGACGCCAGUUGAGCAUGAAAAUGCCAUUUAACAAUGGCG-----CAAAUAAAUAAA--AAAGCAAGCU--GGAAAC--
.(((....((------------((((.....))))))((((((.((((((((((((((....))))...)))))..)))))-----))))))......--...)))....--......-- ( -30.40)
>DroPse_CAF1 181002 117 + 1
-CUGGUCCUGGCAAAAUGGCAAGAGAGGGGAACCCCAUAUUUGACGCCAGUUAAGCAUGAAAAUGCCAUUUAACAAUGGCCGACUCCAAAUAAAUAAAUAUAAAAAAGAU--GGAGAGAG
-.(((((.((...((((((((.....(((....)))...((((((....))))))........))))))))..))..))))).(((((.....................)--)))).... ( -29.30)
>DroSec_CAF1 183395 98 + 1
GUGCGUUUUG------------GAGUUGGGAACUCCAUAUUUGACGCCAGUUGAGCAUGAAAAUGCCAUUUAACAAUGGCA-----CAAAUAAAUAAAA-AAAGCAAGCU--GGAAAC--
..(((((.((------------((((.....)))))).....)))))(((((..((((....))((((((....)))))).-----.............-...)).))))--).....-- ( -26.60)
>DroEre_CAF1 181800 97 + 1
GUGCGUUUUG------------GAGUUGGGAACUCCAUAUUUGACGCCAGUUGAGCAUGAAAAUGCCAUUUAACAAUGGCG-----CAAAUAAAUAAA--ACAGCAAGCU--GGAAAC--
.(((((((((------------((((.....))))).((((((.((((((((((((((....))))...)))))..)))))-----))))))...)))--)).)))....--......-- ( -31.70)
>DroAna_CAF1 174593 98 + 1
CUGGUUUUUG------------GAGUUGGGAACUCCAUAUUUGACGCCAGUUAAGCAUGAAAAUGCCAUUUAACAGAGGCC-----CAAAUAAAUAAA---AAGCAAGUUUCGGAGAG--
...(((((((------------((((.....))))).((((((..(((.(((((((((....))))...)))))...))).-----))))))....))---)))).............-- ( -24.00)
>DroPer_CAF1 195464 118 + 1
GCUGGUCCUGGCAAAAUGGCAAGAGAGGGGAACCCCAUAUUUGACGCCAGUUAAGCAUGAAAAUGCCAUUUAACAAUGGCCGACUCCAAAUAAAUAAAUAUAAAAAAGAU--GGAGAGAG
..(((((.((...((((((((.....(((....)))...((((((....))))))........))))))))..))..))))).(((((.....................)--)))).... ( -29.30)
>consensus
GUGCGUUUUG____________GAGUUGGGAACUCCAUAUUUGACGCCAGUUAAGCAUGAAAAUGCCAUUUAACAAUGGCC_____CAAAUAAAUAAA__AAAGCAAGCU__GGAAAC__
............................((....)).((((((..(((((((((((((....))))...)))))..))))......))))))............................ (-13.18 = -14.60 +   1.42)

alignment

secondary structure

dotplot

Window 9

Location	14,358,892 – 14,358,989
Length	97
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	78.82
Mean single sequence MFE	-26.60
Consensus MFE	-14.29
Energy contribution	-14.15
Covariance contribution	-0.14
Combinations/Pair	1.11
Mean z-score	-2.98
Structure conservation index	0.54
SVM decision value	1.77
SVM RNA-class probability	0.976539
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14358892 97 - 23771897
--GUUUCC--AGCUUGCUUU--UUUAUUUAUUUG-----CGCCAUUGUUAAAUGGCAUUUUCAUGCUCAACUGGCGUCAAAUAUGGAGUUCCCAACUC------------CAAAACGCAC
--......--....(((...--......((((((-----((((((((......(((((....)))))))).))))).))))))((((((.....))))------------))....))). ( -26.00)
>DroPse_CAF1 181002 117 - 1
CUCUCUCC--AUCUUUUUUAUAUUUAUUUAUUUGGAGUCGGCCAUUGUUAAAUGGCAUUUUCAUGCUUAACUGGCGUCAAAUAUGGGGUUCCCCUCUCUUGCCAUUUUGCCAGGACCAG-
....((((--(.....................)))))..((((...((.((((((((.(((.(((((.....))))).)))...(((....))).....)))))))).))..)).))..- ( -29.60)
>DroSec_CAF1 183395 98 - 1
--GUUUCC--AGCUUGCUUU-UUUUAUUUAUUUG-----UGCCAUUGUUAAAUGGCAUUUUCAUGCUCAACUGGCGUCAAAUAUGGAGUUCCCAACUC------------CAAAACGCAC
--......--....(((...-.......((((((-----(((((((....))))))).....(((((.....)))))))))))((((((.....))))------------))....))). ( -24.30)
>DroEre_CAF1 181800 97 - 1
--GUUUCC--AGCUUGCUGU--UUUAUUUAUUUG-----CGCCAUUGUUAAAUGGCAUUUUCAUGCUCAACUGGCGUCAAAUAUGGAGUUCCCAACUC------------CAAAACGCAC
--......--....(((.((--(((...((((((-----((((((((......(((((....)))))))).))))).)))))).(((((.....))))------------))))))))). ( -27.50)
>DroAna_CAF1 174593 98 - 1
--CUCUCCGAAACUUGCUU---UUUAUUUAUUUG-----GGCCUCUGUUAAAUGGCAUUUUCAUGCUUAACUGGCGUCAAAUAUGGAGUUCCCAACUC------------CAAAAACCAG
--.................---......((((((-----((((...((((...(((((....))))))))).))).)))))))((((((.....))))------------))........ ( -22.60)
>DroPer_CAF1 195464 118 - 1
CUCUCUCC--AUCUUUUUUAUAUUUAUUUAUUUGGAGUCGGCCAUUGUUAAAUGGCAUUUUCAUGCUUAACUGGCGUCAAAUAUGGGGUUCCCCUCUCUUGCCAUUUUGCCAGGACCAGC
....((((--(.....................)))))..((((...((.((((((((.(((.(((((.....))))).)))...(((....))).....)))))))).))..)).))... ( -29.60)
>consensus
__CUCUCC__AGCUUGCUUU__UUUAUUUAUUUG_____GGCCAUUGUUAAAUGGCAUUUUCAUGCUCAACUGGCGUCAAAUAUGGAGUUCCCAACUC____________CAAAACCCAC
....((((................................((((((....))))))..(((.(((((.....))))).)))...))))................................ (-14.29 = -14.15 +  -0.14)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:44:31 2006