Locus 430

Sequence ID	2L_DroMel_CAF1
Location	1,268,485 – 1,268,585
Length	100
Max. P	0.633171

overview

Window 2

Location	1,268,485 – 1,268,585
Length	100
Sequences	6
Columns	102
Reading direction	forward
Mean pairwise identity	87.79
Mean single sequence MFE	-38.57
Consensus MFE	-29.03
Energy contribution	-29.42
Covariance contribution	0.39
Combinations/Pair	1.09
Mean z-score	-2.87
Structure conservation index	0.75
SVM decision value	0.21
SVM RNA-class probability	0.633171
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1268485 100 + 22407834
GUGUUUU--UGCAGAUGGCAUAGUGUCAGGUAUGCCUGGCUGGAGACUAAGCUGCCGUUAAGGCUCCAACUGGAGCCGAAGCCAAAGCUCGAGCCAAGUGCA
.......--((((..((((.....((((((....)))))).(....)..((((...(((..((((((....))))))..)))...))))...))))..)))) ( -39.90)
>DroSec_CAF1 28090 100 + 1
GUGUUUU--UGCAGAUGGCAUAGUGUCAGGUAUGCCUGGCUGGAGACUAAGCUGCCGUUAAGGCUCCAACUGGAGCCGAAGCCAAAGCUCGAGCCAAGUGCA
.......--((((..((((.....((((((....)))))).(....)..((((...(((..((((((....))))))..)))...))))...))))..)))) ( -39.90)
>DroSim_CAF1 29416 100 + 1
GUGUUUU--UGCAGAUGGCACAGUGUCAGGUAUGCCUGGCUGGAGACUAAGCUGCCGUUAAGGCUCCAACUGGAGCCGAAGCCAAAGCUCGAGCCAAGUGCA
.......--((((..((((.....((((((....)))))).(....)..((((...(((..((((((....))))))..)))...))))...))))..)))) ( -39.90)
>DroEre_CAF1 40687 88 + 1
GUGUUUU--UGCAGAUGGCAUAGUGUCAGGCAUGCUUGGCUGGAGACUAAGCUGCCGUUAAGGCUCCAACUGAAGCC-AAGCCAA-GU----------UGCA
.......--(((((.((((.........((((.(((((((....).)))))))))).....((((.(....).))))-..)))).-.)----------)))) ( -30.90)
>DroYak_CAF1 29148 99 + 1
GUGUUUU--UGCAGAUGGCAUAGUGUCAGGUAUGCCUGGCUGGAGACUAAGCUGCCGUUAAGGCUCCAACUGAAGCC-AAGCCAAAGCUGGAGCCAAGUGCA
.......--(((((((((((....((((((....)))))).(....).....)))))))..(((((((.((...((.-..))...)).)))))))...)))) ( -38.10)
>DroAna_CAF1 52337 96 + 1
UUGUUUUGGGGCAGGUGGCACAGUGUCAGGAAUGGCUGGCUGGAGACUAAGCUGCCGUUAAGGCUCCAACGAGAGCC------AGAGACUGAGCCAAGUGCA
..........(((..((((.((((.((...((((((.(((((....)..))))))))))..(((((......)))))------.)).)))).))))..))). ( -42.70)
>consensus
GUGUUUU__UGCAGAUGGCAUAGUGUCAGGUAUGCCUGGCUGGAGACUAAGCUGCCGUUAAGGCUCCAACUGGAGCC_AAGCCAAAGCUCGAGCCAAGUGCA
..........((((((((((....((((((....)))))).(....).....)))))))..((((((....)))))).....................))). (-29.03 = -29.42 +   0.39)

alignment

secondary structure

dotplot

Window 3

Location	1,268,485 – 1,268,585
Length	100
Sequences	6
Columns	102
Reading direction	reverse
Mean pairwise identity	87.79
Mean single sequence MFE	-35.67
Consensus MFE	-24.47
Energy contribution	-25.30
Covariance contribution	0.83
Combinations/Pair	1.12
Mean z-score	-3.55
Structure conservation index	0.69
SVM decision value	0.05
SVM RNA-class probability	0.560436
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1268485 100 - 22407834
UGCACUUGGCUCGAGCUUUGGCUUCGGCUCCAGUUGGAGCCUUAACGGCAGCUUAGUCUCCAGCCAGGCAUACCUGACACUAUGCCAUCUGCA--AAAACAC
((((..(((((.(((((..((((((((((((....)))))).....)).)))).)).))).)))))((((((........))))))...))))--....... ( -38.20)
>DroSec_CAF1 28090 100 - 1
UGCACUUGGCUCGAGCUUUGGCUUCGGCUCCAGUUGGAGCCUUAACGGCAGCUUAGUCUCCAGCCAGGCAUACCUGACACUAUGCCAUCUGCA--AAAACAC
((((..(((((.(((((..((((((((((((....)))))).....)).)))).)).))).)))))((((((........))))))...))))--....... ( -38.20)
>DroSim_CAF1 29416 100 - 1
UGCACUUGGCUCGAGCUUUGGCUUCGGCUCCAGUUGGAGCCUUAACGGCAGCUUAGUCUCCAGCCAGGCAUACCUGACACUGUGCCAUCUGCA--AAAACAC
((((..(((((.(((((..((((((((((((....)))))).....)).)))).)).))).)))))((((((........))))))...))))--....... ( -38.20)
>DroEre_CAF1 40687 88 - 1
UGCA----------AC-UUGGCUU-GGCUUCAGUUGGAGCCUUAACGGCAGCUUAGUCUCCAGCCAAGCAUGCCUGACACUAUGCCAUCUGCA--AAAACAC
((((----------..-.((((..-((((((....)))))).....((((((((.((.....)).)))).)))).........))))..))))--....... ( -30.30)
>DroYak_CAF1 29148 99 - 1
UGCACUUGGCUCCAGCUUUGGCUU-GGCUUCAGUUGGAGCCUUAACGGCAGCUUAGUCUCCAGCCAGGCAUACCUGACACUAUGCCAUCUGCA--AAAACAC
((((...((((((((((..(((..-.)))..)))))))))).....(((((((........)))((((....))))......))))...))))--....... ( -36.50)
>DroAna_CAF1 52337 96 - 1
UGCACUUGGCUCAGUCUCU------GGCUCUCGUUGGAGCCUUAACGGCAGCUUAGUCUCCAGCCAGCCAUUCCUGACACUGUGCCACCUGCCCCAAAACAA
.(((..((((.((((.(((------((((...(((((((.((...(....)...)).))))))).))))).....)).)))).))))..))).......... ( -32.60)
>consensus
UGCACUUGGCUCGAGCUUUGGCUU_GGCUCCAGUUGGAGCCUUAACGGCAGCUUAGUCUCCAGCCAGGCAUACCUGACACUAUGCCAUCUGCA__AAAACAC
.(((..((((.......((((....((((((....)))))).....(((......))).)))).((((....)))).......))))..))).......... (-24.47 = -25.30 +   0.83)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:36:06 2006