Locus 6080

Sequence ID	2L_DroMel_CAF1
Location	17,077,650 – 17,077,795
Length	145
Max. P	0.999131

overview

Window 2

Location	17,077,650 – 17,077,759
Length	109
Sequences	5
Columns	109
Reading direction	reverse
Mean pairwise identity	98.35
Mean single sequence MFE	-31.55
Consensus MFE	-28.32
Energy contribution	-28.52
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-3.16
Structure conservation index	0.90
SVM decision value	3.39
SVM RNA-class probability	0.999131
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17077650 109 - 22407834
CCCCAAGGGGUCAAAGGGUGAAAAUGCUUAACCAAAGGCAUUUUUAUCAGCCGAGGUCUUAACACGCAUAUACAAAUAUGCCAGACACACACUCACACCUACCGGGCUG
(((....)))......(((((((((((((......)))))))))))))((((.((((........((((((....))))))..((.......))..))))....)))). ( -31.40)
>DroSec_CAF1 41577 108 - 1
CCCCAAGGGGUCAAAGAGUGAAAAUGCUUAACCAAAGGCAUUUUUAUCAGCCGAGGUCUUAACACGCAUAUACAAAUAUGCCAGACACACACUCACACCUAC-GGACUG
(((....))).......((((((((((((......))))))))))))((((((((((........((((((....))))))..((.......))..)))).)-)).))) ( -29.90)
>DroSim_CAF1 37064 108 - 1
CCCCAAGGGGUCAAAGGGUGAAAAUGCUUAACCAAAGGCAUUUUUAUCAGCCGAGGUCUUAACACGCAUAUACAAAUAUGCCAGACACACACUCACACCUAC-GGGCUG
(((....)))......(((((((((((((......)))))))))))))((((.((((........((((((....))))))..((.......))..))))..-.)))). ( -32.00)
>DroEre_CAF1 41326 109 - 1
CCCCAAGGGGUCAAAGGGUGAAAAUGCUUAACCAAAGGCAUUUUUAUCAGCCGAGGUCUUAACACGCAUAUACAAAUAUGCCAGACACACACUCACACCUACUGGGCUG
.((((..((((.....(((((((((((((......)))))))))))))....(((..........((((((....))))))..........)))..))))..))))... ( -32.95)
>DroYak_CAF1 41737 109 - 1
CCCCAAGGGGUCAAAGAGUGAAAAUGCUUAACCAAAGGCAUUUUUAUCAGCCGAGGUCUUAACACGCAUAUACAAAUAUGCCAGACACACACUCACACCUACUGGGCUG
.((((..((((....((((((((((((((......)))))))))...........((((......((((((....)))))).))))...)))))..))))..))))... ( -31.50)
>consensus
CCCCAAGGGGUCAAAGGGUGAAAAUGCUUAACCAAAGGCAUUUUUAUCAGCCGAGGUCUUAACACGCAUAUACAAAUAUGCCAGACACACACUCACACCUAC_GGGCUG
(((....))).......((((((((((((......))))))))))))(((((.((((........((((((....))))))..((.......))..))))....))))) (-28.32 = -28.52 +   0.20)

alignment

secondary structure

dotplot

Window 3

Location	17,077,679 – 17,077,795
Length	116
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	91.01
Mean single sequence MFE	-28.52
Consensus MFE	-26.60
Energy contribution	-26.43
Covariance contribution	-0.17
Combinations/Pair	1.12
Mean z-score	-1.01
Structure conservation index	0.93
SVM decision value	-0.01
SVM RNA-class probability	0.529912
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17077679 116 + 22407834
CAUAUUUGUAUAUGCGUGUUAAGACCUCGGCUGAUAAAAAUGCCUUUGGUUAAGCAUUUUCACCCUUUGACCCCUUGGGGUAGGCAUGCAUA--ACAUACAAUCCCGAGC--CCAAUGGC
.....(((((((((((((((..((((..(((..........)))...))))..........(((((..(....)..))))).))))))))))--...)))))......((--(....))) ( -31.30)
>DroPse_CAF1 30303 115 + 1
CAUAUUUGUAUAUGCGUGUUAAGACCUCGGCUGAUAAAAAUGCCUUUGGUUAAACAUUCUCACCCUUUGACCCCCUAGGG--GGCACGCAUACAUCGUACAUUCACAUUCAUUC---AAC
......((((((((((((....((((..(((..........)))...))))...................((((....))--))))))))).....))))).............---... ( -27.80)
>DroSec_CAF1 41605 116 + 1
CAUAUUUGUAUAUGCGUGUUAAGACCUCGGCUGAUAAAAAUGCCUUUGGUUAAGCAUUUUCACUCUUUGACCCCUUGGGGUAGGCGUGCAUA--ACAUACGAUCCCGAGU--CCAAUAGC
.....(((((((((((((((...((((((((..........)))...(((((((...........)))))))....))))).))))))))))--...)))))........--........ ( -25.30)
>DroSim_CAF1 37092 116 + 1
CAUAUUUGUAUAUGCGUGUUAAGACCUCGGCUGAUAAAAAUGCCUUUGGUUAAGCAUUUUCACCCUUUGACCCCUUGGGGUAGGCAUGCAUA--ACAUACGAUCCCGAGC--CCAAUAGC
.....(((((((((((((((..((((..(((..........)))...))))..........(((((..(....)..))))).))))))))))--...)))))........--........ ( -28.90)
>DroEre_CAF1 41355 116 + 1
CAUAUUUGUAUAUGCGUGUUAAGACCUCGGCUGAUAAAAAUGCCUUUGGUUAAGCAUUUUCACCCUUUGACCCCUUGGGGUAGGCAUGCAUA--ACAUACGAUCCUGAGC--CCAAUAGC
((...(((((((((((((((..((((..(((..........)))...))))..........(((((..(....)..))))).))))))))))--...)))))...))...--........ ( -29.10)
>DroYak_CAF1 41766 118 + 1
CAUAUUUGUAUAUGCGUGUUAAGACCUCGGCUGAUAAAAAUGCCUUUGGUUAAGCAUUUUCACUCUUUGACCCCUUGGGGUAGGCAUGCAUA--ACAUACGAUCCCGAGCCCCCAAUAGC
.....(((((((((((((((...((((((((..........)))...(((((((...........)))))))....))))).))))))))))--...))))).................. ( -28.70)
>consensus
CAUAUUUGUAUAUGCGUGUUAAGACCUCGGCUGAUAAAAAUGCCUUUGGUUAAGCAUUUUCACCCUUUGACCCCUUGGGGUAGGCAUGCAUA__ACAUACGAUCCCGAGC__CCAAUAGC
.....(((((((((((((((..((((..(((..........)))...))))..................((((....)))).)))))))))).....))))).................. (-26.60 = -26.43 +  -0.17)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:00:52 2006