Locus 2810

Sequence ID	3L_DroMel_CAF1
Location	8,032,692 – 8,032,810
Length	118
Max. P	0.934200

overview

Window 8

Location	8,032,692 – 8,032,810
Length	118
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	93.60
Mean single sequence MFE	-47.14
Consensus MFE	-37.70
Energy contribution	-39.70
Covariance contribution	2.00
Combinations/Pair	1.00
Mean z-score	-2.06
Structure conservation index	0.80
SVM decision value	1.23
SVM RNA-class probability	0.934200
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8032692 118 + 23771897
GCGCGAAGCUCGGUUUGGAGAGCGUCU--CUCCAGCUUUGUCGAGCUUUGUGCCCAUGCGUGCGAGAUCUUCGCCGGAAAGCUCUGACAAAUUCGGAAUCAGGCUGAGAUUUCAAUCGCG
(((((((((((((.((((((((...))--)))))).....)))))))))))))....(((...((((((((.(((.((....(((((.....))))).)).))).))))))))...))). ( -52.70)
>DroSec_CAF1 4142 118 + 1
GCGCGAAGCUCGGUUUGGAGAGCGUCG--CUCCAGCUUUGUCGAGCUUUGUGCCCAUGCGUGCGAGAUCUUCGCCGGAAAGCUCUGACCAAUUCGAAAUCAGGCUGAGAUUUCAAUCGCG
(((((((((((((.((((((.......--)))))).....)))))))))))))....(((...((((((((.((((((....)))((.....)).......))).))))))))...))). ( -45.00)
>DroSim_CAF1 4037 118 + 1
GCGCGAAGCUCGGUUUGGAGAGCGUCU--CUCCAGCUUUGUCGAGCUUUGUGCCCAUGCGUGCGAGAUCUUCGCCGGAAAGCUCUGACCAAUUCGAAAUCAGGCUGAGAUUUCAAUCGCG
(((((((((((((.((((((((...))--)))))).....)))))))))))))....(((...((((((((.((((((....)))((.....)).......))).))))))))...))). ( -48.40)
>DroEre_CAF1 4093 120 + 1
GCGCGAAGCUCGGUUUGGAGAGCGUCUCUCUCCAGCUUUGGCGAGCUUUGUGCCCAUGCGUACGAGAUCUUCACCGGAAAGCUCUGACCCAUUCGGAAUCAGGCUGAGCGUUCAAUCGAG
((((((((((((.(((((((((.....))))))))....).))))))))))))..((((........(((.....))).(((.((((.((....))..)))))))..))))......... ( -41.60)
>DroYak_CAF1 4154 118 + 1
GCGCGAAGCUCGGUUUGGAGAGCGUCU--CUCCAGCUUUGGCGAGCUUUAUGCCCAUGCGUAUGAGAUCUUCGCCGGAAAGCUCUGACCCAUUGGGAGUCAGGCUGAGCUUUCAAUCGAG
....((((((((((.(((((((...))--)))))((((((((((.((((((((....))))).)))....)))))..))))).(((((((....)).)))))))))))))))........ ( -48.00)
>consensus
GCGCGAAGCUCGGUUUGGAGAGCGUCU__CUCCAGCUUUGUCGAGCUUUGUGCCCAUGCGUGCGAGAUCUUCGCCGGAAAGCUCUGACCAAUUCGGAAUCAGGCUGAGAUUUCAAUCGCG
((((((((((((.(((((((.........))))))....).))))))))))))....(((...((((((((.(((.((....(((((.....))))).)).))).))))))))...))). (-37.70 = -39.70 +   2.00)

alignment

secondary structure

dotplot

Window 9

Location	8,032,692 – 8,032,810
Length	118
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	93.60
Mean single sequence MFE	-40.92
Consensus MFE	-31.96
Energy contribution	-32.24
Covariance contribution	0.28
Combinations/Pair	1.06
Mean z-score	-1.52
Structure conservation index	0.78
SVM decision value	-0.03
SVM RNA-class probability	0.516256
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8032692 118 - 23771897
CGCGAUUGAAAUCUCAGCCUGAUUCCGAAUUUGUCAGAGCUUUCCGGCGAAGAUCUCGCACGCAUGGGCACAAAGCUCGACAAAGCUGGAG--AGACGCUCUCCAAACCGAGCUUCGCGC
(((((......((((........((((..((((((.(((((((...((((.....))))..((....))..)))))))))))))..)))))--))).((((........)))).))))). ( -39.80)
>DroSec_CAF1 4142 118 - 1
CGCGAUUGAAAUCUCAGCCUGAUUUCGAAUUGGUCAGAGCUUUCCGGCGAAGAUCUCGCACGCAUGGGCACAAAGCUCGACAAAGCUGGAG--CGACGCUCUCCAAACCGAGCUUCGCGC
.((..((((((((.......))))))))....(((.(((((((...((((.....))))..((....))..))))))))))...))....(--(((.((((........)))).)))).. ( -40.00)
>DroSim_CAF1 4037 118 - 1
CGCGAUUGAAAUCUCAGCCUGAUUUCGAAUUGGUCAGAGCUUUCCGGCGAAGAUCUCGCACGCAUGGGCACAAAGCUCGACAAAGCUGGAG--AGACGCUCUCCAAACCGAGCUUCGCGC
(((((((((((((.......)))))))).(((((...((((((.((((((.....)))).))..(((((.....)))))..))))))((((--((...))))))..)))))...))))). ( -42.10)
>DroEre_CAF1 4093 120 - 1
CUCGAUUGAACGCUCAGCCUGAUUCCGAAUGGGUCAGAGCUUUCCGGUGAAGAUCUCGUACGCAUGGGCACAAAGCUCGCCAAAGCUGGAGAGAGACGCUCUCCAAACCGAGCUUCGCGC
..........((...((((((((((.....))))))).)))...))((((((..((((...((...(((.........)))...))(((((((.....)))))))...)))))))))).. ( -39.40)
>DroYak_CAF1 4154 118 - 1
CUCGAUUGAAAGCUCAGCCUGACUCCCAAUGGGUCAGAGCUUUCCGGCGAAGAUCUCAUACGCAUGGGCAUAAAGCUCGCCAAAGCUGGAG--AGACGCUCUCCAAACCGAGCUUCGCGC
.......((((((((....((((((.....))))))))))))))..((((((..(((....((...(((.........)))...))(((((--((...)))))))....))))))))).. ( -43.30)
>consensus
CGCGAUUGAAAUCUCAGCCUGAUUCCGAAUUGGUCAGAGCUUUCCGGCGAAGAUCUCGCACGCAUGGGCACAAAGCUCGACAAAGCUGGAG__AGACGCUCUCCAAACCGAGCUUCGCGC
(((((........(((((((((((.......)))))).))).((((((((.....)).......(((((.....))))).....))))))....)).((((........)))).))))). (-31.96 = -32.24 +   0.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:42:16 2006