Locus 6846

Sequence ID	X_DroMel_CAF1
Location	17,053,148 – 17,053,285
Length	137
Max. P	0.890134

overview

Window 8

Location	17,053,148 – 17,053,248
Length	100
Sequences	5
Columns	103
Reading direction	forward
Mean pairwise identity	74.60
Mean single sequence MFE	-39.72
Consensus MFE	-20.50
Energy contribution	-23.60
Covariance contribution	3.10
Combinations/Pair	1.25
Mean z-score	-1.98
Structure conservation index	0.52
SVM decision value	0.96
SVM RNA-class probability	0.890134
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17053148 100 + 22224390
GGAUGGGGCGGCAACUCCGGAUGGGGUGGAAACUCUGGUUGGAGCAGCGGCAACUCCGGAUGGAACAGCAAUGGAUGGU---CCAGUUCCAGCUCCAAUAGUG
(((.(..((.((..((((((..(((((....)))))..))))))..)).))..))))(((((((((.....(((.....---)))))))))..)))....... ( -39.70)
>DroGri_CAF1 63808 83 + 1
GGCUGGUCUGGCCAGAGCCUCGG------CAGCAGCGGCUGGUCUGGUGGCAACAAUGGCUGGGGCAGCAGCGCCUGGUAAUCAGGAUC--------------
.((((.((..((((..(((((((------((((....))))..)))).))).....))))..)).))))....((((.....))))...-------------- ( -36.50)
>DroSec_CAF1 52971 100 + 1
GGAUGGGGCGGCAACUCCGGAUGGGGUGGAAACUCUGGUUGGAGCAGCGGCAACUCCGGAUGGAACAGCAAUGGAUGGU---CCAGUUCCAGCUCGAAUAGUG
(((.(..((.((..((((((..(((((....)))))..))))))..)).))..))))((.((((((.....(((.....---)))))))))..))........ ( -37.20)
>DroEre_CAF1 53478 100 + 1
GGAUGGGGCAGCAACUCCGGAUGGGGUGGAAACUCUGGCUGGAGCAGCGGCAAUUCCGGAUGGAACAGCAAUGGAUGGU---CCAGUUCCAGCUCCAAUAGUG
...((((((.((..((((((..(((((....)))))..))))))..))((.((((..((((.(..((....))..).))---)))))))).))))))...... ( -40.00)
>DroYak_CAF1 55261 100 + 1
GGAUGGGGCGGCAACUCCGGAUGGGGUGGCAACUCUGGCUGGAGCAGCGACAACUCCGGAUGGAACAGCAAUGGCUGGU---CCAGUUCCAGCUCCAAUAGUG
...((((((((.(((((((((.(..((.((..((((....))))..)).))..)))))))((((.((((....)))).)---)))))))).))))))...... ( -45.20)
>consensus
GGAUGGGGCGGCAACUCCGGAUGGGGUGGAAACUCUGGCUGGAGCAGCGGCAACUCCGGAUGGAACAGCAAUGGAUGGU___CCAGUUCCAGCUCCAAUAGUG
...((((((.((..((((((..(((((....)))))..))))))..))............((((((.....(((........)))))))))))))))...... (-20.50 = -23.60 +   3.10)

alignment

secondary structure

dotplot

Window 9

Location	17,053,171 – 17,053,285
Length	114
Sequences	5
Columns	116
Reading direction	forward
Mean pairwise identity	88.50
Mean single sequence MFE	-39.43
Consensus MFE	-28.97
Energy contribution	-30.69
Covariance contribution	1.72
Combinations/Pair	1.16
Mean z-score	-1.76
Structure conservation index	0.73
SVM decision value	0.23
SVM RNA-class probability	0.642128
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17053171 114 + 22224390
GGGUGGAAACUCUGGUUGGAGCAGCGGCAACUCCGGAUGGAACAGCAAUGGAUGGUCCAGUUCCAGCUCCAAUAGUGGAUGGUGGU-AAAGAAUCGAAGAGCUACCAUCUCUA-GG
((((....))))..((((((((..(((.....)))..((((((.....(((.....)))))))))))))))))((.((((((((((-.............)))))))))))).-.. ( -41.52)
>DroSec_CAF1 52994 114 + 1
GGGUGGAAACUCUGGUUGGAGCAGCGGCAACUCCGGAUGGAACAGCAAUGGAUGGUCCAGUUCCAGCUCGAAUAGUGGAUGGUGGU-AAAGAAUCGAGGAGCUACCAUCUCUA-GG
((((....)))).(((((((((...(....)...((((.(..((....))..).)))).)))))))))....(((.((((((((((-.............)))))))))))))-.. ( -41.02)
>DroEre_CAF1 53501 115 + 1
GGGUGGAAACUCUGGCUGGAGCAGCGGCAAUUCCGGAUGGAACAGCAAUGGAUGGUCCAGUUCCAGCUCCAAUAGUGGAUGGUGGU-AAAGAGUCGAGCAGUUACCAUCUCGAAGG
((((....))))..((((((((...((.....))((((.(..((....))..).)))).))))))))((((....)))).((((((-((...(.....)..))))))))....... ( -39.20)
>DroYak_CAF1 55284 114 + 1
GGGUGGCAACUCUGGCUGGAGCAGCGACAACUCCGGAUGGAACAGCAAUGGCUGGUCCAGUUCCAGCUCCAAUAGUGGCUGGUGGU-AAAGAAUCGAGGAGUUACCAUCUCUA-GA
((((((.(((((((((((((.((((......(((....))).((....)))))).)))))))(((((..(....)..)))))....-..........)))))).))))))...-.. ( -44.50)
>DroAna_CAF1 53787 114 + 1
GGGUGGAAACUCUGGCUGGAGCAGCGGCAACUCUGGCUGGAACAACAACGGCUGGUCCAGUUCCGGCUCGAACAGUGGCUGGUGGUGAAAGAAAAGAAAAG-GACUAUGGAAA-GG
((((....)))).(((((((.(((((....)(((....))).........)))).)))))))((((((........))))))...................-...........-.. ( -30.90)
>consensus
GGGUGGAAACUCUGGCUGGAGCAGCGGCAACUCCGGAUGGAACAGCAAUGGAUGGUCCAGUUCCAGCUCCAAUAGUGGAUGGUGGU_AAAGAAUCGAGGAGCUACCAUCUCUA_GG
((((....)))).(((((((((..(((.....)))..((((.((........)).)))))))))))))........(((((((((................)))))))))...... (-28.97 = -30.69 +   1.72)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:24:20 2006