Locus 3579

Sequence ID	X_DroMel_CAF1
Location	9,600,436 – 9,600,563
Length	127
Max. P	0.986869

overview

Window 8

Location	9,600,436 – 9,600,536
Length	100
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	73.29
Mean single sequence MFE	-40.37
Consensus MFE	-15.18
Energy contribution	-15.60
Covariance contribution	0.42
Combinations/Pair	1.29
Mean z-score	-2.72
Structure conservation index	0.38
SVM decision value	2.06
SVM RNA-class probability	0.986869
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9600436 100 + 22224390
UC-ACCCGGUCUGGA------------UCCCAGCUCCCUCGUGGAUAUAAAGCCACCGAUGGUUUGAGGAUCGCUGGGACCCUUCCUGUUCACCAACUAAAA-------CAGCGCAAGGG
..-.((((((...((------------((((((..((.((((((........))).))).)).))).))))))))))).(((((((((((..........))-------))).).))))) ( -35.50)
>DroVir_CAF1 88494 111 + 1
UAGUCCUGGUCUGGAUCAUCGACUGGAUCAUAGCGCUUUAGUCGACAUUAAGCCACCGAUGGUUUGAGGGUCGCUGGGACCCUUUUUGUUUACCAAUUGAG--------CAG-AAAUGGG
..((((..((...((((.(((((((((.(.....).)))))))))..((((((((....)))))))).))))))..))))((((((((((((.....))))--------)))-))).)). ( -39.50)
>DroGri_CAF1 71695 111 + 1
UAGUCCCGGUUUGGAUCAUCGACUCGAUCAUAGUGCUCUGGUUGAUAUAAAGCCACCGAUGGUUUGAGGUUCGCUGGGACCCUUUCUGUUCACCAACUGAA--------CAG-AAAUGGG
..((((((((..((((((((((((.((.(.....).)).)))))))...((((((....))))))..)))))))))))))((((((((((((.....))))--------)))-))).)). ( -43.50)
>DroYak_CAF1 62699 100 + 1
UC-ACCCGGUCUGGA------------UCCCAGCUCCCUUGUGGAUAUCAAGCCACCCAUGGUUUGAGGAUCGCUGGGACCCUUCCUGUUCACCAACUAAAG-------CAGCGCAAGGG
..-.((((((...((------------(((......((....))...((((((((....))))))))))))))))))).(((((((((((..........))-------))).).))))) ( -35.40)
>DroMoj_CAF1 84606 111 + 1
CAGUCCCGGUCUGGAUCAGCGUCUGGACCACAGCGCCCUGGUAGACAUCAAGCCGCCGAUGGUUUGAGGAUCGCUGGGACCCUUUUUGUUUACCAAUUGAA--------CAG-AAAUGGG
..(((((((((..(((....)))..))))..((((.((((.....))((((((((....))))))))))..)))))))))((((((((((((.....))))--------)))-))).)). ( -44.40)
>DroAna_CAF1 74670 107 + 1
UC-ACCGGGUCUGGA------------CCCAUCGUCCUUGGUGGACAUAAAGCCACCGAUGGUUUGAGGGUCGCUGGGUCCCUUUCUUUUCACCAACUAAUGGUCACAAAAAGGAAAGGG
..-(((.(((...((------------(((.(((.(((((((((........))))))).))..))))))))))).)))(((((((((((.((((.....)))).....))))))))))) ( -43.90)
>consensus
UA_ACCCGGUCUGGA____________UCACAGCGCCCUGGUGGACAUAAAGCCACCGAUGGUUUGAGGAUCGCUGGGACCCUUUCUGUUCACCAACUAAA________CAG_AAAAGGG
....(((((((((((((........)))).)))..........(((...((((((....))))))....))))))))).(((((((((.....................))).))).))) (-15.18 = -15.60 +   0.42)

alignment

secondary structure

dotplot

Window 9

Location	9,600,463 – 9,600,563
Length	100
Sequences	6
Columns	101
Reading direction	forward
Mean pairwise identity	86.31
Mean single sequence MFE	-32.88
Consensus MFE	-24.48
Energy contribution	-24.23
Covariance contribution	-0.24
Combinations/Pair	1.26
Mean z-score	-2.67
Structure conservation index	0.74
SVM decision value	0.19
SVM RNA-class probability	0.624902
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9600463 100 + 22224390
GUGGAUAUAAAGCCACCGAUGGUUUGAGGAUCGCUGGGACCCUUCCUGUUCACCAACUAAAACAGCGCAAGGGUUCCACACCAUAGAU-ACUACGUACCAC
((((........))))...((((.((((.(((..((((((((((((((((..........))))).).)))))))))).......)))-.)).)).)))). ( -29.40)
>DroSec_CAF1 59093 100 + 1
GUGGAUAUAAAGCCACCAAUGGUUUGAGGGUCGCUGGGACCCUUCCUGUUCACCAACUAAAGCAGUGCAAGGGUUCCACACCAUAGAU-ACUACGUACCAC
((((.(((.((((((....))))))...(((.(.((((((((((((((((..........))))).).))))))))))))))......-.....))))))) ( -32.00)
>DroSim_CAF1 46304 100 + 1
GUGGAUAUAAAGCCACCAAUGGUUUGAGGGUCGCUGGGACCCUUCCUGUUCACCAACUAAAGCAGUGCAAGGGUUCCACACCAUAGAU-ACUACGUACCAC
((((.(((.((((((....))))))...(((.(.((((((((((((((((..........))))).).))))))))))))))......-.....))))))) ( -32.00)
>DroEre_CAF1 63961 100 + 1
GUGGAUAUCAAGCCUCCCAUGGUUUGAGGAUCGCUGGGACCCUUCCUGUUCACCAACUAAAGCAGCGCAAGGGUUCCACACCUCAAAC-ACUACGUACUAC
((((((.(((((((......)))))))..)))(.((((((((((((((((..........))))).).)))))))))))........)-)).......... ( -33.90)
>DroYak_CAF1 62726 100 + 1
GUGGAUAUCAAGCCACCCAUGGUUUGAGGAUCGCUGGGACCCUUCCUGUUCACCAACUAAAGCAGCGCAAGGGUUCCACACCAUGAAU-ACCACGUACUAC
((((...((((((((....))))))))((...(.((((((((((((((((..........))))).).))))))))))).))......-.))))....... ( -35.30)
>DroMoj_CAF1 84646 99 + 1
GUAGACAUCAAGCCGCCGAUGGUUUGAGGAUCGCUGGGACCCUUUUUGUUUACCAAUUGAA-CAG-AAAUGGGUUCCUGGACGCAGUUCAAUGUGCACCAC
...((..((((((((....))))))))...))...(((((((((((((((((.....))))-)))-))).)))))))(((.((((......))))..))). ( -34.70)
>consensus
GUGGAUAUAAAGCCACCAAUGGUUUGAGGAUCGCUGGGACCCUUCCUGUUCACCAACUAAAGCAGCGCAAGGGUUCCACACCAUAGAU_ACUACGUACCAC
((((.....(((((......)))))..((.....((((((((((((((((..........))))).).))))))))))..))........))))....... (-24.48 = -24.23 +  -0.24)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:02:55 2006