Locus 8360

Sequence ID	3L_DroMel_CAF1
Location	21,947,193 – 21,947,304
Length	111
Max. P	0.940644

overview

Window 5

Location	21,947,193 – 21,947,304
Length	111
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	83.33
Mean single sequence MFE	-37.80
Consensus MFE	-22.68
Energy contribution	-22.40
Covariance contribution	-0.28
Combinations/Pair	1.26
Mean z-score	-2.09
Structure conservation index	0.60
SVM decision value	0.27
SVM RNA-class probability	0.659710
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21947193 111 + 23771897
UA---------GCCAACUCGAACGACCAACCGAAAGUAUUUAGUCACAAACUGUCACAUGUGAUUGUGACGCAUUCGGCUGGUCGGUUAACCCCAGCGGUUGUCAUUUUGCGGCCAGAGU
..---------....((((...((((((.(((((.((.....((((((....((((....)))))))))))).))))).))))))............((((((......)))))).)))) ( -37.80)
>DroSec_CAF1 68867 111 + 1
UA---------GCCAACUCGAACGACCAACCGAAAGUAUUUAGUCACAAACUGUCACAUGUGAUUGUGACGCAUUCGGCUGGUCGGUUGGCCCCAGCAGUUGUCAUUUUGCGGCCAGAGU
..---------....((((...((((((.(((((.((.....((((((....((((....)))))))))))).))))).))))))..(((((...((((........))))))))))))) ( -42.00)
>DroEre_CAF1 68648 119 + 1
UGGCCACAAUGGCCAACUCGAACGCCCAACGGAAAGUAUUUAGUCGCAAACUGUCACAUGUGAUUAUGACGCAUUCAGCUGGUCGGUCUACCC-AGCAGUUGUCAUUUUGUGGCCAAAGU
(((((((((((((.((((.(((.((((...))...((...((((((((..........))))))))..)))).))).(((((.........))-))))))))))))..)))))))).... ( -39.20)
>DroYak_CAF1 84719 111 + 1
UG---------ACCAGCUCAAAAGCGCAACCGAAAGUAUUUAGUCACAAACUGUCACAUGUGAUUGUGACGCAUUCAGCUGGUCGGUCUGCCCGAGCAGUUGUCAUUUUGUGCCCAGAGU
..---------....((((....((((((.(....)......((((((....((((....)))))))))).....((((((.((((.....)))).)))))).....))))))...)))) ( -34.80)
>DroAna_CAF1 76983 110 + 1
UG---------CCCGACACGAAUUUGCAGCCAAAAGUAUUUAGUCACAAGCCGUCACAUGUGAUUGUGACGCAUUCGACUGGCCGGCUGUCCCCGGCAGUUGUCAU-UUGUGGCCAGAGU
..---------.....(((((((..(((((..........(((((....((.((((((......))))))))....)))))(((((......))))).))))).))-)))))........ ( -35.20)
>consensus
UG_________GCCAACUCGAACGACCAACCGAAAGUAUUUAGUCACAAACUGUCACAUGUGAUUGUGACGCAUUCGGCUGGUCGGUUGACCCCAGCAGUUGUCAUUUUGUGGCCAGAGU
......................................(((.((((((((.(((((((......)))))))....((((((.(.((.....)).).))))))....)))))))).))).. (-22.68 = -22.40 +  -0.28)

alignment

secondary structure

dotplot

Window 6

Location	21,947,193 – 21,947,304
Length	111
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	83.33
Mean single sequence MFE	-40.66
Consensus MFE	-24.42
Energy contribution	-24.74
Covariance contribution	0.32
Combinations/Pair	1.41
Mean z-score	-2.83
Structure conservation index	0.60
SVM decision value	1.31
SVM RNA-class probability	0.940644
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21947193 111 - 23771897
ACUCUGGCCGCAAAAUGACAACCGCUGGGGUUAACCGACCAGCCGAAUGCGUCACAAUCACAUGUGACAGUUUGUGACUAAAUACUUUCGGUUGGUCGUUCGAGUUGGC---------UA
....(((((((........((((.....))))...((((((((((((...((((((......))))))((((...)))).......)))))))))))).....).))))---------)) ( -38.60)
>DroSec_CAF1 68867 111 - 1
ACUCUGGCCGCAAAAUGACAACUGCUGGGGCCAACCGACCAGCCGAAUGCGUCACAAUCACAUGUGACAGUUUGUGACUAAAUACUUUCGGUUGGUCGUUCGAGUUGGC---------UA
(((((((((.((.............)).)))))..((((((((((((...((((((......))))))((((...)))).......))))))))))))...))))....---------.. ( -42.12)
>DroEre_CAF1 68648 119 - 1
ACUUUGGCCACAAAAUGACAACUGCU-GGGUAGACCGACCAGCUGAAUGCGUCAUAAUCACAUGUGACAGUUUGCGACUAAAUACUUUCCGUUGGGCGUUCGAGUUGGCCAUUGUGGCCA
....((((((((..(((.((((((((-((.........)))))(((((((((((((......))))))......((((..((....))..)))).))))))))))))..))))))))))) ( -44.00)
>DroYak_CAF1 84719 111 - 1
ACUCUGGGCACAAAAUGACAACUGCUCGGGCAGACCGACCAGCUGAAUGCGUCACAAUCACAUGUGACAGUUUGUGACUAAAUACUUUCGGUUGCGCUUUUGAGCUGGU---------CA
..((((((((............))))))))......((((((((.((.((((((((......)))))).....(..((..((....))..))..)))..)).)))))))---------). ( -40.60)
>DroAna_CAF1 76983 110 - 1
ACUCUGGCCACAA-AUGACAACUGCCGGGGACAGCCGGCCAGUCGAAUGCGUCACAAUCACAUGUGACGGCUUGUGACUAAAUACUUUUGGCUGCAAAUUCGUGUCGGG---------CA
......(((....-.(((((((((((((......)))).))))(((((.(((((((......)))))))..((((..(((((....)))))..))))))))))))))))---------). ( -38.00)
>consensus
ACUCUGGCCACAAAAUGACAACUGCUGGGGCAAACCGACCAGCCGAAUGCGUCACAAUCACAUGUGACAGUUUGUGACUAAAUACUUUCGGUUGGGCGUUCGAGUUGGC_________CA
.(((((((...............)))))))(((((((((((((((((...((((((......))))))((((...)))).......)))))))))....))).)))))............ (-24.42 = -24.74 +   0.32)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:13:27 2006