Locus 8139

Sequence ID	3L_DroMel_CAF1
Location	21,457,186 – 21,457,302
Length	116
Max. P	0.995640

overview

Window 6

Location	21,457,186 – 21,457,302
Length	116
Sequences	5
Columns	118
Reading direction	forward
Mean pairwise identity	81.58
Mean single sequence MFE	-38.28
Consensus MFE	-24.94
Energy contribution	-27.10
Covariance contribution	2.16
Combinations/Pair	1.18
Mean z-score	-3.23
Structure conservation index	0.65
SVM decision value	2.60
SVM RNA-class probability	0.995640
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21457186 116 + 23771897
UGGAAGGGCUGUUUGGGAGCAUAAACAAUGGAAAGGGU-UGCAUCUGUGGGAGCGUGUAUGUUUGUAUACGUAUACCCACACCAUUGUUACG-AUGCACCUGGAAGGCCAAAAGAGAA
......((((.((..((.((((.((((((((..(((..-....)))(((((.((((((((....))))))))...))))).))))))))...-)))).))..)).))))......... ( -45.80)
>DroSec_CAF1 5844 116 + 1
UGGAAGGGCUGUUUGGGAGCAUAAACAAUGGGAAGGGU-UGCAUCUGUGGGAGCGUGUAUGUUUGUAUACCUAUACCCACACCAUUGUUACG-AUGCACCUGGAAGGCCAAAAGAGAA
......((((.((..((.((((.((((((((..(((..-....)))(((((((.((((((....))))))))...))))).))))))))...-)))).))..)).))))......... ( -42.40)
>DroSim_CAF1 5810 116 + 1
UGGAAGGGCUGUUUGGGAGCAUAAACAAUGGGAAGGGU-UGCAUCUGUGGGAGCGUGUAUGUUUGUAUACCUAUACCCACACCAUUGUUACG-AUGCACCUGGAAGGCCAAAAGAGAA
......((((.((..((.((((.((((((((..(((..-....)))(((((((.((((((....))))))))...))))).))))))))...-)))).))..)).))))......... ( -42.40)
>DroYak_CAF1 5855 115 + 1
UGGAAG-GCUGUUUGGGAGCAUAAACAAUGGGAAGGGU-UGCAUCUGUGGGAGCGUGUAUGUUUGUAUACUUAUACCCAUACCAUUGUUACG-AUGCACCUGGAAGGCCAAAAGAGAA
.....(-(((.((..((.((((.((((((((...((((-.((.((.....))))((((((....))))))....))))...))))))))...-)))).))..)).))))......... ( -41.90)
>DroAna_CAF1 5634 99 + 1
------------U---UAAUUCAACCAUUUAGUCGGGUGUCUAUGUGUGAGACAGUGUCUGCUUGUACAUCAAUG----UAUGAAUAUUACGGAUGCACUUGGAAGGCCAAAAGAGAA
------------.---...(((..((........))(((((((((((..((.(((...)))))..)))))....(----((.......)))))))))..((((....))))..))).. ( -18.90)
>consensus
UGGAAGGGCUGUUUGGGAGCAUAAACAAUGGGAAGGGU_UGCAUCUGUGGGAGCGUGUAUGUUUGUAUACCUAUACCCACACCAUUGUUACG_AUGCACCUGGAAGGCCAAAAGAGAA
......((((.((..((.((((.((((((((...((((.......((((.(((((....))))).)))).....))))...))))))))....)))).))..)).))))......... (-24.94 = -27.10 +   2.16)

alignment

secondary structure

dotplot

Window 7

Location	21,457,186 – 21,457,302
Length	116
Sequences	5
Columns	118
Reading direction	reverse
Mean pairwise identity	81.58
Mean single sequence MFE	-28.40
Consensus MFE	-15.72
Energy contribution	-16.88
Covariance contribution	1.16
Combinations/Pair	1.22
Mean z-score	-2.88
Structure conservation index	0.55
SVM decision value	1.67
SVM RNA-class probability	0.971367
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21457186 116 - 23771897
UUCUCUUUUGGCCUUCCAGGUGCAU-CGUAACAAUGGUGUGGGUAUACGUAUACAAACAUACACGCUCCCACAGAUGCA-ACCCUUUCCAUUGUUUAUGCUCCCAAACAGCCCUUCCA
.........(((......((.((((-...((((((((...((((....((((......))))..((((.....)).)).-))))...)))))))).)))).))......)))...... ( -31.30)
>DroSec_CAF1 5844 116 - 1
UUCUCUUUUGGCCUUCCAGGUGCAU-CGUAACAAUGGUGUGGGUAUAGGUAUACAAACAUACACGCUCCCACAGAUGCA-ACCCUUCCCAUUGUUUAUGCUCCCAAACAGCCCUUCCA
.........(((......((.((((-...((((((((((((((.....((((......)))).....))))))((....-.....)))))))))).)))).))......)))...... ( -30.90)
>DroSim_CAF1 5810 116 - 1
UUCUCUUUUGGCCUUCCAGGUGCAU-CGUAACAAUGGUGUGGGUAUAGGUAUACAAACAUACACGCUCCCACAGAUGCA-ACCCUUCCCAUUGUUUAUGCUCCCAAACAGCCCUUCCA
.........(((......((.((((-...((((((((((((((.....((((......)))).....))))))((....-.....)))))))))).)))).))......)))...... ( -30.90)
>DroYak_CAF1 5855 115 - 1
UUCUCUUUUGGCCUUCCAGGUGCAU-CGUAACAAUGGUAUGGGUAUAAGUAUACAAACAUACACGCUCCCACAGAUGCA-ACCCUUCCCAUUGUUUAUGCUCCCAAACAGC-CUUCCA
.........(((......((.((((-...((((((((...((((....((((......))))..((((.....)).)).-))))...)))))))).)))).))......))-)..... ( -30.90)
>DroAna_CAF1 5634 99 - 1
UUCUCUUUUGGCCUUCCAAGUGCAUCCGUAAUAUUCAUA----CAUUGAUGUACAAGCAGACACUGUCUCACACAUAGACACCCGACUAAAUGGUUGAAUUA---A------------
.((((((((((....))))(((((((.(((.......))----)...)))))))))).)))...(((((.......)))))..(((((....))))).....---.------------ ( -18.00)
>consensus
UUCUCUUUUGGCCUUCCAGGUGCAU_CGUAACAAUGGUGUGGGUAUAGGUAUACAAACAUACACGCUCCCACAGAUGCA_ACCCUUCCCAUUGUUUAUGCUCCCAAACAGCCCUUCCA
........(((....)))((.((((....((((((((...((((....((((......))))..((..........))..))))...)))))))).)))).))............... (-15.72 = -16.88 +   1.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:07:16 2006