Locus 6042

Sequence ID	2L_DroMel_CAF1
Location	17,013,287 – 17,013,385
Length	98
Max. P	0.854641

overview

Window 2

Location	17,013,287 – 17,013,385
Length	98
Sequences	5
Columns	102
Reading direction	forward
Mean pairwise identity	94.28
Mean single sequence MFE	-26.25
Consensus MFE	-21.12
Energy contribution	-21.08
Covariance contribution	-0.04
Combinations/Pair	1.05
Mean z-score	-1.83
Structure conservation index	0.80
SVM decision value	0.80
SVM RNA-class probability	0.854641
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17013287 98 + 22407834
UUGGCCAUUUUCGAGCACACAUACAGAUA----UAUACGCGUGGAUGGAAACGUGUCUGUGUGUAUUUAACGUGCCUUAAAUCACAUUUGGUCUGUAAUCAA
.(((((......).)).))..((((((((----((((((((.(.(((....))).).))))))))).....(((........))).....)))))))..... ( -23.50)
>DroSec_CAF1 120961 98 + 1
UUGACCAUUUUCGAGCACACAUACAGAUA----UAUACGCGUGGAUGGAAACGUGUCUGUGUGUAUUUAACGUGCCUUAAAUCACAUUUGGUCUGUAAUCAA
..(((((.....(((((((((((((((..----....(((((........)))))))))))))).......))))......)).....)))))......... ( -23.71)
>DroSim_CAF1 123926 98 + 1
UUGACCAUUUUCGAGCACACAUACAGAUA----UAUACGCGUGGAUGGAAACGUGUCUGUGUGUAUUUAACGUGCCUUAAAUCACAUUUGGUCUGUAAUCAA
..(((((.....(((((((((((((((..----....(((((........)))))))))))))).......))))......)).....)))))......... ( -23.71)
>DroEre_CAF1 122692 98 + 1
AUGACAAUUUUGGAGCACACAUACAGAUA----CACACGCGUGGGUGGAAACGUGUCUGUGUGUAUUUAACGUGCCUUAAAUCACAUUUGGUCUGUAAUCAA
..(((.((((.((.(((((((((((((((----(.((....))...(....))))))))))))).......)))))).))))((....)))))......... ( -25.11)
>DroYak_CAF1 123257 102 + 1
UUGCCAAUUUUGGGGCACACAUACAGAUAUGUAUAUACGCGUGGGUGGAAACGUGUCUGUGUGUAUUUAACGUGCCUUAAAUCACAUUUGGUCUGUAAUCAA
..(((((.((((((((((((((((((((((((...(((......)))...)))))))))))))).......))))))))))......))))).......... ( -35.21)
>consensus
UUGACCAUUUUCGAGCACACAUACAGAUA____UAUACGCGUGGAUGGAAACGUGUCUGUGUGUAUUUAACGUGCCUUAAAUCACAUUUGGUCUGUAAUCAA
.....................(((((((......(((((((..((((....))..))..))))))).....(((........))).....)))))))..... (-21.12 = -21.08 +  -0.04)

alignment

secondary structure

dotplot

Window 3

Location	17,013,287 – 17,013,385
Length	98
Sequences	5
Columns	102
Reading direction	reverse
Mean pairwise identity	94.28
Mean single sequence MFE	-22.34
Consensus MFE	-17.62
Energy contribution	-18.10
Covariance contribution	0.48
Combinations/Pair	1.08
Mean z-score	-1.63
Structure conservation index	0.79
SVM decision value	0.18
SVM RNA-class probability	0.622281
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17013287 98 - 22407834
UUGAUUACAGACCAAAUGUGAUUUAAGGCACGUUAAAUACACACAGACACGUUUCCAUCCACGCGUAUA----UAUCUGUAUGUGUGCUCGAAAAUGGCCAA
..(((((((.......)))))))...(((..((.....)).........(((((.(...((((((((((----....))))))))))...).)))))))).. ( -21.80)
>DroSec_CAF1 120961 98 - 1
UUGAUUACAGACCAAAUGUGAUUUAAGGCACGUUAAAUACACACAGACACGUUUCCAUCCACGCGUAUA----UAUCUGUAUGUGUGCUCGAAAAUGGUCAA
.........(((((..((((((((((......)))))).))))........((((....((((((((((----....))))))))))...)))).))))).. ( -24.50)
>DroSim_CAF1 123926 98 - 1
UUGAUUACAGACCAAAUGUGAUUUAAGGCACGUUAAAUACACACAGACACGUUUCCAUCCACGCGUAUA----UAUCUGUAUGUGUGCUCGAAAAUGGUCAA
.........(((((..((((((((((......)))))).))))........((((....((((((((((----....))))))))))...)))).))))).. ( -24.50)
>DroEre_CAF1 122692 98 - 1
UUGAUUACAGACCAAAUGUGAUUUAAGGCACGUUAAAUACACACAGACACGUUUCCACCCACGCGUGUG----UAUCUGUAUGUGUGCUCCAAAAUUGUCAU
..(((((((.......)))))))...((((((....(((((.(((.((.(((........))).)).))----)...))))).))))))............. ( -20.50)
>DroYak_CAF1 123257 102 - 1
UUGAUUACAGACCAAAUGUGAUUUAAGGCACGUUAAAUACACACAGACACGUUUCCACCCACGCGUAUAUACAUAUCUGUAUGUGUGCCCCAAAAUUGGCAA
..(((((((.......)))))))...(((((...............((.(((........))).))(((((((....))))))))))))(((....)))... ( -20.40)
>consensus
UUGAUUACAGACCAAAUGUGAUUUAAGGCACGUUAAAUACACACAGACACGUUUCCAUCCACGCGUAUA____UAUCUGUAUGUGUGCUCGAAAAUGGUCAA
.........(((((..((((((((((......)))))).))))................((((((((((........))))))))))........))))).. (-17.62 = -18.10 +   0.48)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:59:32 2006