Locus 2333

Sequence ID	3R_DroMel_CAF1
Location	6,654,149 – 6,654,259
Length	110
Max. P	0.936830

overview

Window 0

Location	6,654,149 – 6,654,259
Length	110
Sequences	5
Columns	110
Reading direction	forward
Mean pairwise identity	84.00
Mean single sequence MFE	-27.42
Consensus MFE	-18.12
Energy contribution	-17.80
Covariance contribution	-0.32
Combinations/Pair	1.17
Mean z-score	-2.62
Structure conservation index	0.66
SVM decision value	1.26
SVM RNA-class probability	0.936830
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6654149 110 + 27905053
UUCCGAAAUCUCAGAUAUCGUCGGAUGAUUUUCCAGUAAACACCUACUUUGGAGGUAAUUUGUGGGAUGAUCCCCCAUAAAUACUGGAAACAUCAAACCAUAUGGUGAAU
.(((((.(((...)))....)))))(((((((((((((...((((.(....)))))..((((((((.......))))))))))))))))).)))).(((....))).... ( -33.50)
>DroSec_CAF1 39200 110 + 1
UUCUGAAAUCUCAGAUAUCGUCGGAUGAUUUUCCGGUAAACACCUACUUUGGAGGUAAUUUGUGGGAUGAUCCCCCAUAAAUACUUGAAACAUCAAACCAUAUGGUGAAU
.(((((....)))))..(..(((((......)))))..).((((.....((((((((.((((((((.......)))))))))))))((....))...)))...))))... ( -30.60)
>DroSim_CAF1 39409 110 + 1
UUCUGAAAUCUCAGAUAUCGUCGGAUGAUUUUCCGGUAAACACCUACUUUGGAGGUAAUUUGUGGGAUGAUCCUCCAUAAAUACUCGAAACAUCAAACCAUAUGGUGAAU
.(((((....)))))..(..(((((......)))))..).((((.....(((.((((.((((((((.......)))))))))))).((....))...)))...))))... ( -26.80)
>DroEre_CAF1 39957 91 + 1
UUUUGAAAUCUCCGAUUUUGUCGGAUGGUUUUCCAGU-------------------AAUUUGUGGGAUGAUCCCCCAUAAAUACCCGAAACAUUAAACCAUAUGGUGAAU
((((((((((((((((...)))))).)))))....((-------------------(.((((((((.......))))))))))).)))))......(((....))).... ( -22.50)
>DroYak_CAF1 39931 91 + 1
UUCUGAAAUCUCAGAUAUUGUCGGAUGGUUUUCCAGC-------------------AAUUUGUGGGAUGAUCCCCCAUAAAUACUCGAAACAUUAAACCAUAUGGUGAAU
.(((((....)))))..(..(((.(((((((((.((.-------------------.(((((((((.......))))))))).)).))......))))))).)))..).. ( -23.70)
>consensus
UUCUGAAAUCUCAGAUAUCGUCGGAUGAUUUUCCAGUAAACACCUACUUUGGAGGUAAUUUGUGGGAUGAUCCCCCAUAAAUACUCGAAACAUCAAACCAUAUGGUGAAU
.(((((.(((...)))....)))))((((((((.(((....((((.......)))).(((((((((.......)))))))))))).)))).)))).(((....))).... (-18.12 = -17.80 +  -0.32)

alignment

secondary structure

dotplot

Window 1

Location	6,654,149 – 6,654,259
Length	110
Sequences	5
Columns	110
Reading direction	reverse
Mean pairwise identity	84.00
Mean single sequence MFE	-25.20
Consensus MFE	-16.28
Energy contribution	-16.60
Covariance contribution	0.32
Combinations/Pair	1.19
Mean z-score	-1.91
Structure conservation index	0.65
SVM decision value	0.19
SVM RNA-class probability	0.628455
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6654149 110 - 27905053
AUUCACCAUAUGGUUUGAUGUUUCCAGUAUUUAUGGGGGAUCAUCCCACAAAUUACCUCCAAAGUAGGUGUUUACUGGAAAAUCAUCCGACGAUAUCUGAGAUUUCGGAA
........(((.(((.((((((((((((((((.(((((.....))))).))).(((((.......)))))..)))))))))..)))).))).)))((((......)))). ( -31.60)
>DroSec_CAF1 39200 110 - 1
AUUCACCAUAUGGUUUGAUGUUUCAAGUAUUUAUGGGGGAUCAUCCCACAAAUUACCUCCAAAGUAGGUGUUUACCGGAAAAUCAUCCGACGAUAUCUGAGAUUUCAGAA
.....((....))(((((.((((((..(((((.((((((................)))))))))))((((((...((((......))))..)))))))))))).))))). ( -25.59)
>DroSim_CAF1 39409 110 - 1
AUUCACCAUAUGGUUUGAUGUUUCGAGUAUUUAUGGAGGAUCAUCCCACAAAUUACCUCCAAAGUAGGUGUUUACCGGAAAAUCAUCCGACGAUAUCUGAGAUUUCAGAA
.....((....))(((((.((((((..(((((.((((((................)))))))))))((((((...((((......))))..)))))))))))).))))). ( -25.79)
>DroEre_CAF1 39957 91 - 1
AUUCACCAUAUGGUUUAAUGUUUCGGGUAUUUAUGGGGGAUCAUCCCACAAAUU-------------------ACUGGAAAACCAUCCGACAAAAUCGGAGAUUUCAAAA
..........((((((.....(((((..((((.(((((.....))))).)))).-------------------.)))))))))))(((((.....))))).......... ( -22.30)
>DroYak_CAF1 39931 91 - 1
AUUCACCAUAUGGUUUAAUGUUUCGAGUAUUUAUGGGGGAUCAUCCCACAAAUU-------------------GCUGGAAAACCAUCCGACAAUAUCUGAGAUUUCAGAA
.........(((((((......((.(((((((.(((((.....))))).))).)-------------------))).))))))))).........((((......)))). ( -20.70)
>consensus
AUUCACCAUAUGGUUUGAUGUUUCGAGUAUUUAUGGGGGAUCAUCCCACAAAUUACCUCCAAAGUAGGUGUUUACUGGAAAAUCAUCCGACGAUAUCUGAGAUUUCAGAA
.....((....))(((((.((((((.(((((..(((((.....)))))...........................((((......))))..))))).)))))).))))). (-16.28 = -16.60 +   0.32)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:32:49 2006