Locus 9574

Sequence ID 3R_DroMel_CAF1
Location 25,291,633 – 25,291,724
Length 91
Max. P 0.998002
window15308 window15309

overview

Window 8

Location 25,291,633 – 25,291,724
Length 91
Sequences 6
Columns 101
Reading direction forward
Mean pairwise identity 72.27
Mean single sequence MFE -18.36
Consensus MFE -8.44
Energy contribution -8.55
Covariance contribution 0.11
Combinations/Pair 1.11
Mean z-score -2.94
Structure conservation index 0.46
SVM decision value 2.98
SVM RNA-class probability 0.998002
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25291633 91 + 27905053
UUUGCCAGCCACCAUCUCUC--------UCUACUGCUACAUACAUUCUUACAU-AUUUUCUA-UCCUGGAAAACAGCCAUCAAUCAUUUGGCUGGCUUUGC
...((((((((.........--------....(((..................-.((((((.-....)))))))))............))))))))..... ( -16.41)
>DroSec_CAF1 148683 91 + 1
UUUGCCAGCCACCACCUCUC--------UCUGCUGCUAGAAACACACUUACAU-ACUUUCUA-UCCUGGAAAACAGCCAUCAAUCAUUUGGCUGGCUUUGC
...((((((((.........--------...((((((((..............-........-..))))....))))...........))))))))..... ( -19.56)
>DroSim_CAF1 148753 91 + 1
UUUGCCAGCCACCACCUCUC--------UCUGCUGCUACAAACACACAUACAC-ACUUUCUA-UCCUGGAAAACAGCCAUCAAUCAUUUGGCUGGCUUUGC
...((((((((.........--------...((((..................-..(((((.-....))))).))))...........))))))))..... ( -18.10)
>DroEre_CAF1 166008 76 + 1
UUUGC---CAGCCACCGC------------UCCUGCUA--------CUUACUU-ACUUUCUU-CCCUGGAAAACAGCCAUCAAUCACUUGGCUGGCUUUGC
...((---((((((..((------------....))..--------.......-..(((((.-....)))))................))))))))..... ( -19.70)
>DroYak_CAF1 154296 91 + 1
UUUGCCACCAGCCACCGCUCCAGCUCCUGCUCCUGCUA--------CUUACUU-ACAUUCUU-CCCUGAAAAACAGCCAUCAAUCAUUUGGCUGGCUUUGC
.......(((((((..((...(((....)))...))..--------.......-...(((..-....)))..................)))))))...... ( -18.10)
>DroAna_CAF1 144006 79 + 1
UUA--CAGCUCC---CGU------------U-CUGCG---UUGAAUC-UGCAGAAUUCUGGAGCCUUGAAAAACAUCCAUCAAUCAUUUAGCUGGCUUUGC
...--(((((..---.((------------(-(((((---.......-))))))))..((((...((....))..))))..........)))))....... ( -18.30)
>consensus
UUUGCCAGCCACCACCGCUC________UCUCCUGCUA___ACA__CUUACAU_ACUUUCUA_CCCUGGAAAACAGCCAUCAAUCAUUUGGCUGGCUUUGC
....................................................................(((..((((((.........))))))..))).. ( -8.44 =  -8.55 +   0.11)

alignment

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secondary structure

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dotplot

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Window 9

Location 25,291,633 – 25,291,724
Length 91
Sequences 6
Columns 101
Reading direction reverse
Mean pairwise identity 72.27
Mean single sequence MFE -24.77
Consensus MFE -8.88
Energy contribution -8.77
Covariance contribution -0.11
Combinations/Pair 1.27
Mean z-score -2.57
Structure conservation index 0.36
SVM decision value 1.80
SVM RNA-class probability 0.977698
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25291633 91 - 27905053
GCAAAGCCAGCCAAAUGAUUGAUGGCUGUUUUCCAGGA-UAGAAAAU-AUGUAAGAAUGUAUGUAGCAGUAGA--------GAGAGAUGGUGGCUGGCAAA
.....((((((((.....((....(((((((((.....-..)))).(-(((((......)))))))))))...--------..)).....))))))))... ( -24.00)
>DroSec_CAF1 148683 91 - 1
GCAAAGCCAGCCAAAUGAUUGAUGGCUGUUUUCCAGGA-UAGAAAGU-AUGUAAGUGUGUUUCUAGCAGCAGA--------GAGAGGUGGUGGCUGGCAAA
.....((((((((.....((....(((((.........-((((((.(-((......))))))))))))))...--------..)).....))))))))... ( -27.00)
>DroSim_CAF1 148753 91 - 1
GCAAAGCCAGCCAAAUGAUUGAUGGCUGUUUUCCAGGA-UAGAAAGU-GUGUAUGUGUGUUUGUAGCAGCAGA--------GAGAGGUGGUGGCUGGCAAA
.....((((((((............((((((....)))-))).....-...(((.(.(.(((((....)))))--------.).).))).))))))))... ( -25.60)
>DroEre_CAF1 166008 76 - 1
GCAAAGCCAGCCAAGUGAUUGAUGGCUGUUUUCCAGGG-AAGAAAGU-AAGUAAG--------UAGCAGGA------------GCGGUGGCUG---GCAAA
.....((((((((.((..(((...(((.(((((....)-))))....-.....))--------)..)))..------------))..))))))---))... ( -26.70)
>DroYak_CAF1 154296 91 - 1
GCAAAGCCAGCCAAAUGAUUGAUGGCUGUUUUUCAGGG-AAGAAUGU-AAGUAAG--------UAGCAGGAGCAGGAGCUGGAGCGGUGGCUGGUGGCAAA
((...((((((((..((.....((((((((((((...)-))))))..-.......--------..((....))...)))))...)).)))))))).))... ( -25.80)
>DroAna_CAF1 144006 79 - 1
GCAAAGCCAGCUAAAUGAUUGAUGGAUGUUUUUCAAGGCUCCAGAAUUCUGCA-GAUUCAA---CGCAG-A------------ACG---GGAGCUG--UAA
((.......))....(((..(((....)))..))).((((((....((((((.-.......---.))))-)------------)..---)))))).--... ( -19.50)
>consensus
GCAAAGCCAGCCAAAUGAUUGAUGGCUGUUUUCCAGGA_UAGAAAGU_AUGUAAG__UGU___UAGCAGCAGA________GAGAGGUGGUGGCUGGCAAA
((..(((((..(((....))).))))).(((((........)))))...................)).................................. ( -8.88 =  -8.77 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:37:27 2006