Locus 5802

Sequence ID 3L_DroMel_CAF1
Location 15,703,082 – 15,703,172
Length 90
Max. P 0.996744
window9220 window9221

overview

Window 0

Location 15,703,082 – 15,703,172
Length 90
Sequences 4
Columns 100
Reading direction forward
Mean pairwise identity 68.83
Mean single sequence MFE -18.55
Consensus MFE -10.74
Energy contribution -10.92
Covariance contribution 0.19
Combinations/Pair 1.25
Mean z-score -2.22
Structure conservation index 0.58
SVM decision value 2.74
SVM RNA-class probability 0.996744
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15703082 90 + 23771897
GCAGGGUGGGGAAACCCACAGACCUGCACUAAAGAAAAACAUCUCAAGAGCG----------GUCACAUAAUUGUAUAUAUGUACACUUAUGAAAUCAGA
.....(((((....))))).((((.((.((..(((......)))..)).)))----------))).(((((.(((((....))))).)))))........ ( -30.20)
>DroSec_CAF1 18609 91 + 1
GCAG-ACGGGGAAACCCACAGAACUGCACUUAAGAAAAAUAUAUCAAGAGCCAUAUAAUCUCGUCAUAUAAUUGUAUAUA--------UAUAAAAUCAGA
((((-..(((....)))......))))......((....(((((...(((.........)))...))))).(((((....--------)))))..))... ( -14.00)
>DroEre_CAF1 9853 77 + 1
GCAG-ACGGGGAAACCCGCAGGCCUGCACUUAGGAAAAAUACACUCAAAGUU----------GUCACAGAUUU----AUA--------AAUAAAAUGGGA
((((-.((((....)))).....))))................((((...((----------((.........----...--------.))))..)))). ( -15.52)
>DroYak_CAF1 55322 77 + 1
GCAG-ACGGGGAAAUCCACAAGCCUGCACUUAAGAAAAAUAUCUUAAAAGUU----------GCCAUAGAUUU----AUA--------UCUAUAAUCGGA
((((-.(..((....))....).))))..((((((......)))))).....----------...((((((..----..)--------)))))....... ( -14.50)
>consensus
GCAG_ACGGGGAAACCCACAGACCUGCACUUAAGAAAAAUAUAUCAAAAGCU__________GUCACAGAAUU____AUA________UAUAAAAUCAGA
((((..((((....)))).....))))......................................................................... (-10.74 = -10.92 +   0.19)

alignment

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secondary structure

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dotplot

Postscript

Window 1

Location 15,703,082 – 15,703,172
Length 90
Sequences 4
Columns 100
Reading direction reverse
Mean pairwise identity 68.83
Mean single sequence MFE -18.40
Consensus MFE -10.18
Energy contribution -9.80
Covariance contribution -0.38
Combinations/Pair 1.44
Mean z-score -1.51
Structure conservation index 0.55
SVM decision value 0.26
SVM RNA-class probability 0.659353
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15703082 90 - 23771897
UCUGAUUUCAUAAGUGUACAUAUAUACAAUUAUGUGAC----------CGCUCUUGAGAUGUUUUUCUUUAGUGCAGGUCUGUGGGUUUCCCCACCCUGC
....((((((..((((..((((((......))))))..----------))))..)))))).............(((((...(((((....)))))))))) ( -28.70)
>DroSec_CAF1 18609 91 - 1
UCUGAUUUUAUA--------UAUAUACAAUUAUAUGACGAGAUUAUAUGGCUCUUGAUAUAUUUUUCUUAAGUGCAGUUCUGUGGGUUUCCCCGU-CUGC
.......(((((--------((........))))))).((((..(((((........)))))...))))....((((.....((((....)))).-)))) ( -13.60)
>DroEre_CAF1 9853 77 - 1
UCCCAUUUUAUU--------UAU----AAAUCUGUGAC----------AACUUUGAGUGUAUUUUUCCUAAGUGCAGGCCUGCGGGUUUCCCCGU-CUGC
............--------...----....((((...----------.((((.(((.......)))..))))))))((..(((((....)))))-..)) ( -13.30)
>DroYak_CAF1 55322 77 - 1
UCCGAUUAUAGA--------UAU----AAAUCUAUGGC----------AACUUUUAAGAUAUUUUUCUUAAGUGCAGGCUUGUGGAUUUCCCCGU-CUGC
...(.(((((((--------(..----..)))))))))----------....(((((((......))))))).((((((..(.((....))).))-)))) ( -18.00)
>consensus
UCCGAUUUUAUA________UAU____AAAUAUAUGAC__________AACUCUUAAGAUAUUUUUCUUAAGUGCAGGCCUGUGGGUUUCCCCGU_CUGC
....................................................(((((((......))))))).((((....(((((....))))).)))) (-10.18 =  -9.80 +  -0.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:00:21 2006