Locus 734

Sequence ID 2L_DroMel_CAF1
Location 2,122,374 – 2,122,489
Length 115
Max. P 0.967982
window1207 window1208

overview

Window 7

Location 2,122,374 – 2,122,489
Length 115
Sequences 5
Columns 115
Reading direction forward
Mean pairwise identity 88.89
Mean single sequence MFE -37.74
Consensus MFE -27.82
Energy contribution -30.06
Covariance contribution 2.24
Combinations/Pair 1.03
Mean z-score -2.55
Structure conservation index 0.74
SVM decision value 1.24
SVM RNA-class probability 0.934902
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2122374 115 + 22407834
UGACAAAUUGCAAUCGAGAACAAGUGAAGUUGAAUUGUGGUUGCGCAGCGGAGCACACUGCGUAUUACGUAUACGUAAUGUUAUGCGUUGCUGCUCUGUUGACACUUGUCAGUGC
((((((...(((((((....(((......))).....)))))))(((((((((((((.(((((((((((....)))))...)))))).)).)))))))))).)..)))))).... ( -40.40)
>DroSec_CAF1 122672 109 + 1
UGACAAAUUGCAAUCGAGAACAAAUGAAG------UGUGGUUGCGCAGCGGGGCACACUGCGUAUUACGUAUACGUAAUGUUUUGUGUUGCUGCUCUGUUGACACUUGUCAGUGC
((((((...(((((((...((.......)------).)))))))(((((((((((((..((((((((((....)))))))...)))..)).)))))))))).)..)))))).... ( -37.00)
>DroSim_CAF1 122441 115 + 1
UGACAAAUUGCAAUCGAGAACAAGUGAAGUUGAAUUGUGGUUGCGCAGCGGGGCACAGUGCGUAUUACGUAUACGUAAUGUUUUGUGUUGCUGCUCUGUUGACACUUGUCAGUGC
((((((...(((((((....(((......))).....)))))))((((((((((((((..(((((((((....)))))))...))..))).)))))))))).)..)))))).... ( -39.90)
>DroEre_CAF1 125369 105 + 1
UGACAAAUUGCA-UCGAGAACAACACAAGUUGAGUUGUGGUUGCGCAGCGGGGCACACUGCG-------UAUACGUAAUGC--UGUGUUGCUCCUCUGUUGACACUUGUCAAUGC
((((((...(((-......(((((.(.....).)))))...)))((((.(((((((((.(((-------(.......))))--.))).)))))).))))......)))))).... ( -34.80)
>DroYak_CAF1 127720 108 + 1
UGACAAAUUGCAAUCGAGAACAACUGAAGUUGAAUUGUGGUUGCGCAGCGGGGCACACUGCG-------UAUACGUAAUGUUAUGUGUUGCUCCUCUGUUGACACUUGUCAGUGC
((((((...(((((((....((((....)))).....)))))))((((.(((((((((.(((-------(.......))))...))).)))))).))))......)))))).... ( -36.60)
>consensus
UGACAAAUUGCAAUCGAGAACAACUGAAGUUGAAUUGUGGUUGCGCAGCGGGGCACACUGCGUAUUACGUAUACGUAAUGUUAUGUGUUGCUGCUCUGUUGACACUUGUCAGUGC
((((((...(((((((....(((......))).....)))))))(((((((.(((((.(((((((.....))))))).))...))).)))))))...........)))))).... (-27.82 = -30.06 +   2.24)

alignment

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secondary structure

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dotplot

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Window 8

Location 2,122,374 – 2,122,489
Length 115
Sequences 5
Columns 115
Reading direction reverse
Mean pairwise identity 88.89
Mean single sequence MFE -30.10
Consensus MFE -23.12
Energy contribution -23.36
Covariance contribution 0.24
Combinations/Pair 1.04
Mean z-score -2.50
Structure conservation index 0.77
SVM decision value 1.62
SVM RNA-class probability 0.967982
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2122374 115 - 22407834
GCACUGACAAGUGUCAACAGAGCAGCAACGCAUAACAUUACGUAUACGUAAUACGCAGUGUGCUCCGCUGCGCAACCACAAUUCAACUUCACUUGUUCUCGAUUGCAAUUUGUCA
.....(((((((..(((..(((.(((((........((((((....)))))).(((((((.....)))))))....................))))))))..)))..))))))). ( -31.20)
>DroSec_CAF1 122672 109 - 1
GCACUGACAAGUGUCAACAGAGCAGCAACACAAAACAUUACGUAUACGUAAUACGCAGUGUGCCCCGCUGCGCAACCACA------CUUCAUUUGUUCUCGAUUGCAAUUUGUCA
.....(((((((..(((..(((.(((((........((((((....)))))).(((((((.....)))))))........------......))))))))..)))..))))))). ( -31.30)
>DroSim_CAF1 122441 115 - 1
GCACUGACAAGUGUCAACAGAGCAGCAACACAAAACAUUACGUAUACGUAAUACGCACUGUGCCCCGCUGCGCAACCACAAUUCAACUUCACUUGUUCUCGAUUGCAAUUUGUCA
.....(((((((..(((..(((.(((((........((((((....))))))......(((((......)))))..................))))))))..)))..))))))). ( -26.20)
>DroEre_CAF1 125369 105 - 1
GCAUUGACAAGUGUCAACAGAGGAGCAACACA--GCAUUACGUAUA-------CGCAGUGUGCCCCGCUGCGCAACCACAACUCAACUUGUGUUGUUCUCGA-UGCAAUUUGUCA
((((((((....)))....(((.(((((((((--((.....))...-------(((((((.....)))))))................))))))))))))))-)))......... ( -32.70)
>DroYak_CAF1 127720 108 - 1
GCACUGACAAGUGUCAACAGAGGAGCAACACAUAACAUUACGUAUA-------CGCAGUGUGCCCCGCUGCGCAACCACAAUUCAACUUCAGUUGUUCUCGAUUGCAAUUUGUCA
.....(((((((..(((..(((.((((((.....((.....))...-------(((((((.....)))))))...................)))))))))..)))..))))))). ( -29.10)
>consensus
GCACUGACAAGUGUCAACAGAGCAGCAACACAAAACAUUACGUAUACGUAAUACGCAGUGUGCCCCGCUGCGCAACCACAAUUCAACUUCACUUGUUCUCGAUUGCAAUUUGUCA
....((((((((..(((..(((.(((((......((.....))..........(((((((.....)))))))....................))))))))..)))..)))))))) (-23.12 = -23.36 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:44:17 2006