Locus 8805

Sequence ID 3R_DroMel_CAF1
Location 23,535,139 – 23,535,239
Length 100
Max. P 0.889221
window14139 window14140

overview

Window 9

Location 23,535,139 – 23,535,239
Length 100
Sequences 5
Columns 104
Reading direction forward
Mean pairwise identity 76.14
Mean single sequence MFE -17.86
Consensus MFE -3.76
Energy contribution -4.56
Covariance contribution 0.80
Combinations/Pair 1.00
Mean z-score -1.85
Structure conservation index 0.21
SVM decision value 0.66
SVM RNA-class probability 0.816065
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23535139 100 + 27905053
UGAAAUUCGCUUAAUUGUAAAU----ACUGCCACUGGCCACAAGCAUAAACGUAAACAUAAGCAUAAUUUCUCUUUAUGACUUCACAUUUCUUCCUGGAAGUCA
.((((((.(((((..(((....----...(((...))).....((......))..))))))))..))))))......(((((((.((........))))))))) ( -17.60)
>DroSec_CAF1 2200 100 + 1
UGAAAUUCGCUUGAUUGUAAAU----ACUGCCACUGGCCACAAGCAUAAACAUAAACAUAAACAUAAUUUCUCCUUAUGACUUCACAUUUCUUCCUGGAAGUCA
........(((((...((....----)).(((...)))..)))))................................(((((((.((........))))))))) ( -15.80)
>DroSim_CAF1 2923 100 + 1
UGAAAUUCGCUUAAUUGUAAAU----ACUGCCACUAGCCACAAGCAUAAACAUAAACAUAAACAUAAUUUCUCCUUAUGACUUCACAUUUCUUCCUGGAAGUCA
.((((((.((......))....----..........((.....))....................))))))......(((((((.((........))))))))) ( -11.10)
>DroEre_CAF1 2211 94 + 1
UGGAAUUUGCUUUAUUGUGAAU----ACUACCUCCGGGCAAAAGCAAAAGCA------UAAACAUAAGUUCUGUUUAUGACAUAACCUUUGAAUGCGGCAGUCA
(((.(((..(......)..)))----.))).(((((.(..((((......((------((((((.......)))))))).......))))...).))).))... ( -16.92)
>DroYak_CAF1 2973 92 + 1
UGACUCUUAUUUAAUUGUAAAUUAAUUGUGCCCCUGGGCAC------AAGCA------UAAACAUAAAUUCUGUUUAUGACAUCACAUUUGAACCGGGAAGUCA
.(((((((.(((((.(((.......(((((((....)))))------))(((------((((((.......)))))))).)...))).)))))..))).)))). ( -27.90)
>consensus
UGAAAUUCGCUUAAUUGUAAAU____ACUGCCACUGGCCACAAGCAUAAACAUAAACAUAAACAUAAUUUCUCUUUAUGACUUCACAUUUCUUCCUGGAAGUCA
.............................................................................(((((((.............))))))) ( -3.76 =  -4.56 +   0.80)

alignment

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secondary structure

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dotplot

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Window 0

Location 23,535,139 – 23,535,239
Length 100
Sequences 5
Columns 104
Reading direction reverse
Mean pairwise identity 76.14
Mean single sequence MFE -23.84
Consensus MFE -9.59
Energy contribution -11.43
Covariance contribution 1.84
Combinations/Pair 1.26
Mean z-score -2.10
Structure conservation index 0.40
SVM decision value 0.96
SVM RNA-class probability 0.889221
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23535139 100 - 27905053
UGACUUCCAGGAAGAAAUGUGAAGUCAUAAAGAGAAAUUAUGCUUAUGUUUACGUUUAUGCUUGUGGCCAGUGGCAGU----AUUUACAAUUAAGCGAAUUUCA
(((((((((........)).)))))))......((((((.((((((.(....)((..(((((.((.(....).)))))----))..))...)))))))))))). ( -24.60)
>DroSec_CAF1 2200 100 - 1
UGACUUCCAGGAAGAAAUGUGAAGUCAUAAGGAGAAAUUAUGUUUAUGUUUAUGUUUAUGCUUGUGGCCAGUGGCAGU----AUUUACAAUCAAGCGAAUUUCA
(((((((((........)).)))))))......((((((.((((..((....(((..(((((.((.(....).)))))----))..)))..)))))))))))). ( -21.70)
>DroSim_CAF1 2923 100 - 1
UGACUUCCAGGAAGAAAUGUGAAGUCAUAAGGAGAAAUUAUGUUUAUGUUUAUGUUUAUGCUUGUGGCUAGUGGCAGU----AUUUACAAUUAAGCGAAUUUCA
(((((((((........)).)))))))......((((((.((((((......(((..(((((.((.(....).)))))----))..)))..)))))))))))). ( -23.60)
>DroEre_CAF1 2211 94 - 1
UGACUGCCGCAUUCAAAGGUUAUGUCAUAAACAGAACUUAUGUUUA------UGCUUUUGCUUUUGCCCGGAGGUAGU----AUUCACAAUAAAGCAAAUUCCA
..((((((.(...(((((((...(.((((((((.......))))))------)))....)))))))....).))))))----...................... ( -22.70)
>DroYak_CAF1 2973 92 - 1
UGACUUCCCGGUUCAAAUGUGAUGUCAUAAACAGAAUUUAUGUUUA------UGCUU------GUGCCCAGGGGCACAAUUAAUUUACAAUUAAAUAAGAGUCA
.(((((....(((.((.(((((.(.((((((((.......))))))------)))((------(((((....))))))).....))))).)).)))..))))). ( -26.60)
>consensus
UGACUUCCAGGAAGAAAUGUGAAGUCAUAAAGAGAAAUUAUGUUUAUGUUUAUGUUUAUGCUUGUGGCCAGUGGCAGU____AUUUACAAUUAAGCGAAUUUCA
(((((((((........)).)))))))......((((((.((((((.............(((.((.(....).))))).............)))))))))))). ( -9.59 = -11.43 +   1.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:20:09 2006