Locus 4574

Sequence ID 2R_DroMel_CAF1
Location 14,952,019 – 14,952,167
Length 148
Max. P 0.999937
window7331 window7332 window7333

overview

Window 1

Location 14,952,019 – 14,952,132
Length 113
Sequences 5
Columns 113
Reading direction forward
Mean pairwise identity 95.49
Mean single sequence MFE -27.80
Consensus MFE -25.20
Energy contribution -26.04
Covariance contribution 0.84
Combinations/Pair 1.03
Mean z-score -1.66
Structure conservation index 0.91
SVM decision value 1.77
SVM RNA-class probability 0.976280
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14952019 113 + 20766785
UGUGUCUGCCCGCUGUCUUUUAUCAGCCAGUAAUGGUUAUUUUUAAAAAUAUGAUUACUUAUUUCUCCGUAGUAGCCAGUGUGACCGAAUCCUUCUGCUGAUAAUAAGCCAGC
...........((((.(((((((((((......((((((((.....(((((........)))))......))))))))........((.....)).)))))))).))).)))) ( -24.00)
>DroSec_CAF1 29348 113 + 1
UGUGCUUGCCCGCUGGCUUUUAUCAGCUAGUAAUGGGUAUUUUUAAAAAUAUGAUUACUUAUUUCUCCGUAGUAGCCAGUGUGACCGAAUCCUUCUGCUGAUAAUAAGCCACC
...((......))((((((((((((((.((....(((.((((......((((..(((((...........)))))...))))....))))))).)))))))))).)))))).. ( -25.80)
>DroSim_CAF1 11509 113 + 1
UGUGCUUGCCCGCUGGCUUUUAUCAGCUAGUAAUGGUUAUUUUUAAAAAUAUGAUUACUUAUUUCUCCGUAGUAGCCAGUGUGACCGAAUCCUUCUGCUGAUAAUAAGCCAGC
...........((((((((((((((((......((((((((.....(((((........)))))......))))))))........((.....)).)))))))).)))))))) ( -31.50)
>DroEre_CAF1 22618 113 + 1
UGUGCUUGCCCGCUGGCUUUUAUCAGCCAGUAAUGGUUAUUUUUAAAAAUAUGAUUACUUAUUUCUCCGUAUUAGCCAGUGUGACCGAAUCCUUAUGCUGAUAAUAGGCCAGC
...........((((((((((((((((.((...(((((((.......((((((..............)))))).......)))))))....))...)))))))).)))))))) ( -30.78)
>DroYak_CAF1 11145 113 + 1
UAUGCUUGCCCGCUGGCUUUUAUCAGCCAGUAAUGGUUAUUUUUAAAAAUAUGAUUACUUAUUUCUCCGUAGUAGCCAGUGUGACCGAAUCCGUAUGCUGAUAAUAAGCCAAC
...((......))((((((((((((((......((((((((.....(((((........)))))......)))))))).......((....))...)))))))).)))))).. ( -26.90)
>consensus
UGUGCUUGCCCGCUGGCUUUUAUCAGCCAGUAAUGGUUAUUUUUAAAAAUAUGAUUACUUAUUUCUCCGUAGUAGCCAGUGUGACCGAAUCCUUCUGCUGAUAAUAAGCCAGC
...........((((((((((((((((......((((((((.....(((((........)))))......))))))))(..(......)..)....)))))))).)))))))) (-25.20 = -26.04 +   0.84)

alignment

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secondary structure

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dotplot

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Window 2

Location 14,952,019 – 14,952,132
Length 113
Sequences 5
Columns 113
Reading direction reverse
Mean pairwise identity 95.49
Mean single sequence MFE -30.46
Consensus MFE -28.70
Energy contribution -29.38
Covariance contribution 0.68
Combinations/Pair 1.03
Mean z-score -2.72
Structure conservation index 0.94
SVM decision value 4.68
SVM RNA-class probability 0.999937
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14952019 113 - 20766785
GCUGGCUUAUUAUCAGCAGAAGGAUUCGGUCACACUGGCUACUACGGAGAAAUAAGUAAUCAUAUUUUUAAAAAUAACCAUUACUGGCUGAUAAAAGACAGCGGGCAGACACA
((((.(((.((((((((.......(((((((.....)))).(....).)))...((((((..(((((....)))))...)))))).))))))))))).))))........... ( -27.00)
>DroSec_CAF1 29348 113 - 1
GGUGGCUUAUUAUCAGCAGAAGGAUUCGGUCACACUGGCUACUACGGAGAAAUAAGUAAUCAUAUUUUUAAAAAUACCCAUUACUAGCUGAUAAAAGCCAGCGGGCAAGCACA
(.((((((.((((((((.......(((((((.....)))).(....).)))...((((((..(((((....)))))...)))))).)))))))))))))).)........... ( -29.80)
>DroSim_CAF1 11509 113 - 1
GCUGGCUUAUUAUCAGCAGAAGGAUUCGGUCACACUGGCUACUACGGAGAAAUAAGUAAUCAUAUUUUUAAAAAUAACCAUUACUAGCUGAUAAAAGCCAGCGGGCAAGCACA
((((((((.((((((((.......(((((((.....)))).(....).)))...((((((..(((((....)))))...)))))).))))))))))))))))........... ( -34.30)
>DroEre_CAF1 22618 113 - 1
GCUGGCCUAUUAUCAGCAUAAGGAUUCGGUCACACUGGCUAAUACGGAGAAAUAAGUAAUCAUAUUUUUAAAAAUAACCAUUACUGGCUGAUAAAAGCCAGCGGGCAAGCACA
((((((...((((((((..........((((.....))))..............((((((..(((((....)))))...)))))).))))))))..))))))........... ( -29.50)
>DroYak_CAF1 11145 113 - 1
GUUGGCUUAUUAUCAGCAUACGGAUUCGGUCACACUGGCUACUACGGAGAAAUAAGUAAUCAUAUUUUUAAAAAUAACCAUUACUGGCUGAUAAAAGCCAGCGGGCAAGCAUA
((((((((.((((((((.......(((((((.....)))).(....).)))...((((((..(((((....)))))...)))))).))))))))))))))))........... ( -31.70)
>consensus
GCUGGCUUAUUAUCAGCAGAAGGAUUCGGUCACACUGGCUACUACGGAGAAAUAAGUAAUCAUAUUUUUAAAAAUAACCAUUACUGGCUGAUAAAAGCCAGCGGGCAAGCACA
((((((((.((((((((.......(((((((.....)))).(....).)))...((((((..(((((....)))))...)))))).))))))))))))))))........... (-28.70 = -29.38 +   0.68)

alignment

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secondary structure

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dotplot

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Window 3

Location 14,952,054 – 14,952,167
Length 113
Sequences 5
Columns 113
Reading direction reverse
Mean pairwise identity 95.31
Mean single sequence MFE -28.76
Consensus MFE -24.06
Energy contribution -24.34
Covariance contribution 0.28
Combinations/Pair 1.04
Mean z-score -2.04
Structure conservation index 0.84
SVM decision value 1.63
SVM RNA-class probability 0.968783
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14952054 113 - 20766785
CUCCAGUGAACCAGUUCCAAUUCGGGAACAGCCCUGCUGGCUUAUUAUCAGCAGAAGGAUUCGGUCACACUGGCUACUACGGAGAAAUAAGUAAUCAUAUUUUUAAAAAUAAC
..((((((.(((.(((((......)))))..(((((((((.......)))))))..))....)))..))))))...(....)(((((((.(....).)))))))......... ( -30.10)
>DroSec_CAF1 29383 113 - 1
CUCCAGUGAACCAGUUCCAAUUCGGGAACAGCCCAGGUGGCUUAUUAUCAGCAGAAGGAUUCGGUCACACUGGCUACUACGGAGAAAUAAGUAAUCAUAUUUUUAAAAAUACC
((((.(((.....(((((......)))))((((.((((((((....(((........)))..)))))).))))))..)))))))............................. ( -28.40)
>DroSim_CAF1 11544 113 - 1
CUCCAGUGAACCAGUUCCAAUUCGGGAACAGCCCAGCUGGCUUAUUAUCAGCAGAAGGAUUCGGUCACACUGGCUACUACGGAGAAAUAAGUAAUCAUAUUUUUAAAAAUAAC
((((((((..(((((.((((((((((.....))).(((((.......)))))....))))).))....))))).))))..))))............................. ( -27.40)
>DroEre_CAF1 22653 113 - 1
AUCCAGUGAACCGGUUCCAAAUCGGGAACAGCCCAGCUGGCCUAUUAUCAGCAUAAGGAUUCGGUCACACUGGCUAAUACGGAGAAAUAAGUAAUCAUAUUUUUAAAAAUAAC
..((((((.((((..(((.....(((.....))).(((((.......)))))....)))..))))..))))))....(((..(....)..))).................... ( -31.30)
>DroYak_CAF1 11180 113 - 1
CUCCAGCGAACCGGUUCCAAAUCGGGAACAGCCCAGUUGGCUUAUUAUCAGCAUACGGAUUCGGUCACACUGGCUACUACGGAGAAAUAAGUAAUCAUAUUUUUAAAAAUAAC
((((..((((((((((((......)))))((((.....)))).............))).))))(((.....)))......))))............................. ( -26.60)
>consensus
CUCCAGUGAACCAGUUCCAAUUCGGGAACAGCCCAGCUGGCUUAUUAUCAGCAGAAGGAUUCGGUCACACUGGCUACUACGGAGAAAUAAGUAAUCAUAUUUUUAAAAAUAAC
..((((((.(((...(((.....(((.....))).(((((.......)))))....)))...)))..)))))).........(((((((.(....).)))))))......... (-24.06 = -24.34 +   0.28)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:23:28 2006