Locus 7029

Sequence ID 3L_DroMel_CAF1
Location 19,025,270 – 19,025,466
Length 196
Max. P 0.951881
window11398 window11399 window11400 window11401

overview

Window 8

Location 19,025,270 – 19,025,363
Length 93
Sequences 3
Columns 93
Reading direction forward
Mean pairwise identity 98.57
Mean single sequence MFE -22.54
Consensus MFE -21.81
Energy contribution -21.59
Covariance contribution -0.22
Combinations/Pair 1.04
Mean z-score -1.63
Structure conservation index 0.97
SVM decision value 0.27
SVM RNA-class probability 0.660490
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19025270 93 + 23771897
AUGUACUCGGUGGACAAUCGAGGGCAUUAUAGUUGGCAACUGUGCAACUUUAAUGGAUCUUUAAGAGAUCUAGUUGAAACUAGUAAUAGAUUG
(((..((((((.....))))))..)))((((((.....))))))(((((.....(((((((...))))))))))))...(((....))).... ( -23.70)
>DroSec_CAF1 159068 93 + 1
AUGUACUCGGUGGACAAUCGAGGGCAUUAUAGUUGGCAACUGUGCAACUUUAAUGAAUCUUUAAGAGAUCUAGUUGAAACUAGUAAUAGAUUG
.....((((((.....))))))..(((((.(((((((....)).))))).)))))(((((.........(((((....)))))....))))). ( -21.22)
>DroSim_CAF1 167685 93 + 1
AUGUACUCGGUGGACAAUCGAGGUCAUUAUAGUUGGCAACUGUGCAACUUUAAUGGAUCUUUAAGAGAUCUAGUUGAAACUAGUAAUAGAUUG
.....((((((.....))))))..(((((.(((((((....)).))))).)))))((((((...)))))).........(((....))).... ( -22.70)
>consensus
AUGUACUCGGUGGACAAUCGAGGGCAUUAUAGUUGGCAACUGUGCAACUUUAAUGGAUCUUUAAGAGAUCUAGUUGAAACUAGUAAUAGAUUG
.....((((((.....))))))..(((((.(((((((....)).))))).)))))(((((.........(((((....)))))....))))). (-21.81 = -21.59 +  -0.22)

alignment

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secondary structure

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dotplot

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Window 9

Location 19,025,270 – 19,025,363
Length 93
Sequences 3
Columns 93
Reading direction reverse
Mean pairwise identity 98.57
Mean single sequence MFE -16.63
Consensus MFE -16.60
Energy contribution -16.60
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.08
Structure conservation index 1.00
SVM decision value 1.19
SVM RNA-class probability 0.928237
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19025270 93 - 23771897
CAAUCUAUUACUAGUUUCAACUAGAUCUCUUAAAGAUCCAUUAAAGUUGCACAGUUGCCAACUAUAAUGCCCUCGAUUGUCCACCGAGUACAU
(((((.....(((((....)))))..........((..(((((.(((((((....)).))))).)))))...))))))).............. ( -16.60)
>DroSec_CAF1 159068 93 - 1
CAAUCUAUUACUAGUUUCAACUAGAUCUCUUAAAGAUUCAUUAAAGUUGCACAGUUGCCAACUAUAAUGCCCUCGAUUGUCCACCGAGUACAU
(((((.....(((((....)))))..........((..(((((.(((((((....)).))))).)))))...))))))).............. ( -16.60)
>DroSim_CAF1 167685 93 - 1
CAAUCUAUUACUAGUUUCAACUAGAUCUCUUAAAGAUCCAUUAAAGUUGCACAGUUGCCAACUAUAAUGACCUCGAUUGUCCACCGAGUACAU
(((((.....(((((....)))))..............(((((.(((((((....)).))))).))))).....))))).............. ( -16.70)
>consensus
CAAUCUAUUACUAGUUUCAACUAGAUCUCUUAAAGAUCCAUUAAAGUUGCACAGUUGCCAACUAUAAUGCCCUCGAUUGUCCACCGAGUACAU
(((((.....(((((....)))))..........((..(((((.(((((((....)).))))).)))))...))))))).............. (-16.60 = -16.60 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 0

Location 19,025,363 – 19,025,466
Length 103
Sequences 5
Columns 105
Reading direction forward
Mean pairwise identity 78.27
Mean single sequence MFE -23.11
Consensus MFE -14.41
Energy contribution -15.82
Covariance contribution 1.41
Combinations/Pair 1.17
Mean z-score -2.19
Structure conservation index 0.62
SVM decision value 1.42
SVM RNA-class probability 0.951881
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19025363 103 + 23771897
ACCAAUGAUUAUUUUCCCGCUCU-AAGCUCUGCUUUCCCAUCCUCCGGCU-GGCUUGUUAGACGAUCUUACAGUUUUGCUAGUCCUAACAUGAGGAUGUGAAACC
..................((...-..)).....((((.(((((((.((((-(((((((.((.....)).))))....))))))).......))))))).)))).. ( -23.10)
>DroSec_CAF1 159161 99 + 1
UCCAAUGAUUAUUUUCCCGCCCU-AAGCUCUGCUUUCCCAUCCUCCGGUUAGACUUGUUACAC-AUCUUAG----UAGCUAGUCCUAACAUGAGGAUGUGAAAUC
..................((...-..)).....((((.(((((((..((((((((.(((((..-......)----)))).))).)))))..))))))).)))).. ( -27.10)
>DroSim_CAF1 167778 99 + 1
UCCAAUGAUUAUUUUCCCGCCCU-AAGCUCUGCUUUCCCAUCCUCCCGUUAGGCUUGUUACAC-AUCCUAG----UAGCUAGUCCUAACAUGAGGAUGUGAAAUC
..................((...-..)).....((((.(((((((..((((((((.(((((..-......)----)))).)).))))))..))))))).)))).. ( -28.80)
>DroEre_CAF1 160198 104 + 1
UCCAGUGAUUUAUUUCCCACCCU-AAGCCCUGCUUUCCCGUCCUCUUGCUAGACCAAUUAUACGAUACUGAAGUUUAGCUAGUCCUAGCAUGAGGAUUUGAAAUC
....(((..........)))...-.........((((..((((((.((((((((...(((.((.........)).)))...)).)))))).))))))..)))).. ( -20.60)
>DroYak_CAF1 181734 93 + 1
UCCAGUGAAUAAAUCCCCACCCCAAAGCCCUGCUUUCCCGUCCUCUUGUUAGGCCAGUU-UACGACC-----------UUAGUCCUAACAUGAGGUUAUGAAAUC
....(((..........))).............((((....((((.(((((((.(....-.......-----------...).))))))).))))....)))).. ( -15.94)
>consensus
UCCAAUGAUUAUUUUCCCGCCCU_AAGCUCUGCUUUCCCAUCCUCCGGUUAGGCUUGUUACACGAUCCUAG____UAGCUAGUCCUAACAUGAGGAUGUGAAAUC
.................................((((.(((((((..((((((((.((((...............)))).))).)))))..))))))).)))).. (-14.41 = -15.82 +   1.41)

alignment

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secondary structure

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dotplot

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Window 1

Location 19,025,363 – 19,025,466
Length 103
Sequences 5
Columns 105
Reading direction reverse
Mean pairwise identity 78.27
Mean single sequence MFE -25.84
Consensus MFE -21.07
Energy contribution -20.59
Covariance contribution -0.48
Combinations/Pair 1.36
Mean z-score -1.20
Structure conservation index 0.82
SVM decision value 0.23
SVM RNA-class probability 0.642902
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19025363 103 - 23771897
GGUUUCACAUCCUCAUGUUAGGACUAGCAAAACUGUAAGAUCGUCUAACAAGCC-AGCCGGAGGAUGGGAAAGCAGAGCUU-AGAGCGGGAAAAUAAUCAUUGGU
(.((((.(((((((.(((((((.((.(((....))).))....))))))).(..-..)..))))))).)))).)...((..-...)).................. ( -23.90)
>DroSec_CAF1 159161 99 - 1
GAUUUCACAUCCUCAUGUUAGGACUAGCUA----CUAAGAU-GUGUAACAAGUCUAACCGGAGGAUGGGAAAGCAGAGCUU-AGGGCGGGAAAAUAAUCAUUGGA
..((((.(((((((..(((((.(((.(.((----(......-..))).).))))))))..))))))).)))).....((..-...)).................. ( -25.10)
>DroSim_CAF1 167778 99 - 1
GAUUUCACAUCCUCAUGUUAGGACUAGCUA----CUAGGAU-GUGUAACAAGCCUAACGGGAGGAUGGGAAAGCAGAGCUU-AGGGCGGGAAAAUAAUCAUUGGA
..((((.(((((((.(((((((.((.(.((----(......-..))).).))))))))).))))))).)))).....((..-...)).................. ( -28.80)
>DroEre_CAF1 160198 104 - 1
GAUUUCAAAUCCUCAUGCUAGGACUAGCUAAACUUCAGUAUCGUAUAAUUGGUCUAGCAAGAGGACGGGAAAGCAGGGCUU-AGGGUGGGAAAUAAAUCACUGGA
..((((...(((((.((((((.(((((.((.((.........)).)).))))))))))).)))))...)))).........-..(((((........)))))... ( -26.70)
>DroYak_CAF1 181734 93 - 1
GAUUUCAUAACCUCAUGUUAGGACUAA-----------GGUCGUA-AACUGGCCUAACAAGAGGACGGGAAAGCAGGGCUUUGGGGUGGGGAUUUAUUCACUGGA
..........((((.(((((((.(((.-----------(......-..))))))))))).)))).....(((((...)))))..((((((......))))))... ( -24.70)
>consensus
GAUUUCACAUCCUCAUGUUAGGACUAGCUA____CUAAGAUCGUAUAACAAGCCUAACAGGAGGAUGGGAAAGCAGAGCUU_AGGGCGGGAAAAUAAUCAUUGGA
..((((.(((((((.(((((((.((.........................))))))))).))))))).)))).(((.(((....)))..((......)).))).. (-21.07 = -20.59 +  -0.48)

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 12:35:56 2006