Locus 6130

Sequence ID X_DroMel_CAF1
Location 15,692,897 – 15,693,097
Length 200
Max. P 0.992454
window9967 window9968 window9969 window9970

overview

Window 7

Location 15,692,897 – 15,693,017
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 93.92
Mean single sequence MFE -34.74
Consensus MFE -30.82
Energy contribution -31.74
Covariance contribution 0.92
Combinations/Pair 1.05
Mean z-score -1.17
Structure conservation index 0.89
SVM decision value 0.07
SVM RNA-class probability 0.569817
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15692897 120 - 22224390
AAUCGCCAAAAGAUUGGCGAACCUAUACAUUAACUAACCAUCCCGGCAUUAUUGUGAUUCGGAAUCCAUUCUCGGAACGAGGCCGGCGUUAUUGGAGCGCCCGAUGUCUGCGGGAUUUUC
..(((((((....)))))))...................((((((((....((((..(((((((....))).)))))))).)))((((((.....))))))..........))))).... ( -36.20)
>DroSec_CAF1 3941 120 - 1
AAUCGCCAAAAGAUUGGCGAUCCUAUACAUUAACUAACCAUCCCGGCAUUAUUGUGAUUCGGAAUCCAUUCUCGGAACGUGGCCGGCGUUAUUGGAUCGCCCGAUGUCUGCGGGAUUAUC
.((((((((....))))))))..................(((((((((((...(((((((((..(((......)))((((.....))))..)))))))))..)))))...)))))).... ( -35.10)
>DroSim_CAF1 3946 120 - 1
AAUCGCCAAAAGAUUGGCGAUCCUAUACAUUAACUAACCAUCCCGGCAUUAUUGUGAUUCGGAAUCCAUUCUCGGAACGUGGCCGGCGUUAUUGGAUCGCCCGAUGUCUGCGGGAUUAUC
.((((((((....))))))))..................(((((((((((...(((((((((..(((......)))((((.....))))..)))))))))..)))))...)))))).... ( -35.10)
>DroEre_CAF1 3934 120 - 1
AAUCGCCAAAAGAUUGGCGAUCUUAUACAUUAACUAAUCAUCCCGGCAUUAUUGUUAUUCGGAACCCAUUCUCGGAACGAGGACGACGUUAUUGGAUAGCCCGAUGUCUGCGGGAUUAUC
.((((((((....))))))))..................(((((((((((...((((((((((((.(.((((((...)))))).)..))).)))))))))..)))))...)))))).... ( -34.40)
>DroYak_CAF1 3873 120 - 1
UAUCGCCUAAGGAUUGGCGAUCUUAUACAUUACCUAAUCAUCCCGGCAUUAUUGUUAUUCGGAACCCAUUCUCGGAACGAGGUCGGCGUUAUUGGAUCGCCCGAUGUCUGCGGGAUUAUC
.((((((........))))))..................(((((((((((...((.(((((((((((..(((((...)))))..)).))).)))))).))..)))))...)))))).... ( -32.90)
>consensus
AAUCGCCAAAAGAUUGGCGAUCCUAUACAUUAACUAACCAUCCCGGCAUUAUUGUGAUUCGGAAUCCAUUCUCGGAACGAGGCCGGCGUUAUUGGAUCGCCCGAUGUCUGCGGGAUUAUC
.((((((((....))))))))..................(((((((((((...((((((((((((((..(((((...)))))..)).))).)))))))))..)))))...)))))).... (-30.82 = -31.74 +   0.92)

alignment

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secondary structure

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Window 8

Location 15,692,937 – 15,693,057
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 93.25
Mean single sequence MFE -37.33
Consensus MFE -30.86
Energy contribution -30.78
Covariance contribution -0.08
Combinations/Pair 1.09
Mean z-score -2.26
Structure conservation index 0.83
SVM decision value 2.10
SVM RNA-class probability 0.988043
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15692937 120 + 22224390
UCGUUCCGAGAAUGGAUUCCGAAUCACAAUAAUGCCGGGAUGGUUAGUUAAUGUAUAGGUUCGCCAAUCUUUUGGCGAUUUAACGCCUGGCAUUGUCUGUAGGCUUUCUACAUUGCUGAU
(((.(((......)))...)))(((((((((((((((((...(((((.............(((((((....))))))).))))).))))))))))).(((((.....))))).)).)))) ( -36.54)
>DroSec_CAF1 3981 120 + 1
ACGUUCCGAGAAUGGAUUCCGAAUCACAAUAAUGCCGGGAUGGUUAGUUAAUGUAUAGGAUCGCCAAUCUUUUGGCGAUUUAACGCCUGGCAUUGUCUGGGGGCUUUCUACAUUGCUGAU
..(((((.(((.(((((.....))).)).((((((((((...((((............(((((((((....))))))))))))).))))))))))))).)))))................ ( -39.20)
>DroSim_CAF1 3986 120 + 1
ACGUUCCGAGAAUGGAUUCCGAAUCACAAUAAUGCCGGGAUGGUUAGUUAAUGUAUAGGAUCGCCAAUCUUUUGGCGAUUUAACGCCUGGCAUUGUCUGUGGGCUUUCUACAUUGCUGAU
.((.(((......)))...))...(((((((((((((((...((((............(((((((((....))))))))))))).))))))))))).))))(((..........)))... ( -38.30)
>DroEre_CAF1 3974 120 + 1
UCGUUCCGAGAAUGGGUUCCGAAUAACAAUAAUGCCGGGAUGAUUAGUUAAUGUAUAAGAUCGCCAAUCUUUUGGCGAUUUUAUGCCUGGCAUUGUCUGUAAGCUUUCUACAUUGCUGAA
(((.(((......)))...)))...((((((((((((((((.....)))...(((((((((((((((....))))))))))))))))))))))))).))).(((..........)))... ( -39.10)
>DroYak_CAF1 3913 120 + 1
UCGUUCCGAGAAUGGGUUCCGAAUAACAAUAAUGCCGGGAUGAUUAGGUAAUGUAUAAGAUCGCCAAUCCUUAGGCGAUAUAAUGCCUGGCAUUGUCUGAAGGCUUUCUACAUUGCUGAU
((((((((.(.((..(((......)))....)).)))))))))...(((((((((.(((((((((........)))))).....((((..((.....)).))))))).)))))))))... ( -33.50)
>consensus
UCGUUCCGAGAAUGGAUUCCGAAUCACAAUAAUGCCGGGAUGGUUAGUUAAUGUAUAGGAUCGCCAAUCUUUUGGCGAUUUAACGCCUGGCAUUGUCUGUAGGCUUUCUACAUUGCUGAU
.((.(((......)))...)).....(((((((((((((...((((............(((((((((....))))))))))))).))))))))))).))..(((..........)))... (-30.86 = -30.78 +  -0.08)

alignment

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secondary structure

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Window 9

Location 15,692,977 – 15,693,097
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 89.75
Mean single sequence MFE -30.96
Consensus MFE -24.02
Energy contribution -24.26
Covariance contribution 0.24
Combinations/Pair 1.12
Mean z-score -1.93
Structure conservation index 0.78
SVM decision value 0.84
SVM RNA-class probability 0.864341
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15692977 120 + 22224390
UGGUUAGUUAAUGUAUAGGUUCGCCAAUCUUUUGGCGAUUUAACGCCUGGCAUUGUCUGUAGGCUUUCUACAUUGCUGAUACUUAAUCGUUGAACAAUAUUCUGAGGGGAAUGUAGAAAU
....(((.((((((.((((((((((((....)))))))......))))))))))).))).....((((((((((.(((((.....)))...(((.....)))....)).)))))))))). ( -32.40)
>DroSec_CAF1 4021 120 + 1
UGGUUAGUUAAUGUAUAGGAUCGCCAAUCUUUUGGCGAUUUAACGCCUGGCAUUGUCUGGGGGCUUUCUACAUUGCUGAUACUUAAUCGUUGAACAAUAUUCUGAGGGAAAUGUAUAAAU
..((((((.((((((..((((((((((....))))))))))..(.((..(......)..)).).....)))))))))))).........(((.(((...(((.....))).))).))).. ( -28.30)
>DroSim_CAF1 4026 120 + 1
UGGUUAGUUAAUGUAUAGGAUCGCCAAUCUUUUGGCGAUUUAACGCCUGGCAUUGUCUGUGGGCUUUCUACAUUGCUGAUACUUAAUCGUUGAACAAUAUUCUGAGGGAAAUGUAAAAAU
..((((((.((((((..((((((((((....))))))))))...(((((.((.....)))))))....)))))))))))).............(((...(((.....))).)))...... ( -28.40)
>DroEre_CAF1 4014 120 + 1
UGAUUAGUUAAUGUAUAAGAUCGCCAAUCUUUUGGCGAUUUUAUGCCUGGCAUUGUCUGUAAGCUUUCUACAUUGCUGAACAAUAUUCGUUGAACAAUAUUCUAAUGUAAAUGUAGAAAU
.(((..((((..(((((((((((((((....))))))))))))))).))))...))).......((((((((((((.....((((((.(.....))))))).....)).)))))))))). ( -34.70)
>DroYak_CAF1 3953 120 + 1
UGAUUAGGUAAUGUAUAAGAUCGCCAAUCCUUAGGCGAUAUAAUGCCUGGCAUUGUCUGAAGGCUUUCUACAUUGCUGAUACAUAAUCGCUGAACAACAUUCUAAAGUAAAUGUUGAAAU
.((((((((((((((.(((((((((........)))))).....((((..((.....)).))))))).)))))))))......)))))......(((((((........))))))).... ( -31.00)
>consensus
UGGUUAGUUAAUGUAUAGGAUCGCCAAUCUUUUGGCGAUUUAACGCCUGGCAUUGUCUGUAGGCUUUCUACAUUGCUGAUACUUAAUCGUUGAACAAUAUUCUGAGGGAAAUGUAGAAAU
..(((((.(((((((..((((((((((....))))))))))...(((((((...)))...))))....))))))))))))................(((((........)))))...... (-24.02 = -24.26 +   0.24)

alignment

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secondary structure

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dotplot

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Window 0

Location 15,692,977 – 15,693,097
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 89.75
Mean single sequence MFE -25.60
Consensus MFE -21.32
Energy contribution -21.52
Covariance contribution 0.20
Combinations/Pair 1.10
Mean z-score -2.36
Structure conservation index 0.83
SVM decision value 2.33
SVM RNA-class probability 0.992454
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15692977 120 - 22224390
AUUUCUACAUUCCCCUCAGAAUAUUGUUCAACGAUUAAGUAUCAGCAAUGUAGAAAGCCUACAGACAAUGCCAGGCGUUAAAUCGCCAAAAGAUUGGCGAACCUAUACAUUAACUAACCA
.((((((((((.(.....((((...))))...(((.....))).).))))))))))((((.((.....))..))))......(((((((....))))))).................... ( -26.50)
>DroSec_CAF1 4021 120 - 1
AUUUAUACAUUUCCCUCAGAAUAUUGUUCAACGAUUAAGUAUCAGCAAUGUAGAAAGCCCCCAGACAAUGCCAGGCGUUAAAUCGCCAAAAGAUUGGCGAUCCUAUACAUUAACUAACCA
....................((((((((..((......))...)))))))).....(((..((.....))...)))(((((((((((((....))))))))........)))))...... ( -20.70)
>DroSim_CAF1 4026 120 - 1
AUUUUUACAUUUCCCUCAGAAUAUUGUUCAACGAUUAAGUAUCAGCAAUGUAGAAAGCCCACAGACAAUGCCAGGCGUUAAAUCGCCAAAAGAUUGGCGAUCCUAUACAUUAACUAACCA
.((((((((((.(.....((((...))))...(((.....))).).))))))))))(((..((.....))...)))(((((((((((((....))))))))........)))))...... ( -23.60)
>DroEre_CAF1 4014 120 - 1
AUUUCUACAUUUACAUUAGAAUAUUGUUCAACGAAUAUUGUUCAGCAAUGUAGAAAGCUUACAGACAAUGCCAGGCAUAAAAUCGCCAAAAGAUUGGCGAUCUUAUACAUUAACUAAUCA
.((((((((((.......(((((.(((((...))))).)))))...))))))))))((((.((.....))..))))((((.((((((((....)))))))).)))).............. ( -29.30)
>DroYak_CAF1 3953 120 - 1
AUUUCAACAUUUACUUUAGAAUGUUGUUCAGCGAUUAUGUAUCAGCAAUGUAGAAAGCCUUCAGACAAUGCCAGGCAUUAUAUCGCCUAAGGAUUGGCGAUCUUAUACAUUACCUAAUCA
....((((((((......))))))))......(((((.(((......(((((....((((.((.....))..)))).....((((((........))))))....)))))))).))))). ( -27.90)
>consensus
AUUUCUACAUUUCCCUCAGAAUAUUGUUCAACGAUUAAGUAUCAGCAAUGUAGAAAGCCUACAGACAAUGCCAGGCGUUAAAUCGCCAAAAGAUUGGCGAUCCUAUACAUUAACUAACCA
.((((((((((.......((((...))))...(((.....)))...))))))))))(((..((.....))...))).....((((((((....))))))))................... (-21.32 = -21.52 +   0.20)

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 12:05:04 2006