Locus 6757

Sequence ID X_DroMel_CAF1
Location 16,779,704 – 16,779,869
Length 165
Max. P 0.986141
window11064 window11065 window11066 window11067 window11068

overview

Window 4

Location 16,779,704 – 16,779,805
Length 101
Sequences 3
Columns 101
Reading direction forward
Mean pairwise identity 94.06
Mean single sequence MFE -17.53
Consensus MFE -16.78
Energy contribution -16.56
Covariance contribution -0.22
Combinations/Pair 1.06
Mean z-score -2.84
Structure conservation index 0.96
SVM decision value 2.03
SVM RNA-class probability 0.986141
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16779704 101 + 22224390
UUAGCAAAAUAACAAUGCAACGAAAGAAGAAAAGCAUAAAAACGCAAGGGGAGAACGCAAGUGAUUCAUGCGAAUAAAUAAAUGACUAUCCAAUUGCAAAU
...............((((((....).......((((.....(....).(((..((....))..)))))))......................)))))... ( -17.60)
>DroSec_CAF1 16601 101 + 1
UUAGCAAAAUAACAAUGCAACAAAAGAAGAAAUGCAUAAAAUCGCAAGGGGAGAACGCAAGUGAUUCAUGCGAAUAAAUAAAUGACUAUCCAAUUGCAAAU
...((((.......(((((.............)))))....(((((...(((..((....))..))).)))))....................)))).... ( -19.72)
>DroYak_CAF1 16483 97 + 1
UUAGCAAAAUAACAAUGCAACAAAAGAAGAAAAGCAUAAAAACGUAAAGGGAGAACGCAAGUGAUUCAUGCGAAUA----AAUGACUAUCCAAUUGCAAAU
...((((.......((((...............)))).....((((...(((..((....))..))).))))....----.............)))).... ( -15.26)
>consensus
UUAGCAAAAUAACAAUGCAACAAAAGAAGAAAAGCAUAAAAACGCAAGGGGAGAACGCAAGUGAUUCAUGCGAAUAAAUAAAUGACUAUCCAAUUGCAAAU
...((((.......((((...............)))).....((((...(((..((....))..))).)))).....................)))).... (-16.78 = -16.56 +  -0.22)

alignment

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secondary structure

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dotplot

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Window 5

Location 16,779,704 – 16,779,805
Length 101
Sequences 3
Columns 101
Reading direction reverse
Mean pairwise identity 94.06
Mean single sequence MFE -17.30
Consensus MFE -14.99
Energy contribution -15.43
Covariance contribution 0.45
Combinations/Pair 1.04
Mean z-score -2.09
Structure conservation index 0.87
SVM decision value 0.32
SVM RNA-class probability 0.687568
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16779704 101 - 22224390
AUUUGCAAUUGGAUAGUCAUUUAUUUAUUCGCAUGAAUCACUUGCGUUCUCCCCUUGCGUUUUUAUGCUUUUCUUCUUUCGUUGCAUUGUUAUUUUGCUAA
...((((((.((((((........))))))(((((((.....((((.........))))..)))))))............))))))............... ( -17.00)
>DroSec_CAF1 16601 101 - 1
AUUUGCAAUUGGAUAGUCAUUUAUUUAUUCGCAUGAAUCACUUGCGUUCUCCCCUUGCGAUUUUAUGCAUUUCUUCUUUUGUUGCAUUGUUAUUUUGCUAA
...((((((.((((((........))))))(((((((....(((((.........))))).)))))))............))))))............... ( -18.40)
>DroYak_CAF1 16483 97 - 1
AUUUGCAAUUGGAUAGUCAUU----UAUUCGCAUGAAUCACUUGCGUUCUCCCUUUACGUUUUUAUGCUUUUCUUCUUUUGUUGCAUUGUUAUUUUGCUAA
...((((((.((((((....)----)))))(((((((......((((.........)))).)))))))............))))))............... ( -16.50)
>consensus
AUUUGCAAUUGGAUAGUCAUUUAUUUAUUCGCAUGAAUCACUUGCGUUCUCCCCUUGCGUUUUUAUGCUUUUCUUCUUUUGUUGCAUUGUUAUUUUGCUAA
...((((((.((((((........))))))(((((((......((((.........)))).)))))))............))))))............... (-14.99 = -15.43 +   0.45)

alignment

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secondary structure

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dotplot

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Window 6

Location 16,779,728 – 16,779,840
Length 112
Sequences 3
Columns 117
Reading direction forward
Mean pairwise identity 90.46
Mean single sequence MFE -25.50
Consensus MFE -24.06
Energy contribution -23.62
Covariance contribution -0.44
Combinations/Pair 1.08
Mean z-score -2.52
Structure conservation index 0.94
SVM decision value 1.77
SVM RNA-class probability 0.976409
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16779728 112 + 22224390
AGAAGAAAAGCAUAAAAACGCAAGGGGAGAACGCAAGUGAUUCAUGCGAAUAAAUAAAUGACUAUCCAAUUGCAAAUGCGCAUGAAUGCAUCACUUUAUUUGCAUGCAAACA-----
.........((((......(((((..(((.((....)).(((((((((......(((.((......)).)))......)))))))))......)))..))))))))).....----- ( -25.00)
>DroSec_CAF1 16625 112 + 1
AGAAGAAAUGCAUAAAAUCGCAAGGGGAGAACGCAAGUGAUUCAUGCGAAUAAAUAAAUGACUAUCCAAUUGCAAAUGCGCAUGAAUGCAUCACUUUAUUUGCAUGCAAUCA-----
........(((((....(((((...(((..((....))..))).))))).(((((((((((..........((....))(((....))).))).)))))))).)))))....----- ( -26.20)
>DroYak_CAF1 16507 113 + 1
AGAAGAAAAGCAUAAAAACGUAAAGGGAGAACGCAAGUGAUUCAUGCGAAUA----AAUGACUAUCCAAUUGCAAAUGCGCAUGAAUGCAUUACUUUAUUUGCAUGCAAGCCUUUAU
...................(((((((((..((....))..))((((((((((----((.............((....))(((....))).....))))))))))))....))))))) ( -25.30)
>consensus
AGAAGAAAAGCAUAAAAACGCAAGGGGAGAACGCAAGUGAUUCAUGCGAAUAAAUAAAUGACUAUCCAAUUGCAAAUGCGCAUGAAUGCAUCACUUUAUUUGCAUGCAAACA_____
.........((((......(((((..(((.((....)).(((((((((..........((......))..........)))))))))......)))..))))))))).......... (-24.06 = -23.62 +  -0.44)

alignment

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secondary structure

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dotplot

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Window 7

Location 16,779,728 – 16,779,840
Length 112
Sequences 3
Columns 117
Reading direction reverse
Mean pairwise identity 90.46
Mean single sequence MFE -27.00
Consensus MFE -22.41
Energy contribution -22.63
Covariance contribution 0.23
Combinations/Pair 1.06
Mean z-score -2.79
Structure conservation index 0.83
SVM decision value 1.00
SVM RNA-class probability 0.898664
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16779728 112 - 22224390
-----UGUUUGCAUGCAAAUAAAGUGAUGCAUUCAUGCGCAUUUGCAAUUGGAUAGUCAUUUAUUUAUUCGCAUGAAUCACUUGCGUUCUCCCCUUGCGUUUUUAUGCUUUUCUUCU
-----.....(((((.((((.(((((((....((((((((....))....((((((........)))))))))))))))))))(((.........))))))).)))))......... ( -27.20)
>DroSec_CAF1 16625 112 - 1
-----UGAUUGCAUGCAAAUAAAGUGAUGCAUUCAUGCGCAUUUGCAAUUGGAUAGUCAUUUAUUUAUUCGCAUGAAUCACUUGCGUUCUCCCCUUGCGAUUUUAUGCAUUUCUUCU
-----.((.((((((.((((.(((((((....((((((((....))....((((((........)))))))))))))))))))(((.........))).))))))))))..)).... ( -28.00)
>DroYak_CAF1 16507 113 - 1
AUAAAGGCUUGCAUGCAAAUAAAGUAAUGCAUUCAUGCGCAUUUGCAAUUGGAUAGUCAUU----UAUUCGCAUGAAUCACUUGCGUUCUCCCUUUACGUUUUUAUGCUUUUCUUCU
...((((...(((((.((((((((.(((((((((((((((....))....((((((....)----)))))))))))).....))))))....))))..)))).)))))...)))).. ( -25.80)
>consensus
_____UGAUUGCAUGCAAAUAAAGUGAUGCAUUCAUGCGCAUUUGCAAUUGGAUAGUCAUUUAUUUAUUCGCAUGAAUCACUUGCGUUCUCCCCUUGCGUUUUUAUGCUUUUCUUCU
..........(((((.((((...((((((.((((((((((....))....((((((........)))))))))))))))).))))((.........)))))).)))))......... (-22.41 = -22.63 +   0.23)

alignment

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secondary structure

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dotplot

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Window 8

Location 16,779,765 – 16,779,869
Length 104
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 82.27
Mean single sequence MFE -22.23
Consensus MFE -17.80
Energy contribution -18.13
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.74
Structure conservation index 0.80
SVM decision value 0.49
SVM RNA-class probability 0.755691
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16779765 104 - 22224390
AAAACGCUUGGACUUAAUUCAUAUUUAUA----------------UGUUUGCAUGCAAAUAAAGUGAUGCAUUCAUGCGCAUUUGCAAUUGGAUAGUCAUUUAUUUAUUCGCAUGAAUCA
....((((((((.....))).(((((.((----------------((....)))).)))))))))).((.((((((((((....))....((((((........)))))))))))))))) ( -22.90)
>DroSec_CAF1 16662 104 - 1
AAAACGCUUGUACUUAAUUCAUAUUUAUA----------------UGAUUGCAUGCAAAUAAAGUGAUGCAUUCAUGCGCAUUUGCAAUUGGAUAGUCAUUUAUUUAUUCGCAUGAAUCA
.....((...(((((...(((((....))----------------)))(((....)))...)))))..))((((((((((....))....((((((........)))))))))))))).. ( -23.60)
>DroYak_CAF1 16544 116 - 1
AAAACGGAUGGAUUUAAUACACAUUUAAACAUUUAAACAUAUAAAGGCUUGCAUGCAAAUAAAGUAAUGCAUUCAUGCGCAUUUGCAAUUGGAUAGUCAUU----UAUUCGCAUGAAUCA
.....(((((...((((.......)))).)))))...............(((((((.......)).)))))(((((((((....))....((((((....)----))))))))))))... ( -20.20)
>consensus
AAAACGCUUGGACUUAAUUCAUAUUUAUA________________UGAUUGCAUGCAAAUAAAGUGAUGCAUUCAUGCGCAUUUGCAAUUGGAUAGUCAUUUAUUUAUUCGCAUGAAUCA
.................................................(((((((.......)).)))))(((((((((....))....((((((........)))))))))))))... (-17.80 = -18.13 +   0.33)

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 12:22:15 2006