Locus 8650

Sequence ID 3L_DroMel_CAF1
Location 22,452,014 – 22,452,145
Length 131
Max. P 0.954949
window14175 window14176 window14177

overview

Window 5

Location 22,452,014 – 22,452,121
Length 107
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 81.69
Mean single sequence MFE -30.47
Consensus MFE -26.47
Energy contribution -26.22
Covariance contribution -0.25
Combinations/Pair 1.11
Mean z-score -1.25
Structure conservation index 0.87
SVM decision value 0.06
SVM RNA-class probability 0.566177
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22452014 107 - 23771897
GACCUUAGUUUUCGACGUGUUUUGGUGUGCUGGGGAGUU-CUAUUCCGAUUGAAACCGUCCAAAACUGAGGCCAACUGUGAGGCGCGAGCAUCUAUC---CAAA----AAGCGA-----U
(.((((((((((.((((.((((..((......((((...-...)))).))..)))))))).)))))))))).)......((.((....)).))....---....----......-----. ( -31.10)
>DroVir_CAF1 40514 109 - 1
GUUCUUAGUUUUAGACGUGUUUUGGUGUGCUUG-AAGUU-UUGUUCCGAUUGAAACCGUCCAAAACUGAGGCCGAUUGUGAGGUAAAAGCGUCCAAAUACUAAA----ACAAAA-----U
(..(((((((((.((((.((((..((..((...-.....-..))....))..)))))))).)))))))))..)..(((.((.((....)).)))))........----......-----. ( -26.50)
>DroPse_CAF1 16835 108 - 1
GACCUUAGUUUUCGACGUGUUUUGGUGUGCUGGGGAGUUGAUAUUCCGAUUGAAACCGUCCAAAACUGAGGCCAACUGUGCGGCAUGAGCAUCUAAC---CAAA----AAAAAA-----U
(.((((((((((.((((.((((..((.......(((((....))))).))..)))))))).)))))))))).)....((((.......)))).....---....----......-----. ( -29.60)
>DroMoj_CAF1 38426 118 - 1
GAUCUUAGUUUUAGACGUGUUUUGGUGUGCUUGGGAGUU-UUGUUCCGAUUGAAACCGUCCAAAACUGAGGCCAAUUGUGAGGCGAAAGCAUCCAGAAG-GAAAACAGACAAAAGACCAA
(..(((((((((.((((.((((..((.....(((((...-...)))))))..)))))))).)))))))))..)..((((...((....)).(((....)-))......))))........ ( -34.40)
>DroAna_CAF1 3060 96 - 1
GCCCUUAGUUUUCGACGUGUUUUGGUGUGCAGGGGAGUU-CUAUUCCGAUUGAAACCGUCCAAAACUGAGGCCAACUGUGAGGCGUGAGCAUCUA-------AA----------------
(.((((((((((.((((.((((..((......((((...-...)))).))..)))))))).)))))))))).)......((.((....)).))..-------..---------------- ( -31.60)
>DroPer_CAF1 16867 108 - 1
GACCUUAGUUUUCGACGUGUUUUGGUGUGCUGGGGAGUUGAUAUUCCGAUUGAAACCGUCCAAAACUGAGGCCAACUGUGCGGCAUGAGCAUCUAAC---CAAA----AAAAAA-----U
(.((((((((((.((((.((((..((.......(((((....))))).))..)))))))).)))))))))).)....((((.......)))).....---....----......-----. ( -29.60)
>consensus
GACCUUAGUUUUCGACGUGUUUUGGUGUGCUGGGGAGUU_AUAUUCCGAUUGAAACCGUCCAAAACUGAGGCCAACUGUGAGGCAUGAGCAUCUAAC___CAAA____AAAAAA_____U
(.((((((((((.((((.((((..((.......(((((....))))).))..)))))))).)))))))))).).........((....)).............................. (-26.47 = -26.22 +  -0.25)

alignment

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secondary structure

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dotplot

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Window 6

Location 22,452,042 – 22,452,145
Length 103
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 80.21
Mean single sequence MFE -27.74
Consensus MFE -23.39
Energy contribution -23.78
Covariance contribution 0.39
Combinations/Pair 1.07
Mean z-score -2.43
Structure conservation index 0.84
SVM decision value 1.45
SVM RNA-class probability 0.954949
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22452042 103 + 23771897
CACAGUUGGCCUCAGUUUUGGACGGUUUCAAUCGGAAUAG-AACUCCCCAGCACACCAAAACACGUCGAAAACUAAGGUCUAUUGUGGACAA------------CACU----ACGGAUAU
((((((.(((((.((((((.((((((((.....(((....-...)))...(.....).)))).)))).)))))).))))).)))))).....------------..(.----...).... ( -28.80)
>DroVir_CAF1 40545 106 + 1
CACAAUCGGCCUCAGUUUUGGACGGUUUCAAUCGGAACAA-AACUU-CAAGCACACCAAAACACGUCUAAAACUAAGAACCAUUGUGGGCAU------------UAUCUAGUUAGGAAAU
((((((.(..((.((((((((((((((((....)))))..-..(..-...)............))))))))))).))..).)))))).....------------................ ( -24.60)
>DroPse_CAF1 16863 96 + 1
CACAGUUGGCCUCAGUUUUGGACGGUUUCAAUCGGAAUAUCAACUCCCCAGCACACCAAAACACGUCGAAAACUAAGGUCCAUUGUGGACAG------------UAUU------------
((((((.(((((.((((((.((((((((.....(((........)))...(.....).)))).)))).)))))).))))).)))))).....------------....------------ ( -28.80)
>DroMoj_CAF1 38465 107 + 1
CACAAUUGGCCUCAGUUUUGGACGGUUUCAAUCGGAACAA-AACUCCCAAGCACACCAAAACACGUCUAAAACUAAGAUCCAUUGUGGGCAU------------UUUGUGGGAAGAAAAC
((((((.(..((.((((((((((((((((....)))))..-..((....))............))))))))))).))..).)))))).....------------................ ( -26.00)
>DroAna_CAF1 3077 115 + 1
CACAGUUGGCCUCAGUUUUGGACGGUUUCAAUCGGAAUAG-AACUCCCCUGCACACCAAAACACGUCGAAAACUAAGGGCCAUUGUAGGCAGUAUAUAUUACUAUAUU----ACGAAUCU
......((((((.((((((.((((((((((...(((....-...)))..)).......)))).)))).))))))..))))))((((((..((((.....))))...))----)))).... ( -29.41)
>DroPer_CAF1 16895 96 + 1
CACAGUUGGCCUCAGUUUUGGACGGUUUCAAUCGGAAUAUCAACUCCCCAGCACACCAAAACACGUCGAAAACUAAGGUCCAUUGUGGACAG------------UAUA------------
((((((.(((((.((((((.((((((((.....(((........)))...(.....).)))).)))).)))))).))))).)))))).....------------....------------ ( -28.80)
>consensus
CACAGUUGGCCUCAGUUUUGGACGGUUUCAAUCGGAAUAA_AACUCCCCAGCACACCAAAACACGUCGAAAACUAAGGUCCAUUGUGGACAG____________UAUU____A_G_A_AU
((((((.(((((.((((((.(((((((((....))))).....(......)............)))).)))))).))))).))))))................................. (-23.39 = -23.78 +   0.39)

alignment

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secondary structure

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dotplot

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Window 7

Location 22,452,042 – 22,452,145
Length 103
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 80.21
Mean single sequence MFE -32.18
Consensus MFE -28.70
Energy contribution -28.48
Covariance contribution -0.22
Combinations/Pair 1.12
Mean z-score -2.20
Structure conservation index 0.89
SVM decision value 1.41
SVM RNA-class probability 0.951551
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22452042 103 - 23771897
AUAUCCGU----AGUG------------UUGUCCACAAUAGACCUUAGUUUUCGACGUGUUUUGGUGUGCUGGGGAGUU-CUAUUCCGAUUGAAACCGUCCAAAACUGAGGCCAACUGUG
.....(((----((((------------(((....)))).(.((((((((((.((((.((((..((......((((...-...)))).))..)))))))).)))))))))).).)))))) ( -29.00)
>DroVir_CAF1 40545 106 - 1
AUUUCCUAACUAGAUA------------AUGCCCACAAUGGUUCUUAGUUUUAGACGUGUUUUGGUGUGCUUG-AAGUU-UUGUUCCGAUUGAAACCGUCCAAAACUGAGGCCGAUUGUG
................------------.....((((((.(..(((((((((.((((.((((..((..((...-.....-..))....))..)))))))).)))))))))..).)))))) ( -30.60)
>DroPse_CAF1 16863 96 - 1
------------AAUA------------CUGUCCACAAUGGACCUUAGUUUUCGACGUGUUUUGGUGUGCUGGGGAGUUGAUAUUCCGAUUGAAACCGUCCAAAACUGAGGCCAACUGUG
------------....------------.....((((.(((.((((((((((.((((.((((..((.......(((((....))))).))..)))))))).)))))))))))))..)))) ( -33.30)
>DroMoj_CAF1 38465 107 - 1
GUUUUCUUCCCACAAA------------AUGCCCACAAUGGAUCUUAGUUUUAGACGUGUUUUGGUGUGCUUGGGAGUU-UUGUUCCGAUUGAAACCGUCCAAAACUGAGGCCAAUUGUG
................------------.....((((((((.((((((((((.((((.((((..((.....(((((...-...)))))))..)))))))).)))))))))))).)))))) ( -32.90)
>DroAna_CAF1 3077 115 - 1
AGAUUCGU----AAUAUAGUAAUAUAUACUGCCUACAAUGGCCCUUAGUUUUCGACGUGUUUUGGUGUGCAGGGGAGUU-CUAUUCCGAUUGAAACCGUCCAAAACUGAGGCCAACUGUG
......((----(.((((....)))))))....((((.(((((.((((((((.((((.((((..((......((((...-...)))).))..)))))))).)))))))))))))..)))) ( -34.00)
>DroPer_CAF1 16895 96 - 1
------------UAUA------------CUGUCCACAAUGGACCUUAGUUUUCGACGUGUUUUGGUGUGCUGGGGAGUUGAUAUUCCGAUUGAAACCGUCCAAAACUGAGGCCAACUGUG
------------....------------.....((((.(((.((((((((((.((((.((((..((.......(((((....))))).))..)))))))).)))))))))))))..)))) ( -33.30)
>consensus
AU_U_C_U____AAUA____________CUGCCCACAAUGGACCUUAGUUUUCGACGUGUUUUGGUGUGCUGGGGAGUU_AUAUUCCGAUUGAAACCGUCCAAAACUGAGGCCAACUGUG
.................................((((.(((.((((((((((.((((.((((..((.......(((((....))))).))..)))))))).)))))))))))))..)))) (-28.70 = -28.48 +  -0.22)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:21:23 2006