Locus 7283

Sequence ID 3L_DroMel_CAF1
Location 19,496,528 – 19,496,666
Length 138
Max. P 0.994673
window11837 window11838 window11839

overview

Window 7

Location 19,496,528 – 19,496,628
Length 100
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 69.50
Mean single sequence MFE -36.87
Consensus MFE -17.97
Energy contribution -17.83
Covariance contribution -0.14
Combinations/Pair 1.40
Mean z-score -2.49
Structure conservation index 0.49
SVM decision value 2.50
SVM RNA-class probability 0.994673
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19496528 100 + 23771897
AGUGAAAAUGCAUUUUCCGCACCUUGUGUGAAA--------------UGCCUGCCAAGUGGUUGCCCAC-----AAAUUCGUGGGCGCCGUUUGGACUUGUUCAGAAGGCAACAUG-GUU
.........((((((..(((.....)))..)))--------------)))..((((.((....((((((-----......))))))(((.((((((....)))))).))).)).))-)). ( -37.30)
>DroPse_CAF1 5403 87 + 1
AGUGGAAAAGCAUUUUCCGCACCUCAUGGGAAA--------------UUUAUGCU--------GUCUAA-----UCGCUGGUGGGCGAGGCAU-GUCUUGGCCAGAAGGCAAAGU-----
.(((((((.....))))))).(((..(((..((--------------..((((((--------......-----(((((....))))))))))-)..))..)))..)))......----- ( -26.70)
>DroSec_CAF1 7208 100 + 1
AGUGGAAAUGCAUUUUCCGCACCUCGUGUGAAA--------------UGCCUGCCAAGCGGUUGCCCAC-----AAAUUCGUGGGCGCCGUCUGGACUUGGCCAGAAGGCAACAUG-GUU
.(((((((.....)))))))...((((((....--------------(((((((((((((((.((((((-----......))))))))))......))))))....))))))))))-).. ( -43.40)
>DroYak_CAF1 7370 100 + 1
AGUGGAAUUGCAUUUUCCGCUCCUUGUGUGAAA--------------UGGUUGCAAAGCCGUAGCCCAC-----AAAUUCGUGGGCGCCGUCUGGACUUGGCCAGAAGGCAACAUG-GUU
(((((((.......)))))))((.(((.....(--------------(((((....)))))).((((((-----......))))))(((.(((((......))))).))).))).)-).. ( -41.30)
>DroAna_CAF1 4733 120 + 1
AGCGGCAGUGCAUUUUCCGCACCUUGUGCGAAACUGAUGCCGCUAAAUUGCUGCCAAACGGCUGUCUGCGGUGAAAAUUCGUGGGCGAUGCCUGGACUUGGCCAAAAGGCAAUAUGGGUU
(((((((...((.((((.((((...)))))))).)).)))))))..(((((((((((.((((((((..(((.......)))..))))..))).)...))))).....))))))....... ( -44.80)
>DroPer_CAF1 5261 87 + 1
AGUGGAAAAGCAUUUUCCGCACCUCAUGGGAAA--------------UUUAUGCU--------GUCUAU-----UCGCUGGUGGGCGAGGCAU-GUCUUGGCCAAAAGGCAAAGU-----
((((((..((((((((((.((.....)))))))--------------...)))))--------.)))))-----).(((..(((.(((((...-.))))).)))...))).....----- ( -27.70)
>consensus
AGUGGAAAUGCAUUUUCCGCACCUCGUGUGAAA______________UGCCUGCCAAGCGGUUGCCCAC_____AAAUUCGUGGGCGACGCCUGGACUUGGCCAGAAGGCAACAUG_GUU
.(((((((.....)))))))...............................((((........((((((...........))))))......(((......)))...))))......... (-17.97 = -17.83 +  -0.14)

alignment

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secondary structure

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dotplot

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Window 8

Location 19,496,561 – 19,496,666
Length 105
Sequences 3
Columns 105
Reading direction forward
Mean pairwise identity 91.75
Mean single sequence MFE -43.14
Consensus MFE -36.41
Energy contribution -35.53
Covariance contribution -0.88
Combinations/Pair 1.21
Mean z-score -3.45
Structure conservation index 0.84
SVM decision value 1.39
SVM RNA-class probability 0.949377
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19496561 105 + 23771897
UGCCUGCCAAGUGGUUGCCCACAAAUUCGUGGGCGCCGUUUGGACUUGUUCAGAAGGCAACAUGGUUUAGUAACCGCCGCGCUUAAUGGCACAGUUAUGAUUUCC
((((......(((((.((((((......))))))(((.((((((....)))))).))).....((((....))))))))).......)))).............. ( -37.62)
>DroSec_CAF1 7241 105 + 1
UGCCUGCCAAGCGGUUGCCCACAAAUUCGUGGGCGCCGUCUGGACUUGGCCAGAAGGCAACAUGGUUUAGUAACCGCUGCGCUUAAUGGCACAGUUAUGAUUUCU
((((.((((.((((((((((((......))))))(((.(((((......))))).))).............)))))))).)).....)))).............. ( -43.00)
>DroYak_CAF1 7403 104 + 1
UGGUUGCAAAGCCGUAGCCCACAAAUUCGUGGGCGCCGUCUGGACUUGGCCAGAAGGCAACAUGGUUUAGUAGCCGCUGCGCU-AAUGGCACAGUUAUGAUUUCU
.((((((.(((((((.((((((......))))))(((.(((((......))))).)))...))))))).))))))((((.((.-....)).)))).......... ( -48.80)
>consensus
UGCCUGCCAAGCGGUUGCCCACAAAUUCGUGGGCGCCGUCUGGACUUGGCCAGAAGGCAACAUGGUUUAGUAACCGCUGCGCUUAAUGGCACAGUUAUGAUUUCU
...(((....(((((.((((((......))))))(((.(((((......))))).))).....((((....)))))))))(((....))).)))........... (-36.41 = -35.53 +  -0.88)

alignment

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secondary structure

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dotplot

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Window 9

Location 19,496,561 – 19,496,666
Length 105
Sequences 3
Columns 105
Reading direction reverse
Mean pairwise identity 91.75
Mean single sequence MFE -36.47
Consensus MFE -32.15
Energy contribution -32.27
Covariance contribution 0.12
Combinations/Pair 1.13
Mean z-score -2.37
Structure conservation index 0.88
SVM decision value 0.91
SVM RNA-class probability 0.880256
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19496561 105 - 23771897
GGAAAUCAUAACUGUGCCAUUAAGCGCGGCGGUUACUAAACCAUGUUGCCUUCUGAACAAGUCCAAACGGCGCCCACGAAUUUGUGGGCAACCACUUGGCAGGCA
...........((((((......)))))).((((....))))....(((((.(..(....(((.....)))(((((((....)))))))......)..).))))) ( -33.00)
>DroSec_CAF1 7241 105 - 1
AGAAAUCAUAACUGUGCCAUUAAGCGCAGCGGUUACUAAACCAUGUUGCCUUCUGGCCAAGUCCAGACGGCGCCCACGAAUUUGUGGGCAACCGCUUGGCAGGCA
..............(((((........(((((((.............(((.(((((......))))).)))(((((((....))))))))))))))))))).... ( -40.60)
>DroYak_CAF1 7403 104 - 1
AGAAAUCAUAACUGUGCCAUU-AGCGCAGCGGCUACUAAACCAUGUUGCCUUCUGGCCAAGUCCAGACGGCGCCCACGAAUUUGUGGGCUACGGCUUUGCAACCA
...........((((((....-.)))))).((....((((((.....(((.(((((......))))).)))(((((((....)))))))...)).))))...)). ( -35.80)
>consensus
AGAAAUCAUAACUGUGCCAUUAAGCGCAGCGGUUACUAAACCAUGUUGCCUUCUGGCCAAGUCCAGACGGCGCCCACGAAUUUGUGGGCAACCGCUUGGCAGGCA
((((.......((((((......)))))).(((.((........)).))))))).(((((((((....)).(((((((....)))))))....)))))))..... (-32.15 = -32.27 +   0.12)

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 12:43:04 2006