Locus 8498

Sequence ID X_DroMel_CAF1
Location 21,064,496 – 21,064,683
Length 187
Max. P 0.997717
window13987 window13988 window13989

overview

Window 7

Location 21,064,496 – 21,064,616
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 77.84
Mean single sequence MFE -18.85
Consensus MFE -9.82
Energy contribution -10.60
Covariance contribution 0.78
Combinations/Pair 1.07
Mean z-score -2.63
Structure conservation index 0.52
SVM decision value 0.58
SVM RNA-class probability 0.787998
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21064496 120 + 22224390
CAAACAUAUAUGCGGGCCAACUUAAAGACUUUCCAGCCAAAUUGCCCGGAAAACAAACUACCAUCUUUACCCCACAAAACACAAAAAAAAAAAAAAAAAAAGGAAGUCAAAUGGUUCCCU
.............(((..((((....(((((((..((......))..((...........)).......................................)))))))....))))))). ( -14.10)
>DroEre_CAF1 35588 102 + 1
C----AUACAUGCGGGCCAACUUAAAGACUUUCCAGCCAAAUGGCCCGGAAAACAAACUACCAUCUUCCGCCCAAAAAAAAG----------AAGGAAAAAGCAA----ACAUGCUCCCC
.----........(((.............(((((.(((....))).(((((..............)))))............----------..))))).((((.----...))))))). ( -18.24)
>DroYak_CAF1 38765 112 + 1
C----AUAUAUGGGGGCCAACUUAAAGACUUUCCAGCCAAAUGGCCCGGAAAACAAACUACCAUCUUCCACCCACAAAGAAAAAAAACCAAAAAAAAUAAAGGAA----ACUGGUUCCCU
.----......(((((((...........(((((.(((....)))..)))))................................................((...----.))))))))). ( -24.20)
>consensus
C____AUAUAUGCGGGCCAACUUAAAGACUUUCCAGCCAAAUGGCCCGGAAAACAAACUACCAUCUUCCACCCACAAAAAAAAAAAA__AAAAAAAAAAAAGGAA____ACUGGUUCCCU
.............((((((.(.....)..(((((.(((....)))..)))))...........................................................))))))... ( -9.82 = -10.60 +   0.78)

alignment

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secondary structure

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dotplot

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Window 8

Location 21,064,496 – 21,064,616
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 77.84
Mean single sequence MFE -32.52
Consensus MFE -21.03
Energy contribution -22.03
Covariance contribution 1.01
Combinations/Pair 1.11
Mean z-score -2.86
Structure conservation index 0.65
SVM decision value 2.92
SVM RNA-class probability 0.997717
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21064496 120 - 22224390
AGGGAACCAUUUGACUUCCUUUUUUUUUUUUUUUUUUUGUGUUUUGUGGGGUAAAGAUGGUAGUUUGUUUUCCGGGCAAUUUGGCUGGAAAGUCUUUAAGUUGGCCCGCAUAUAUGUUUG
((((((.........)))))).................((((..((((((.(((.......((....((((((((.(.....).)))))))).)).....))).)))))).))))..... ( -25.10)
>DroEre_CAF1 35588 102 - 1
GGGGAGCAUGU----UUGCUUUUUCCUU----------CUUUUUUUUGGGCGGAAGAUGGUAGUUUGUUUUCCGGGCCAUUUGGCUGGAAAGUCUUUAAGUUGGCCCGCAUGUAU----G
((..((((...----(((((((((((.(----------((.......))).)))))).)))))..))))..))((((((...((((....)))).......))))))........----. ( -37.30)
>DroYak_CAF1 38765 112 - 1
AGGGAACCAGU----UUCCUUUAUUUUUUUUGGUUUUUUUUCUUUGUGGGUGGAAGAUGGUAGUUUGUUUUCCGGGCCAUUUGGCUGGAAAGUCUUUAAGUUGGCCCCCAUAUAU----G
((((((((((.----..............)))))))))).....(((((..((((((..(....)..))))))((((((...((((....)))).......)))))))))))...----. ( -35.16)
>consensus
AGGGAACCAGU____UUCCUUUUUUUUUUUU__UUUUUCUUUUUUGUGGGCGGAAGAUGGUAGUUUGUUUUCCGGGCCAUUUGGCUGGAAAGUCUUUAAGUUGGCCCGCAUAUAU____G
((((((.........)))))).......................((((...((((((..(....)..))))))((((((...((((....)))).......)))))).))))........ (-21.03 = -22.03 +   1.01)

alignment

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secondary structure

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dotplot

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Window 9

Location 21,064,576 – 21,064,683
Length 107
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 73.41
Mean single sequence MFE -21.33
Consensus MFE -14.82
Energy contribution -14.60
Covariance contribution -0.22
Combinations/Pair 1.06
Mean z-score -1.61
Structure conservation index 0.69
SVM decision value 1.45
SVM RNA-class probability 0.954832
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21064576 107 + 22224390
ACAAAAAAAAAAAAAAAAAAAGGAAGUCAAAUGGUUCCCUGUUUAUUAAAGCAUUUCUUACGCAUCAUUUGUUGCUUUGCCAGCAAAAAA-GCUGCGUGGAAUGCAAA------------
................(((.(((.(..(....)..).))).)))......(((((((..(((((...(((.(((((.....))))).)))-..))))))))))))...------------ ( -22.70)
>DroEre_CAF1 35664 93 + 1
AG----------AAGGAAAAAGCAA----ACAUGCUCCCCGUUUAUUAAAGCAUUUCUUACGCAUCAUUUGUUGCUUGGCCAACAAAAAA-GCAGAGUGGAAUGC------------CCA
..----------..((....((((.----...))))..............(((((((....((....(((((((......)))))))...-)).....)))))))------------)). ( -17.70)
>DroYak_CAF1 38841 116 + 1
AAAAAAACCAAAAAAAAUAAAGGAA----ACUGGUUCCCUGUUUAUUAAAGCAUUUCUUACGCAUCAUUUGUUGCUUUGCCAACAAAAAAGGCAGCGUGGAAUGCAGAUGAAAUGGCCCA
....................((...----.))((..((...((((((...(((((((..((((..((.....))...((((.........))))))))))))))).))))))..)).)). ( -23.60)
>consensus
AAAAAAA__AAAAAAAAAAAAGGAA____ACUGGUUCCCUGUUUAUUAAAGCAUUUCUUACGCAUCAUUUGUUGCUUUGCCAACAAAAAA_GCAGCGUGGAAUGCA_A_________CCA
..................................................(((((((....((....(((((((......)))))))....)).....)))))))............... (-14.82 = -14.60 +  -0.22)

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 13:05:53 2006