Locus 7765

Sequence ID 2L_DroMel_CAF1
Location 21,906,258 – 21,906,440
Length 182
Max. P 0.999926
window12453 window12454 window12455 window12456 window12457

overview

Window 3

Location 21,906,258 – 21,906,373
Length 115
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 95.28
Mean single sequence MFE -25.54
Consensus MFE -20.42
Energy contribution -20.66
Covariance contribution 0.24
Combinations/Pair 1.04
Mean z-score -1.72
Structure conservation index 0.80
SVM decision value 0.35
SVM RNA-class probability 0.701681
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21906258 115 + 22407834
ACUCAUUCAAUAGUUUUGAAAAUUGCGAAUGUCACUUACAACCCAACAACAAGAGCCACUGCCUUGCACUUACAGC----UCCCUCUUUUCUCAGGCACAUGUGUCUGUGAGUGAGCAU
...(((((..(((((.....))))).)))))..................((((.((....))))))........((----((.(((......((((((....)))))).))).)))).. ( -23.50)
>DroSec_CAF1 194894 119 + 1
ACUCAUUCAAUAGUUUUGAAAAUUGCGAAUGUCACUUACAACCCAACAACAAGAGCCACUGCCUUGCACUUACAGGCACAUGCCUCUUUCCUCAGGCACAUGUGUCUGUGAGUGAGCAU
.....(((((.....)))))...(((.......................((((.((....))))))(((((((((((((((((((........)))))..)))))))))))))).))). ( -38.00)
>DroSim_CAF1 138925 115 + 1
ACUCAUUCAAUAGUUUUGAAAAUUGCGAAUGUCACUUACAACCCAACAACAAGAGCCACUGCCUUGCACUUACAGC----UCCCUCUUUCCUCAGGCACAUGUGUCUGUGAGUGAGCAU
...(((((..(((((.....))))).)))))..................((((.((....))))))........((----((.(((......((((((....)))))).))).)))).. ( -23.50)
>DroEre_CAF1 158462 115 + 1
ACUCAUUCAAUAGUUUUGAAAAUUGCGAAUGUCACUUACAACCCAACAACAAGAGCCACUGCCUUGCACUUACAGC----UCCCUCUUUCCUCGGGCACAUGUGUCUGUGAGUGAACAU
.....(((((.....)))))........((((((((((((.........((((.((....))))))....((((..----.(((.........)))....))))..)))))))).)))) ( -24.00)
>DroYak_CAF1 155048 115 + 1
ACUCAUUCAAUAGUUUUGAAAAUUACGAAUGUCACUUACAUCCCAACAACAAGAACCACUGCCUUGCACUUACAGC----UUCCUCUUUCCUCAGGCACAUGUGUCUGUGAGUAAGCAU
...(((((..(((((.....))))).)))))..................((((.........))))........((----((.(((......((((((....)))))).))).)))).. ( -18.70)
>consensus
ACUCAUUCAAUAGUUUUGAAAAUUGCGAAUGUCACUUACAACCCAACAACAAGAGCCACUGCCUUGCACUUACAGC____UCCCUCUUUCCUCAGGCACAUGUGUCUGUGAGUGAGCAU
.....(((((.....)))))........(((((((((((..........((((.((....))))))...........................(((((....))))))))))))).))) (-20.42 = -20.66 +   0.24)

alignment

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secondary structure

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dotplot

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Window 4

Location 21,906,298 – 21,906,412
Length 114
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 94.91
Mean single sequence MFE -37.44
Consensus MFE -32.40
Energy contribution -32.64
Covariance contribution 0.24
Combinations/Pair 1.03
Mean z-score -1.80
Structure conservation index 0.87
SVM decision value 1.65
SVM RNA-class probability 0.969743
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21906298 114 + 22407834
ACCCAACAACAAGAGCCACUGCCUUGCACUUACAGC----UCCCUCUUUUCUCAGGCACAUGUGUCUGUGAGUGAGCAUCCUUGCCAAGGAUGCGGACUGAGACAAUGUUGCCGGAGA-
.(((((((.((((.((....))))))......(((.----(((.((..(((.((((((....)))))).))).))(((((((.....)))))))))))))......)))))..))...- ( -37.20)
>DroSec_CAF1 194934 118 + 1
ACCCAACAACAAGAGCCACUGCCUUGCACUUACAGGCACAUGCCUCUUUCCUCAGGCACAUGUGUCUGUGAGUGAGCAUCCUUGCCAAGGAUGCGGACUGAGACAAUGUUGCCGGAGA-
.(((((((.((((.((....))))))(((((((((((((((((((........)))))..)))))))))))))).(((((((.....)))))))............)))))..))...- ( -48.50)
>DroSim_CAF1 138965 114 + 1
ACCCAACAACAAGAGCCACUGCCUUGCACUUACAGC----UCCCUCUUUCCUCAGGCACAUGUGUCUGUGAGUGAGCAUCCUUGCCAGGGAUGCGGACUGAGACAAUGUUGCCGGAGA-
.(((((((.((((.((....))))))......(((.----(((.((.(((..((((((....)))))).))).))(((((((.....)))))))))))))......)))))..))...- ( -36.90)
>DroEre_CAF1 158502 115 + 1
ACCCAACAACAAGAGCCACUGCCUUGCACUUACAGC----UCCCUCUUUCCUCGGGCACAUGUGUCUGUGAGUGAACAUCCUUGCCAAGGAUGCGGACUGAGACAAUGUUGCCGGAGAC
.(((((((.((((.((....))))))......(((.----(((.((.(((..((((((....)))))).))).)).((((((.....)))))).))))))......)))))..)).... ( -31.50)
>DroYak_CAF1 155088 114 + 1
UCCCAACAACAAGAACCACUGCCUUGCACUUACAGC----UUCCUCUUUCCUCAGGCACAUGUGUCUGUGAGUAAGCAUCCUUGCCAAGGAUGCGGACUGAGACAAUGUUGCCGGAGA-
((((((((.((((.........))))..........----...(((..(((.((((((....)))))).......(((((((.....))))))))))..)))....)))))..)))..- ( -33.10)
>consensus
ACCCAACAACAAGAGCCACUGCCUUGCACUUACAGC____UCCCUCUUUCCUCAGGCACAUGUGUCUGUGAGUGAGCAUCCUUGCCAAGGAUGCGGACUGAGACAAUGUUGCCGGAGA_
.........((((.((....))))))........................(((.(((((((.(((((...(((..(((((((.....)))))))..))).)))))))).)))).))).. (-32.40 = -32.64 +   0.24)

alignment

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secondary structure

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Window 5

Location 21,906,298 – 21,906,412
Length 114
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 94.91
Mean single sequence MFE -43.22
Consensus MFE -36.56
Energy contribution -36.80
Covariance contribution 0.24
Combinations/Pair 1.08
Mean z-score -2.06
Structure conservation index 0.85
SVM decision value 1.91
SVM RNA-class probability 0.982133
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21906298 114 - 22407834
-UCUCCGGCAACAUUGUCUCAGUCCGCAUCCUUGGCAAGGAUGCUCACUCACAGACACAUGUGCCUGAGAAAAGAGGGA----GCUGUAAGUGCAAGGCAGUGGCUCUUGUUGUUGGGU
-..(((((((((....((((((...(((((((.....))))))).....((((......)))).)))))).....((((----((..(...(((...))))..))))))))))))))). ( -42.50)
>DroSec_CAF1 194934 118 - 1
-UCUCCGGCAACAUUGUCUCAGUCCGCAUCCUUGGCAAGGAUGCUCACUCACAGACACAUGUGCCUGAGGAAAGAGGCAUGUGCCUGUAAGUGCAAGGCAGUGGCUCUUGUUGUUGGGU
-..((((((((((..(((.(.(((.(((((((.....))))))).((((.((((.(((((((..((......))..))))))).)))).))))...))).).)))...)))))))))). ( -49.50)
>DroSim_CAF1 138965 114 - 1
-UCUCCGGCAACAUUGUCUCAGUCCGCAUCCCUGGCAAGGAUGCUCACUCACAGACACAUGUGCCUGAGGAAAGAGGGA----GCUGUAAGUGCAAGGCAGUGGCUCUUGUUGUUGGGU
-..((((((((((....(((..(((((((((.......))))))(((..((((......))))..))))))..)))(((----((..(...(((...))))..))))))))))))))). ( -43.50)
>DroEre_CAF1 158502 115 - 1
GUCUCCGGCAACAUUGUCUCAGUCCGCAUCCUUGGCAAGGAUGUUCACUCACAGACACAUGUGCCCGAGGAAAGAGGGA----GCUGUAAGUGCAAGGCAGUGGCUCUUGUUGUUGGGU
...((((((((((....(((..((((((((((.....)))))))((...((((......))))...)))))..)))(((----((..(...(((...))))..))))))))))))))). ( -40.30)
>DroYak_CAF1 155088 114 - 1
-UCUCCGGCAACAUUGUCUCAGUCCGCAUCCUUGGCAAGGAUGCUUACUCACAGACACAUGUGCCUGAGGAAAGAGGAA----GCUGUAAGUGCAAGGCAGUGGUUCUUGUUGUUGGGA
-..(((((((((....((((((...(((((((.....))))))).....((((......)))).))))))...(((((.----(((((.........)))))..)))))))))))))). ( -40.30)
>consensus
_UCUCCGGCAACAUUGUCUCAGUCCGCAUCCUUGGCAAGGAUGCUCACUCACAGACACAUGUGCCUGAGGAAAGAGGGA____GCUGUAAGUGCAAGGCAGUGGCUCUUGUUGUUGGGU
...(((((((((....((((((...(((((((.....))))))).....((((......)))).))))))...(((((.....(((((.........)))))..)))))))))))))). (-36.56 = -36.80 +   0.24)

alignment

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secondary structure

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dotplot

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Window 6

Location 21,906,334 – 21,906,440
Length 106
Sequences 5
Columns 113
Reading direction forward
Mean pairwise identity 94.58
Mean single sequence MFE -38.00
Consensus MFE -34.94
Energy contribution -34.98
Covariance contribution 0.04
Combinations/Pair 1.03
Mean z-score -2.08
Structure conservation index 0.92
SVM decision value 3.19
SVM RNA-class probability 0.998699
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21906334 106 + 22407834
-UCCCUCUUUUCUCAGGCACAUGUGUCUGUGAGUGAGCAUCCUUGCCAAGGAUGCGGACUGAGACAAUGUUGCCGGAGA------CGGAGAAGGAUACUGCCACGAAGACAAA
-(((.(((((((((.(((((((.(((((...(((..(((((((.....)))))))..))).)))))))).)))).))))------.))))).))).................. ( -39.50)
>DroSec_CAF1 194973 107 + 1
AUGCCUCUUUCCUCAGGCACAUGUGUCUGUGAGUGAGCAUCCUUGCCAAGGAUGCGGACUGAGACAAUGUUGCCGGAGA------CGGAGAAGGAUACUGCCACGAAGACAAA
...(((.(((((...(((((((.(((((...(((..(((((((.....)))))))..))).)))))))).))))(....------)))))))))................... ( -37.20)
>DroSim_CAF1 139001 106 + 1
-UCCCUCUUUCCUCAGGCACAUGUGUCUGUGAGUGAGCAUCCUUGCCAGGGAUGCGGACUGAGACAAUGUUGCCGGAGA------CGGAGAAGGAUACUGCCACGAAGACAAA
-..(((.(((((...(((((((.(((((...(((..(((((((.....)))))))..))).)))))))).))))(....------)))))))))................... ( -37.60)
>DroEre_CAF1 158538 112 + 1
-UCCCUCUUUCCUCGGGCACAUGUGUCUGUGAGUGAACAUCCUUGCCAAGGAUGCGGACUGAGACAAUGUUGCCGGAGACGGAGACGGAGAAGGAUACUGCCACGAAGACAAA
-(((.((((..(((.(((((((.(((((...(((...((((((.....))))))...))).)))))))).)))).))).((....)))))).))).................. ( -36.70)
>DroYak_CAF1 155124 106 + 1
-UUCCUCUUUCCUCAGGCACAUGUGUCUGUGAGUAAGCAUCCUUGCCAAGGAUGCGGACUGAGACAAUGUUGCCGGAGA------CGGAGAAGGAUACUGCCAAGAAGACAAA
-.((((.(((((...(((((((.(((((...(((..(((((((.....)))))))..))).)))))))).))))(....------)))))))))).................. ( -39.00)
>consensus
_UCCCUCUUUCCUCAGGCACAUGUGUCUGUGAGUGAGCAUCCUUGCCAAGGAUGCGGACUGAGACAAUGUUGCCGGAGA______CGGAGAAGGAUACUGCCACGAAGACAAA
.....(((((.(((.(((((((.(((((...(((..(((((((.....)))))))..))).)))))))).)))).)))........((...((....)).))..))))).... (-34.94 = -34.98 +   0.04)

alignment

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secondary structure

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dotplot

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Window 7

Location 21,906,334 – 21,906,440
Length 106
Sequences 5
Columns 113
Reading direction reverse
Mean pairwise identity 94.58
Mean single sequence MFE -40.12
Consensus MFE -35.98
Energy contribution -36.26
Covariance contribution 0.28
Combinations/Pair 1.05
Mean z-score -3.32
Structure conservation index 0.90
SVM decision value 4.60
SVM RNA-class probability 0.999926
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21906334 106 - 22407834
UUUGUCUUCGUGGCAGUAUCCUUCUCCG------UCUCCGGCAACAUUGUCUCAGUCCGCAUCCUUGGCAAGGAUGCUCACUCACAGACACAUGUGCCUGAGAAAAGAGGGA-
.(((((.....)))))..(((((((...------((((.((((.((((((((.(((..(((((((.....)))))))..)))...))))).))))))).))))..)))))))- ( -43.50)
>DroSec_CAF1 194973 107 - 1
UUUGUCUUCGUGGCAGUAUCCUUCUCCG------UCUCCGGCAACAUUGUCUCAGUCCGCAUCCUUGGCAAGGAUGCUCACUCACAGACACAUGUGCCUGAGGAAAGAGGCAU
.(((((.....)))))....(((((...------((((.((((.((((((((.(((..(((((((.....)))))))..)))...))))).))))))).))))..)))))... ( -37.80)
>DroSim_CAF1 139001 106 - 1
UUUGUCUUCGUGGCAGUAUCCUUCUCCG------UCUCCGGCAACAUUGUCUCAGUCCGCAUCCCUGGCAAGGAUGCUCACUCACAGACACAUGUGCCUGAGGAAAGAGGGA-
.(((((.....)))))..(((((((...------((((.((((.((((((((.(((..((((((.......))))))..)))...))))).))))))).))))..)))))))- ( -40.90)
>DroEre_CAF1 158538 112 - 1
UUUGUCUUCGUGGCAGUAUCCUUCUCCGUCUCCGUCUCCGGCAACAUUGUCUCAGUCCGCAUCCUUGGCAAGGAUGUUCACUCACAGACACAUGUGCCCGAGGAAAGAGGGA-
.(((((.....)))))........(((.(((...((((.((((.((((((((.(((..(((((((.....)))))))..)))...))))).))))))).))))..))).)))- ( -39.10)
>DroYak_CAF1 155124 106 - 1
UUUGUCUUCUUGGCAGUAUCCUUCUCCG------UCUCCGGCAACAUUGUCUCAGUCCGCAUCCUUGGCAAGGAUGCUUACUCACAGACACAUGUGCCUGAGGAAAGAGGAA-
.(((((.....)))))..((((.((...------((((.((((.((((((((.(((..(((((((.....)))))))..)))...))))).))))))).))))..)))))).- ( -39.30)
>consensus
UUUGUCUUCGUGGCAGUAUCCUUCUCCG______UCUCCGGCAACAUUGUCUCAGUCCGCAUCCUUGGCAAGGAUGCUCACUCACAGACACAUGUGCCUGAGGAAAGAGGGA_
.(((((.....)))))..(((((((.........((((.((((.((((((((.(((..(((((((.....)))))))..)))...))))).))))))).))))..))))))). (-35.98 = -36.26 +   0.28)

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 12:44:27 2006