Locus 7758

Sequence ID 2L_DroMel_CAF1
Location 21,892,201 – 21,892,435
Length 234
Max. P 0.985579
window12441 window12442 window12443

overview

Window 1

Location 21,892,201 – 21,892,305
Length 104
Sequences 5
Columns 112
Reading direction forward
Mean pairwise identity 93.36
Mean single sequence MFE -17.54
Consensus MFE -16.88
Energy contribution -16.88
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.22
Structure conservation index 0.96
SVM decision value 0.78
SVM RNA-class probability 0.849581
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21892201 104 + 22407834
AUGGGAAUGACAGUAAUAAACAACAAAAGCAAUUCAAAUGCAGCGCAUAGAAUGCAUAAUUAAUUUUUAUUUUGAUGACAACGUCAACGCACCAUCACCAUCCA--------
((((..(((...................(((.......))).((((((...))))................((((((....)))))).))..)))..))))...-------- ( -17.20)
>DroSec_CAF1 181898 112 + 1
AUGGGAAUGACAGUAAUAAACAACAAAAGCAAUUCAAAUGCAGCGCAUAGAAUGCAUAAUUAAUUUUUAUUUUGAUGACAACGUCAACGCACCAUCACCAUCCAGCCCAGCC
.((((...((..((..............(((.......))).((((((...))))................((((((....)))))).))......))..))...))))... ( -18.00)
>DroSim_CAF1 125630 112 + 1
AUGGGAAUGACAGUAAUAAACAACAAAAGCAAUUCAAAUGCAGCGCAUAGAAUGCAUAAUUAAUUUUUAUUUUGAUGACAACGUCAACGCACCAUCACCAUCCAGCCCAGCC
.((((...((..((..............(((.......))).((((((...))))................((((((....)))))).))......))..))...))))... ( -18.00)
>DroYak_CAF1 139744 103 + 1
AUGGGAAUGACAGUAAUAAACAACAAAAGCAAUUCAAAUGCAGCGCAUAGAAUGCAUAAUUAAUUUUUAUUUUGAUGACAACGUCAACGCACCAUCACCAU---------CC
((((..(((...................(((.......))).((((((...))))................((((((....)))))).))..)))..))))---------.. ( -17.20)
>DroAna_CAF1 126425 112 + 1
AUGGGAAUGACAGUAACAAACAACAAAAGCAAUUCAAAUGCAGCGCAUAGAAUGCAUAAUUAAUUUUUAUUUUGAUGACAACGUCAACGCACCAUCACCACCCCAACCAGUC
.((((..(((..((..............(((.......))).((((((...))))................((((((....)))))).))))..)))....))))....... ( -17.30)
>consensus
AUGGGAAUGACAGUAAUAAACAACAAAAGCAAUUCAAAUGCAGCGCAUAGAAUGCAUAAUUAAUUUUUAUUUUGAUGACAACGUCAACGCACCAUCACCAUCCA__CCAGCC
.(((..(((...................(((.......))).((((((...))))................((((((....)))))).))..)))..)))............ (-16.88 = -16.88 +   0.00)

alignment

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secondary structure

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dotplot

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Window 2

Location 21,892,305 – 21,892,397
Length 92
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 67.82
Mean single sequence MFE -26.14
Consensus MFE -13.01
Energy contribution -13.33
Covariance contribution 0.31
Combinations/Pair 1.06
Mean z-score -2.27
Structure conservation index 0.50
SVM decision value 2.01
SVM RNA-class probability 0.985579
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21892305 92 + 22407834
----------------------GCCACCCAUUUUUCCAAA-ACAAUCCGUGGUGUGCUUUUUGGCAUGUCCAGUGCAAUUAUCCUGUAUUGGACUUAUUUAC-GUACAUA----UGUAUG
----------------------(((((.............-.......)))))(((((....)))))((((((((((.......)))))))))).......(-((((...----.))))) ( -24.95)
>DroEre_CAF1 145898 96 + 1
AGUCCAG------------CCCGUCGCCCUUUUUCACAAA-ACAAUCCGUGGUGUGCUUUUUGGCAUGUCCACUGCAAUUAUCCUGUAUUGGACUUAUGUAU-UUACAUA----------
(((((((------------.....................-.......((((((((((....)))))).))))((((.......)))))))))))(((((..-..)))))---------- ( -21.40)
>DroYak_CAF1 139847 98 + 1
AGCCCAG------------CCAGCUGCCCAUUUUCCCAAA-ACAAUUCGUGCUGUGCUUUUUGGCAUGUCCACUGCAAUUAUCCUGUAUUGGACAUAUGUAU-GUACAUA--------UG
.(((.((------------(((((................-.........)))).)))....)))..(((((.((((.......)))).)))))((((((..-..)))))--------). ( -25.11)
>DroAna_CAF1 126537 118 + 1
CCCGCGAUAAACUGCUCCACCA-CCUACCAUUUUUCCAAACACAUCCUCUGGGGUGCUCUUUGGCAUGUCCACUGCAAUUAUUUUGGAUUGGAUAU-UGUAUUGGACAAACGUAUGUGGA
...(((......)))....(((-(.(((.......(((((..(((((....)))))...)))))..((((((.((((((.((((......))))))-)))).))))))...))).)))). ( -33.10)
>consensus
AGCCCAG____________CCAGCCGCCCAUUUUCCCAAA_ACAAUCCGUGGUGUGCUUUUUGGCAUGUCCACUGCAAUUAUCCUGUAUUGGACAUAUGUAU_GUACAUA________UG
................................................(((..(((((....)))))(((((.((((.......)))).)))))............)))........... (-13.01 = -13.33 +   0.31)

alignment

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secondary structure

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dotplot

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Window 3

Location 21,892,323 – 21,892,435
Length 112
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 68.97
Mean single sequence MFE -29.67
Consensus MFE -13.01
Energy contribution -13.33
Covariance contribution 0.31
Combinations/Pair 1.06
Mean z-score -2.49
Structure conservation index 0.44
SVM decision value 1.51
SVM RNA-class probability 0.959883
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21892323 112 + 22407834
-ACAAUCCGUGGUGUGCUUUUUGGCAUGUCCAGUGCAAUUAUCCUGUAUUGGACUUAUUUAC-GUACAUA----UGUAUGAAUAUCUGUAU--GCAUGUUAAAAUAAGCCAACGUAGUUA
-......((((((.....(((((((((((((((((((.......)))))))))).......(-(((((.(----(((....)))).)))))--).)))))))))...))).)))...... ( -31.90)
>DroEre_CAF1 145926 106 + 1
-ACAAUCCGUGGUGUGCUUUUUGGCAUGUCCACUGCAAUUAUCCUGUAUUGGACUUAUGUAU-UUACAUA------------UAUGUGAAUUGGAAUGCUCAAAUAAGCCCAGGUAGUUA
-.....((.(((...(((((((((((((((((.((((.......)))).)))))......((-(((((..------------..)))))))....)))).)))).)))))))))...... ( -26.70)
>DroYak_CAF1 139875 110 + 1
-ACAAUUCGUGCUGUGCUUUUUGGCAUGUCCACUGCAAUUAUCCUGUAUUGGACAUAUGUAU-GUACAUA--------UGCAUAUGUGAAUUGGUAUGUGUAAAUACGCCCACGAAGUUA
-....((((((...........((((((((((.((((.......)))).)))))))..((((-.((((((--------(((..((....))..))))))))).))))))))))))).... ( -34.00)
>DroAna_CAF1 126576 101 + 1
CACAUCCUCUGGGGUGCUCUUUGGCAUGUCCACUGCAAUUAUUUUGGAUUGGAUAU-UGUAUUGGACAAACGUAUGUGGAAAUACGUAUAU--AUAC----------------AUAGUAA
..(((((....)))))..((.((...((((((.((((((.((((......))))))-)))).)))))).((((((......))))))....--...)----------------).))... ( -26.10)
>consensus
_ACAAUCCGUGGUGUGCUUUUUGGCAUGUCCACUGCAAUUAUCCUGUAUUGGACAUAUGUAU_GUACAUA________UGAAUAUGUGAAU__GUAUGUU_AAAUAAGCCCACGUAGUUA
........(((..(((((....)))))(((((.((((.......)))).)))))............)))................................................... (-13.01 = -13.33 +   0.31)

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 12:44:14 2006