Locus 480

Sequence ID 2L_DroMel_CAF1
Location 1,404,586 – 1,404,696
Length 110
Max. P 0.815081
window767 window768

overview

Window 7

Location 1,404,586 – 1,404,678
Length 92
Sequences 6
Columns 112
Reading direction forward
Mean pairwise identity 82.72
Mean single sequence MFE -20.63
Consensus MFE -14.90
Energy contribution -15.10
Covariance contribution 0.20
Combinations/Pair 1.05
Mean z-score -2.39
Structure conservation index 0.72
SVM decision value 0.66
SVM RNA-class probability 0.815081
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1404586 92 + 22407834
---UCUCGU-------------GGCUUCAAAUUAAUUAUAUUUGUCAUGCCCAUUGACAUUUCGACAAGUUUUCUAUUAAUUAUUUUUGAUAGAUGUUGGAA-CUGU--UA-
---....(.-------------(((..(((((.......)))))....))))..(((((((((((((.....((((((((......))))))))))))))))-.)))--))- ( -21.60)
>DroVir_CAF1 42854 112 + 1
CUUUGUAGUUUUUUAGAAAAAAAAGCUAAAAUUAAUUAGAUUUGUCAUUCCCAUUGACAUUUCGACAACUUUUCUAUUAAUUAUUUUUGAUAGAUGUUACGAGCAGAGGGAA
((((((((((((((.....))))))))...........((..(((((.......)))))..))...(((...((((((((......)))))))).)))....)))))).... ( -24.60)
>DroPse_CAF1 25316 88 + 1
---UACAGC-------------GG----AAAUUAAUUACAUUUGUCAUGCCCAUUGACAUUUCGACAAGUUUUCUAUUAAUUAUUUUUGAUAGAUGUUGGAA-CUGU--UA-
---...(((-------------((----..............(((((.......)))))((((((((.....((((((((......))))))))))))))))-))))--).- ( -20.20)
>DroYak_CAF1 23099 92 + 1
---UCUCGU-------------GCCUUCAAAUUAAUUACAUUUGUCAUGCCCAUUGACAUUUCGACAAGUUUUCUAUUAAUUAUUUUUGAUAGAUGUUGGAA-CUGU--UA-
---....(.-------------((...(((((.......)))))....)).)..(((((((((((((.....((((((((......))))))))))))))))-.)))--))- ( -17.20)
>DroAna_CAF1 22908 92 + 1
---UCUUGU-------------GGCUCCAAAUUAAUUGCAUUUGUCAUGCCCAUUGACAUUUCGACAAGUUUUCUAUUAAUUAUUUUUGAUAGAUGUUGGAA-CUGU--UA-
---...((.-------------(((..(((((.......)))))....))))).(((((((((((((.....((((((((......))))))))))))))))-.)))--))- ( -20.60)
>DroPer_CAF1 25493 88 + 1
---UACAGC-------------GG----AAAUUAAUUACAUUUGUCAUGCCCAUUGACAUUUCGACAAGUUUUCUAUUAAUUAUUUUUGAUAGAUGUUGGAA-CUGU--UC-
---...(((-------------((----..............(((((.......)))))((((((((.....((((((((......))))))))))))))))-))))--).- ( -19.60)
>consensus
___UCUAGU_____________GGCUUCAAAUUAAUUACAUUUGUCAUGCCCAUUGACAUUUCGACAAGUUUUCUAUUAAUUAUUUUUGAUAGAUGUUGGAA_CUGU__UA_
..........................................(((((.......)))))((((((((.....((((((((......)))))))))))))))).......... (-14.90 = -15.10 +   0.20)

alignment

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secondary structure

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dotplot

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Window 8

Location 1,404,602 – 1,404,696
Length 94
Sequences 6
Columns 111
Reading direction forward
Mean pairwise identity 81.85
Mean single sequence MFE -17.68
Consensus MFE -14.77
Energy contribution -15.10
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.45
Structure conservation index 0.84
SVM decision value 0.30
SVM RNA-class probability 0.680265
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1404602 94 + 22407834
UAAUUAUAUUUGUCAUGCCCAUUGACAUUUCGACAAGUUUUCUAUUAAUUAUUUUUGAUAGAUGUUGGAACUGUUAAAAAUACAACCCG-----------------AAAGC
.....................((((((((((((((.....((((((((......)))))))))))))))).))))))..........(.-----------------...). ( -17.20)
>DroPse_CAF1 25328 104 + 1
UAAUUACAUUUGUCAUGCCCAUUGACAUUUCGACAAGUUUUCUAUUAAUUAUUUUUGAUAGAUGUUGGAACUGUUAAAAAUACAACCGA-------AAAAAACCGAAAAGC
..........(((((.......)))))(((((.....(((((.......((((((((((((.........)))))))))))).....))-------)))....)))))... ( -17.20)
>DroEre_CAF1 22835 93 + 1
UAAUUACAUUUGUCAUGCCCAUUGACAUUUCGACAAGUUUUCUAUUAAUUAUUUUUGAUAGAUGUUGGAACUGUUAAAAAUACAACCCG-----------------A-AGC
.....................((((((((((((((.....((((((((......)))))))))))))))).))))))............-----------------.-... ( -16.90)
>DroWil_CAF1 25367 79 + 1
UAAUUAGAUUUGUCAUUUCCAUUGACAUUUCGACAACUUUUCUAUUAAUUAUUUUUGAUAGAUGUGGUAA-------GAAA-------------------------AAAGC
......((..(((((.......)))))..))....(((..((((((((......))))))))...)))..-------....-------------------------..... ( -16.00)
>DroAna_CAF1 22924 111 + 1
UAAUUGCAUUUGUCAUGCCCAUUGACAUUUCGACAAGUUUUCUAUUAAUUAUUUUUGAUAGAUGUUGGAACUGUUAAAAAUACAAUCCGGACAACAAAAAUGCUUUAAAGC
.....(((((((((.......((((((((((((((.....((((((((......)))))))))))))))).)))))).....(.....))))).....)))))........ ( -22.10)
>DroPer_CAF1 25505 104 + 1
UAAUUACAUUUGUCAUGCCCAUUGACAUUUCGACAAGUUUUCUAUUAAUUAUUUUUGAUAGAUGUUGGAACUGUUCAAAAUACAACCGA-------AAAAAACCGAAAAGC
..........(((((.......)))))(((((........((((((((......))))))))..((((...(((.......))).))))-------.......)))))... ( -16.70)
>consensus
UAAUUACAUUUGUCAUGCCCAUUGACAUUUCGACAAGUUUUCUAUUAAUUAUUUUUGAUAGAUGUUGGAACUGUUAAAAAUACAACCCG_________________AAAGC
..........(((((.......)))))((((((((.....((((((((......))))))))))))))))......................................... (-14.77 = -15.10 +   0.33)

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 09:37:09 2006