Locus 3151

Sequence ID 3R_DroMel_CAF1
Location 8,351,392 – 8,351,530
Length 138
Max. P 0.954283
window5104 window5105

overview

Window 4

Location 8,351,392 – 8,351,490
Length 98
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 74.08
Mean single sequence MFE -22.44
Consensus MFE -13.81
Energy contribution -14.82
Covariance contribution 1.01
Combinations/Pair 1.11
Mean z-score -1.58
Structure conservation index 0.62
SVM decision value 0.44
SVM RNA-class probability 0.735929
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8351392 98 + 27905053
-----AUUUAUUUAUGUCAUACUUUUGACAACCUAUCAACUUAUAUUUAAAUCUGCAU-----------------CUGUGGGUUUAUCAGUAAGCAAGCAUUUAGCUCGUUUAUUAAGCC
-----.........(((((......))))).................((((((..(..-----------------..)..))))))..(((((((.(((.....))).)))))))..... ( -20.10)
>DroSim_CAF1 10452 115 + 1
-----AUAUAUUCAUGACAUCCUUCUGACAACCUGUCAACAUACAUUUAAAUCUGCAUAUUCUGGCUGUGAAGCGAUGUGGGUUUAUCAAUAAGCAAUCAUUAAACUCGUUUAUUAAGCC
-----...........(((((((((((((.....))))................((........))...)))).))))).((((((...((((((.............)))))))))))) ( -19.12)
>DroYak_CAF1 13626 120 + 1
CGUAUAUUUAUUCAUGUCAUACCUUUGACAACCUAUGGACAUAUUGUUAAAUCCGCAUCUUUUGGCUGUGAAGCGAUGUGGAUUUAUCAGCAAGCAAGCAUUACAAUCGUUUAUUAAGCC
..............(((((......)))))....((((((....((.((((((((((((.....(((....))))))))))))))).))((......)).........))))))...... ( -28.10)
>consensus
_____AUUUAUUCAUGUCAUACUUUUGACAACCUAUCAACAUAUAUUUAAAUCUGCAU_UU_UGGCUGUGAAGCGAUGUGGGUUUAUCAGUAAGCAAGCAUUAAACUCGUUUAUUAAGCC
..............(((((......))))).................((((((((((((.....(((....)))))))))))))))..(((((((.............)))))))..... (-13.81 = -14.82 +   1.01)

alignment

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secondary structure

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dotplot

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Window 5

Location 8,351,427 – 8,351,530
Length 103
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 73.06
Mean single sequence MFE -25.16
Consensus MFE -18.30
Energy contribution -19.43
Covariance contribution 1.13
Combinations/Pair 1.23
Mean z-score -1.71
Structure conservation index 0.73
SVM decision value 1.44
SVM RNA-class probability 0.954283
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8351427 103 + 27905053
UUAUAUUUAAAUCUGCAU-----------------CUGUGGGUUUAUCAGUAAGCAAGCAUUUAGCUCGUUUAUUAAGCCGCUAUAAUAAAAUAUUUCGUGGCUUAUCAACGAAUACCUG
.......((((((..(..-----------------..)..))))))((.((((((.(((.....))).))))))((((((((...((((...))))..)))))))).....))....... ( -24.20)
>DroSim_CAF1 10487 117 + 1
AUACAUUUAAAUCUGCAUAUUCUGGCUGUGAAGCGAUGUGGGUUUAUCAAUAAGCAAUCAUUAAACUCGUUUAUUAAGCCGCCAUAAUAAAAUAUUUCGUGGCUUAUCGACGAAUAC---
.......((((((..(((.(((.......)))...)))..))))))....................(((((...((((((((...((((...))))..))))))))..)))))....--- ( -26.80)
>DroEre_CAF1 14895 109 + 1
UUAUUUUUAAACCUGCAUCUUCUGGCUGUGAAGCAAUGUGGAUUUAUCAGUGA-----------AACUAUUUAUUAAGCCGCAUUAAUUAAAUGUUUCAAGGCUUAUCAAUGAACACCAG
(((((..((((.(..(((((((.......))))..)))..).))))..)))))-----------...((((...(((((((((((.....))))).....))))))..))))........ ( -19.10)
>DroYak_CAF1 13666 120 + 1
AUAUUGUUAAAUCCGCAUCUUUUGGCUGUGAAGCGAUGUGGAUUUAUCAGCAAGCAAGCAUUACAAUCGUUUAUUAAGCCGCCAUAUUAAAAUAUUUCAGGGCUUAUCAACGAAUACCUG
....((.((((((((((((.....(((....))))))))))))))).))((......)).......(((((...((((((....................))))))..)))))....... ( -30.55)
>consensus
AUAUAUUUAAAUCUGCAUCUUCUGGCUGUGAAGCGAUGUGGAUUUAUCAGUAAGCAAGCAUUAAAAUCGUUUAUUAAGCCGCCAUAAUAAAAUAUUUCAUGGCUUAUCAACGAAUACCUG
.......(((((((((((((((.......))))..)))))))))))....................(((((...((((((((...(((.....)))..))))))))..)))))....... (-18.30 = -19.43 +   1.13)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:54:18 2006