Locus 3282

Sequence ID 2L_DroMel_CAF1
Location 9,497,397 – 9,497,489
Length 92
Max. P 0.952973
window5209 window5210

overview

Window 9

Location 9,497,397 – 9,497,489
Length 92
Sequences 6
Columns 92
Reading direction forward
Mean pairwise identity 81.96
Mean single sequence MFE -24.98
Consensus MFE -19.51
Energy contribution -21.35
Covariance contribution 1.84
Combinations/Pair 1.23
Mean z-score -3.38
Structure conservation index 0.78
SVM decision value 1.43
SVM RNA-class probability 0.952973
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9497397 92 + 22407834
AAGACAGAGAGCAAACAACAACUUUUAACUGUUUGUUGAUGCGUUGUUUGCUCGUUUGUCUCUGCUUCAUGCAAUCUAUUAGUCGCUCUCCC
.((((((((((((((((((.....(((((.....)))))...))))))))))).))))))).(((.....)))................... ( -28.90)
>DroSec_CAF1 5224 92 + 1
AAGACAGAGAGCAAACAACAACUUUUAACUGUUUGUUGAUGCGUUGUUUGCUCGUUUGUCUCUGCUUCAUGCAAUCUAUUAGUCGCUCUCCC
.((((((((((((((((((.....(((((.....)))))...))))))))))).))))))).(((.....)))................... ( -28.90)
>DroSim_CAF1 5405 92 + 1
AAGACAGAGAGCAAACAACAACUUUUAACUGUUUGUUGAUGCGUUGUUUGCUCGUUUGUCUCUGCUUCAUGCAAUCUAUUAGUCGCUCUCCC
.((((((((((((((((((.....(((((.....)))))...))))))))))).))))))).(((.....)))................... ( -28.90)
>DroEre_CAF1 6940 92 + 1
AAGACAGAGAGCAAACAACAACUUUUAACUGUUUGUUGAUGCGUUGUUUGCUCGUUUGUCUCUGCUUCAUGCAAUCUAUUAGUCGCUCUCCC
.((((((((((((((((((.....(((((.....)))))...))))))))))).))))))).(((.....)))................... ( -28.90)
>DroYak_CAF1 5453 92 + 1
AAGAAAAAGAGCAAACAACAACUUUUAACUGUUUGUUGAUGCGUUGUUUGCUCGUUUGUCUCUGCUUCAUGCAAUCUAUUAGUCUCUCUCCC
.(((....(((((((((((.....(((((.....)))))...))))))))))).....))).(((.....)))................... ( -23.00)
>DroPer_CAF1 8331 76 + 1
UGGACAGCUGCUCAAG--AAACUCUUAACUGUUACUUUGUGUGCAGUCUC-UC-UCUCUCUCUCUCUAAUGCUUACUAGC------------
.(((.((((((.((((--.(((........))).))...)).)))).)).-))-)...............(((....)))------------ ( -11.30)
>consensus
AAGACAGAGAGCAAACAACAACUUUUAACUGUUUGUUGAUGCGUUGUUUGCUCGUUUGUCUCUGCUUCAUGCAAUCUAUUAGUCGCUCUCCC
.((((((((((((((((((.....(((((.....)))))...))))))))))).))))))).(((.....)))................... (-19.51 = -21.35 +   1.84)

alignment

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secondary structure

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dotplot

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Window 0

Location 9,497,397 – 9,497,489
Length 92
Sequences 6
Columns 92
Reading direction reverse
Mean pairwise identity 81.96
Mean single sequence MFE -22.50
Consensus MFE -13.73
Energy contribution -16.28
Covariance contribution 2.56
Combinations/Pair 1.08
Mean z-score -2.06
Structure conservation index 0.61
SVM decision value 0.21
SVM RNA-class probability 0.634782
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9497397 92 - 22407834
GGGAGAGCGACUAAUAGAUUGCAUGAAGCAGAGACAAACGAGCAAACAACGCAUCAACAAACAGUUAAAAGUUGUUGUUUGCUCUCUGUCUU
......((((........))))........((((((...(((((((((((((...(((.....)))....).))))))))))))..)))))) ( -24.30)
>DroSec_CAF1 5224 92 - 1
GGGAGAGCGACUAAUAGAUUGCAUGAAGCAGAGACAAACGAGCAAACAACGCAUCAACAAACAGUUAAAAGUUGUUGUUUGCUCUCUGUCUU
......((((........))))........((((((...(((((((((((((...(((.....)))....).))))))))))))..)))))) ( -24.30)
>DroSim_CAF1 5405 92 - 1
GGGAGAGCGACUAAUAGAUUGCAUGAAGCAGAGACAAACGAGCAAACAACGCAUCAACAAACAGUUAAAAGUUGUUGUUUGCUCUCUGUCUU
......((((........))))........((((((...(((((((((((((...(((.....)))....).))))))))))))..)))))) ( -24.30)
>DroEre_CAF1 6940 92 - 1
GGGAGAGCGACUAAUAGAUUGCAUGAAGCAGAGACAAACGAGCAAACAACGCAUCAACAAACAGUUAAAAGUUGUUGUUUGCUCUCUGUCUU
......((((........))))........((((((...(((((((((((((...(((.....)))....).))))))))))))..)))))) ( -24.30)
>DroYak_CAF1 5453 92 - 1
GGGAGAGAGACUAAUAGAUUGCAUGAAGCAGAGACAAACGAGCAAACAACGCAUCAACAAACAGUUAAAAGUUGUUGUUUGCUCUUUUUCUU
..((((((((........((((.....))))........(((((((((((((...(((.....)))....).)))))))))))))))))))) ( -24.00)
>DroPer_CAF1 8331 76 - 1
------------GCUAGUAAGCAUUAGAGAGAGAGAGA-GA-GAGACUGCACACAAAGUAACAGUUAAGAGUUU--CUUGAGCAGCUGUCCA
------------(((....)))..............(.-((-.((.((((((.....)).....(((((.....--))))))))))).))). ( -13.80)
>consensus
GGGAGAGCGACUAAUAGAUUGCAUGAAGCAGAGACAAACGAGCAAACAACGCAUCAACAAACAGUUAAAAGUUGUUGUUUGCUCUCUGUCUU
...................(((.....)))((((((...(((((((((((((...(((.....)))....).))))))))))))..)))))) (-13.73 = -16.28 +   2.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:48:45 2006