Locus 4561

Sequence ID 2R_DroMel_CAF1
Location 14,915,728 – 14,915,833
Length 105
Max. P 0.725592
window7307 window7308

overview

Window 7

Location 14,915,728 – 14,915,833
Length 105
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 79.71
Mean single sequence MFE -33.48
Consensus MFE -21.47
Energy contribution -23.13
Covariance contribution 1.67
Combinations/Pair 1.15
Mean z-score -1.44
Structure conservation index 0.64
SVM decision value 0.13
SVM RNA-class probability 0.597125
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14915728 105 + 20766785
---------GAUGUCACCACAUUGAGCAGCUUGCGGUUGUCCAAGCUCAAUGUUGUGAGAUCUAUGAAGGACACAACCUUCUCGCGCUGCUCGGCCACCCGUUGCCAAAUGGAU
---------(((.((((.(((((((((.(....)((....))..))))))))).)))).)))...(((((......)))))..(.(((....))))..(((((....))))).. ( -36.60)
>DroSec_CAF1 2165 105 + 1
---------GAUGUCACCACAUUGAGCAGCUUGCGAUUGUCCAUGCUCAAUGUGGUGAGAUCUAUGAAGGACACAACCUUAUCGCGCUGCUCGGCCACCCGUUGCCAUAUGGAU
---------(((.(((((((((((((((....((....))...))))))))))))))).)))....((((......))))...(.(((....))))..((((......)))).. ( -38.70)
>DroEre_CAF1 2322 105 + 1
---------GAUGUCACCACAUUGAGCAGCUUGCGGUUGUCCAAGCUCAACGUCGUGAGAUCUAUGAAGGACACGACCUUCUCGCGCUGCUCGGCCACCGUUUGCCAAAUGGAU
---------.......(((....(((((((..(((((((........))))(((....)))....(((((......))))).))))))))))(((........)))...))).. ( -34.90)
>DroYak_CAF1 2131 105 + 1
---------GAUGUCACCACAUUCAGCAGCUUGCGGUUGUCCAUGCUCAGUGUCGUGAGAUCUAUGAAGGAUACAACCUUCUCGCGUUGCUCGGCCACAGUUUGCCAAAUGGAU
---------..........((((..((((.(((.(((((..(((((..((.(((....)))))..(((((......)))))..))).))..))))).))).))))..))))... ( -30.10)
>DroMoj_CAF1 2498 112 + 1
CGAACUG--GCACUCAAAACAUUGAGCAUCUUGCGCUUGGCAAAGCUCAGACUGGUCAGAUCAAUGAAGGAGACAACUCUCUCGCGCUGCUCAGCCACCGUUUGCCAAAUGCUU
.....((--(((..(......((((((...((((.....)))).))))))..((((..((.((.((..(((((....)))))..)).)).)).))))..)..)))))....... ( -29.60)
>DroAna_CAF1 2131 111 + 1
---GUCCCAGCCGACAUCACACUGAGCAACUUCCGAUUCUCCAUACUCAGCGUGGCGAGAUUAAUGAAGGACACGACCUUCUCCCGCUGCUCGGCAACUGUCCGCCAAAUGGAC
---......(((((((.(((.(((((...................))))).)))(((.((.....(((((......))))))).))))).)))))....(((((.....))))) ( -31.01)
>consensus
_________GAUGUCACCACAUUGAGCAGCUUGCGGUUGUCCAAGCUCAAUGUGGUGAGAUCUAUGAAGGACACAACCUUCUCGCGCUGCUCGGCCACCGUUUGCCAAAUGGAU
................(((....(((((((..((((.........((((......))))......(((((......))))))))))))))))(((........)))...))).. (-21.47 = -23.13 +   1.67)

alignment

Postscript

secondary structure

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dotplot

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Window 8

Location 14,915,728 – 14,915,833
Length 105
Sequences 6
Columns 114
Reading direction reverse
Mean pairwise identity 79.71
Mean single sequence MFE -37.13
Consensus MFE -24.34
Energy contribution -24.40
Covariance contribution 0.06
Combinations/Pair 1.31
Mean z-score -1.59
Structure conservation index 0.66
SVM decision value 0.41
SVM RNA-class probability 0.725592
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14915728 105 - 20766785
AUCCAUUUGGCAACGGGUGGCCGAGCAGCGCGAGAAGGUUGUGUCCUUCAUAGAUCUCACAACAUUGAGCUUGGACAACCGCAAGCUGCUCAAUGUGGUGACAUC---------
..(((((((....)))))))..((((((((((.(((((......)))))...((.((((......)))).)).......)))..)))))))...(((....))).--------- ( -38.20)
>DroSec_CAF1 2165 105 - 1
AUCCAUAUGGCAACGGGUGGCCGAGCAGCGCGAUAAGGUUGUGUCCUUCAUAGAUCUCACCACAUUGAGCAUGGACAAUCGCAAGCUGCUCAAUGUGGUGACAUC---------
..((((.((....)).))))..(((..(((((((...)))))))..)))...(((.((((((((((((((((((.....).))...))))))))))))))).)))--------- ( -40.00)
>DroEre_CAF1 2322 105 - 1
AUCCAUUUGGCAAACGGUGGCCGAGCAGCGCGAGAAGGUCGUGUCCUUCAUAGAUCUCACGACGUUGAGCUUGGACAACCGCAAGCUGCUCAAUGUGGUGACAUC---------
........(((........)))((((((((((.....((((((..((....))....))))))((((........)))))))..)))))))...(((....))).--------- ( -34.40)
>DroYak_CAF1 2131 105 - 1
AUCCAUUUGGCAAACUGUGGCCGAGCAACGCGAGAAGGUUGUAUCCUUCAUAGAUCUCACGACACUGAGCAUGGACAACCGCAAGCUGCUGAAUGUGGUGACAUC---------
...((((..(((...((((((((.((.......(((((......))))).......(((......))))).)))....)))))...)))..))))((....))..--------- ( -29.20)
>DroMoj_CAF1 2498 112 - 1
AAGCAUUUGGCAAACGGUGGCUGAGCAGCGCGAGAGAGUUGUCUCCUUCAUUGAUCUGACCAGUCUGAGCUUUGCCAAGCGCAAGAUGCUCAAUGUUUUGAGUGC--CAGUUCG
..((.(((((((((((((((..(((((((.(....).)))).)))..)))))).((.((....)).))..))))))))).))..(..((((((....))))))..--)...... ( -36.60)
>DroAna_CAF1 2131 111 - 1
GUCCAUUUGGCGGACAGUUGCCGAGCAGCGGGAGAAGGUCGUGUCCUUCAUUAAUCUCGCCACGCUGAGUAUGGAGAAUCGGAAGUUGCUCAGUGUGAUGUCGGCUGGGAC---
((((....(((.((((...........(((((((((((......))))).....))))))(((((((((((........(....).))))))))))).)))).))).))))--- ( -44.40)
>consensus
AUCCAUUUGGCAAACGGUGGCCGAGCAGCGCGAGAAGGUUGUGUCCUUCAUAGAUCUCACCACACUGAGCAUGGACAACCGCAAGCUGCUCAAUGUGGUGACAUC_________
(((((((.(((........)))((((((((((.(((((......)))))......((((......))))..........)))..))))))))))).)))............... (-24.34 = -24.40 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:23:05 2006