Locus 7050

Sequence ID 2L_DroMel_CAF1
Location 19,713,025 – 19,713,155
Length 130
Max. P 0.624137
window11245 window11246

overview

Window 5

Location 19,713,025 – 19,713,145
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 90.67
Mean single sequence MFE -35.62
Consensus MFE -29.68
Energy contribution -29.32
Covariance contribution -0.36
Combinations/Pair 1.14
Mean z-score -1.83
Structure conservation index 0.83
SVM decision value 0.19
SVM RNA-class probability 0.624137
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19713025 120 + 22407834
AUCGGCGAGACCGCAGUCACACUGCAAUGGACCAAGCCGACGCAUUCCAGCGAGAAUAUCGUGCACUACGAGCUCUACUGGAAUGACACAUACGCCAAUCAGGCCCAUCACAAGUGAGUC
.(((((....((((((.....))))...)).....))))).(((((((((.(((....(((((...))))).)))..)))))))).)......(((.....)))...(((....)))... ( -36.30)
>DroVir_CAF1 2886 120 + 1
AUCGGCGAGACCGCAGUCACAUUGCAAUGGUCCAAGCCGACGCAUUCCAGCGAGAAUAUUGUACAUUAUGAGCUCUACUGGAAUGACACAUAUGCCAAUCAGGAUCAUCACAAGUGAGUU
.(((((..(((((((((...)))))...))))...))))).(((((((((.(((.(((........)))...)))..)))))))).).......((.....)).((((.....))))... ( -32.50)
>DroGri_CAF1 2409 120 + 1
AUCGGCGAGACCGCAGUCACAUUGCAGUGGUCCAAGCCGACGCAUUCCAGCGAGAAUAUUGUACAUUAUGAGCUCUACUGGAAUGACACAUACGCCAAUCAGGAUCAUCACAAGUGAGUU
.(((((..((((((.((......)).))))))...))))).(((((((((.(((.(((........)))...)))..)))))))).).......((.....)).((((.....))))... ( -34.30)
>DroEre_CAF1 2329 119 + 1
AUCGGCGAGACCGCAGUCACACUGCAAUGGACCAAGCCGACGCAUUCCAGCGAGAAUAUCGUGCACUACGAGCUCUACUGGAAUGACACAUACGGCAACACGGUCCAUCACAAGUGAGU-
....(((....))).....((((...(((((((..((((...((((((((.(((....(((((...))))).)))..)))))))).......)))).....)))))))....))))...- ( -40.80)
>DroWil_CAF1 2551 120 + 1
AUCGGCGAGACCGCAGUCACAUUGCAAUGGUCGAAGCCCACGCAUUCCAGUGAGAAUAUCGUUCACUAUGAACUCUAUUGGAAUGACACAUAUGCCAAUCAGGCACAUCAUAAGUAAGUA
...(((..(((((((((...)))))...))))...)))...(((((((((((((....((((.....)))).))).))))))))).).....((((.....))))............... ( -33.40)
>DroMoj_CAF1 2952 120 + 1
AUCGGCGAGACCGCAGUCACAUUGCAGUGGUCCAAGCCGACUCAUUCCAGCGAGAACAUUGUGCACUACGAGCUCUACUGGAAUGACACAUACGCCAAUCAGGAUCAUCACAAGUGAGUU
.(((((..((((((.((......)).))))))...))))).(((((((((.(((....(((((...))))).)))..)))))))))........((.....)).((((.....))))... ( -36.40)
>consensus
AUCGGCGAGACCGCAGUCACAUUGCAAUGGUCCAAGCCGACGCAUUCCAGCGAGAAUAUCGUGCACUACGAGCUCUACUGGAAUGACACAUACGCCAAUCAGGAUCAUCACAAGUGAGUU
.(((((..(((((((((...)))))...))))...)))))..((((((((.(((....((((.....)))).)))..))))))))................................... (-29.68 = -29.32 +  -0.36)

alignment

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secondary structure

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dotplot

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Window 6

Location 19,713,065 – 19,713,155
Length 90
Sequences 6
Columns 91
Reading direction forward
Mean pairwise identity 84.74
Mean single sequence MFE -20.42
Consensus MFE -17.01
Energy contribution -17.32
Covariance contribution 0.31
Combinations/Pair 1.10
Mean z-score -1.48
Structure conservation index 0.83
SVM decision value -0.01
SVM RNA-class probability 0.526813
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19713065 90 + 22407834
CGCAUUCCAGCGAGAAUAUCGUGCACUACGAGCUCUACUGGAAUGACACAUACGCCAAUCAGGCCCAUCACAAGUGAGUCCUU-AGUCUCG
.(((((((((.(((....(((((...))))).)))..)))))))).)......(((.....)))...........(((.(...-.).))). ( -23.60)
>DroPse_CAF1 2090 83 + 1
CGCAUUCCAGCGAGAACAUUGUUCACUACGAGCUCUACUGGAAUGACACAUAUGCCAAUCAGGCACAUCACAAGUGAGUAUUU--------
.(((((((((.(((....((((.....)))).)))..)))))))).).....((((.....))))..(((....)))......-------- ( -21.90)
>DroEre_CAF1 2369 79 + 1
CGCAUUCCAGCGAGAAUAUCGUGCACUACGAGCUCUACUGGAAUGACACAUACGGCAACACGGUCCAUCACAAGUGAGU------------
..((((((((.(((....(((((...))))).)))..)))))))).(((....(....)..(........)..)))...------------ ( -20.60)
>DroMoj_CAF1 2992 81 + 1
CUCAUUCCAGCGAGAACAUUGUGCACUACGAGCUCUACUGGAAUGACACAUACGCCAAUCAGGAUCAUCACAAGUGAGUUA----------
.(((((((((.(((....(((((...))))).)))..)))))))))........((.....)).((((.....))))....---------- ( -18.00)
>DroAna_CAF1 2061 91 + 1
CGCAUUCCAGCGAGAAUAUCGUACACUACGAGCUCUACUGGUAUGACACAUACGCCAAUCAGACCCAUCACAAGUGAGUUCUAGAGUCCCC
.........((((.....))))...(((.((((((.(((.(((((...)))))........((....))...))))))))))))....... ( -16.60)
>DroPer_CAF1 2015 83 + 1
CGCAUUCCAGCGAGAACAUUGUACACUACGAGCUCUACUGGAAUGACACAUAUGCCAAUCAGGCACAUCACAAGUGAGUAUUU--------
.(((((((((.(((....(((((...))))).)))..)))))))).).....((((.....))))..(((....)))......-------- ( -21.80)
>consensus
CGCAUUCCAGCGAGAACAUCGUGCACUACGAGCUCUACUGGAAUGACACAUACGCCAAUCAGGCCCAUCACAAGUGAGUACUU________
..((((((((.(((....((((.....)))).)))..))))))))........(((.....)))...(((....))).............. (-17.01 = -17.32 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:26:09 2006