Locus 4291

Sequence ID 3L_DroMel_CAF1
Location 12,580,990 – 12,581,115
Length 125
Max. P 0.835472
window6636 window6637

overview

Window 6

Location 12,580,990 – 12,581,094
Length 104
Sequences 6
Columns 110
Reading direction reverse
Mean pairwise identity 83.71
Mean single sequence MFE -27.32
Consensus MFE -20.24
Energy contribution -20.30
Covariance contribution 0.06
Combinations/Pair 1.08
Mean z-score -1.97
Structure conservation index 0.74
SVM decision value 0.25
SVM RNA-class probability 0.652105
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12580990 104 - 23771897
-AGAAAGGCU---UCUUACUUAAGUGUUGUUUCAUGUCACCUGGAAAGCAUUUGGACAUGAAAUUGUCGCUUUUCAGUAUGUGGCACAC--ACACAGAUACUCACACAUA
-.(((((((.---...(((....)))..((((((((((..((....))......))))))))))....)))))))(((((.((......--...)).)))))........ ( -25.30)
>DroGri_CAF1 74628 107 - 1
-UGCUGUGCUUCCUCUUGCUUAAGUGUUGUUUCAUGUCACCUGGAAAGCAAUUGGACAUGAAAUUGUCGCUUUUCAGUAUGUGGCACAC--ACACACACACACGCUGACA
-.(((((((........))....(((((((....(((((((((((((((.....((((......)))))))))))))...))))))...--))).))))))).))..... ( -29.70)
>DroSec_CAF1 69045 106 - 1
-AGAAAGGCU---UCUUACUUAAGUGUUGUUUCGUGUCACCUGGAAAGCAUUUGGACAUGAAAUUGUCGCUUUUCAGUAUGUGGCACACACACACAGAUACUCACACAUA
-.(((((...---.....)))..(((((((...((((((((((((((((.....((((......)))))))))))))...)))))))))).))))......))....... ( -28.60)
>DroWil_CAF1 132641 103 - 1
--AUUCUGCU---GCUUACUUAAGUGUUGUUUCAUGUCACCUGAAAACCAUUUGGACAUUAAAUUGUCGCUUUUCAGUAUAUGGCACAC--CCACAUACAGACAAUCAUC
--....((((---(..((((.(((((..((((.(((((...((.....))....))))).))))...)))))...))))..)))))...--................... ( -18.50)
>DroMoj_CAF1 69143 108 - 1
CAGCUUUGCUUCCUCUUACUUAAGUGUUGUUUCAUGUCACCUGGAAAGCAAUUGGACAUGAAAUUGUCGCUUUUCACUAUGUGGCACAC--ACACACAGAGAGAGAGGCA
......(((((((((((....(((((..((((((((((..((....))......))))))))))...))))).......((((.....)--)))....))))).)))))) ( -33.90)
>DroAna_CAF1 67540 104 - 1
-CGGACGGCU---UCUUACUUAAGUGUUGUUUCAUGUCACCUGGAAAGCAUUUGGACAUGAAAUUGUCGCUUUUCAGUAUGUGGCUCAC--ACCGAUACACACACACACA
-(((..((((---...((((.(((((..((((((((((..((....))......))))))))))...)))))...))))...))))...--.)))............... ( -27.90)
>consensus
_AGAAAGGCU___UCUUACUUAAGUGUUGUUUCAUGUCACCUGGAAAGCAUUUGGACAUGAAAUUGUCGCUUUUCAGUAUGUGGCACAC__ACACACACACACACACACA
.......(((......((((.(((((..((((((((((...((.....))....))))))))))...)))))...))))...)))......................... (-20.24 = -20.30 +   0.06)

alignment

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secondary structure

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dotplot

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Window 7

Location 12,581,022 – 12,581,115
Length 93
Sequences 6
Columns 113
Reading direction reverse
Mean pairwise identity 74.18
Mean single sequence MFE -20.72
Consensus MFE -15.30
Energy contribution -15.47
Covariance contribution 0.17
Combinations/Pair 1.00
Mean z-score -1.06
Structure conservation index 0.74
SVM decision value 0.73
SVM RNA-class probability 0.835472
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12581022 93 - 23771897
--------CACCA-CCCCACCUCC--UUCCCC------AGAAAGGCU---UCUUACUUAAGUGUUGUUUCAUGUCACCUGGAAAGCAUUUGGACAUGAAAUUGUCGCUUUUCA
--------.....-..........--......------.(((((((.---...(((....)))..((((((((((..((....))......))))))))))....))))))). ( -20.20)
>DroVir_CAF1 73595 105 - 1
----UGCUG--CU-G-CCGCCUCCCAUUCCGCUGGCUGUGCCAUGCUUCCUCUUACUUAAGUGUUGUUUCAUGUCACCUGGAAAGCAAUUGGACAUGAAAUUGUCGCUUUUCA
----.((((--..-(-(.(((............))).))..)).))............(((((..((((((((((..((....))......))))))))))...))))).... ( -24.60)
>DroWil_CAF1 132673 89 - 1
--------CC-CAGC-CCAACCCC--UCCC---------AUUCUGCU---GCUUACUUAAGUGUUGUUUCAUGUCACCUGAAAACCAUUUGGACAUUAAAUUGUCGCUUUUCA
--------..-((((-........--....---------.....)))---).......(((((..((((.(((((...((.....))....))))).))))...))))).... ( -12.13)
>DroMoj_CAF1 69175 96 - 1
-----------GA-G-CCUCACUCCACUCCACU----CAGCUUUGCUUCCUCUUACUUAAGUGUUGUUUCAUGUCACCUGGAAAGCAAUUGGACAUGAAAUUGUCGCUUUUCA
-----------((-(-.....))).........----.....................(((((..((((((((((..((....))......))))))))))...))))).... ( -17.60)
>DroAna_CAF1 67572 90 - 1
--------CC-UG-C-CCGG-CCA--UCCCCC------CGGACGGCU---UCUUACUUAAGUGUUGUUUCAUGUCACCUGGAAAGCAUUUGGACAUGAAAUUGUCGCUUUUCA
--------..-..-.-..((-((.--(((...------.))).))))---........(((((..((((((((((..((....))......))))))))))...))))).... ( -25.40)
>DroPer_CAF1 72743 100 - 1
GCCCUGGCCCUGG-C-CCCCCAUC--UGCCCC------CAGACUGCU---GCCUCCUUAAGUGUUGUUUCAUGUCACCUGGAAAGCAUUUGGACAUGAAAUUGUCGCUUUUCA
((...(((....)-)-).....((--((....------))))..)).---........(((((..((((((((((..((....))......))))))))))...))))).... ( -24.40)
>consensus
________CC_CA_C_CCACCCCC__UUCCCC______AGCACUGCU___UCUUACUUAAGUGUUGUUUCAUGUCACCUGGAAAGCAUUUGGACAUGAAAUUGUCGCUUUUCA
..........................................................(((((..((((((((((...((.....))....))))))))))...))))).... (-15.30 = -15.47 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:18:44 2006