Locus 4032

Sequence ID 3L_DroMel_CAF1
Location 11,773,032 – 11,773,173
Length 141
Max. P 0.803673
window6279 window6280

overview

Window 9

Location 11,773,032 – 11,773,150
Length 118
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 76.19
Mean single sequence MFE -30.62
Consensus MFE -23.34
Energy contribution -22.82
Covariance contribution -0.53
Combinations/Pair 1.33
Mean z-score -0.82
Structure conservation index 0.76
SVM decision value 0.17
SVM RNA-class probability 0.617243
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11773032 118 - 23771897
AUAUAUUUAACUAAUAU--UAAAUUUCAGCCCGUGGCAUCUAUGUCAUCGGAUUUAGCUAUCCGGUGGUUCCUCAGGGAAAGGCACGCAUCCGUGUUCAAAUCUCCGCUGCCCACACGGA
.................--...........(((((.........(((((((((......))))))))).......(((...(((((((....))))..........))).))).))))). ( -29.40)
>DroVir_CAF1 8731 115 - 1
UAAAAUUUG-----UUUUAAUUCCUGCAGCACGCGGCAUUUAUGUCAUAGGCUUCAGCUAUCCGGUGGUGCCACAAGGCAAGGCACGCAUCCGCGUCCAAAUCUCAGCGGCUCACACCGA
.........-----.........(((.(((....((((....))))....))).))).....((((((.(((.(.(((...((.((((....))))))...)))..).))).).))))). ( -31.00)
>DroGri_CAF1 8455 118 - 1
AUACAGUUGCC-A-CUUUAUUUAUUGCAGCACGUGGCAUUUAUGUCAUUGGAUUCAGCUAUCCAGUGGUGCCGCAGGGCAAGGCACGCAUUCGCGUUCAAAUCUCCGCCGCUCACACAGA
.....(((((.-.-...........)))))..(((((((......((((((((......))))))))))))))).((((..(((((((....))))..........)))))))....... ( -35.42)
>DroSec_CAF1 8743 117 - 1
AUAUAUUAAACU-AAAU--UCAUUUCCAGCCCGUGGCAUCUAUGUCAUCGGAUUUAGCUAUCCGGUGGUUCCGCAAGGAAAGGCACGCAUCCGUGUCCAAAUAUCCGCUGCUCACACGGA
............-....--...........((((((((.(....(((((((((......)))))))))((((....)))).((((((....)))))).........).)))...))))). ( -34.00)
>DroYak_CAF1 8931 118 - 1
CUGUAAUAAACCAAUCA--UAAAUUUCAGCCCGUGGCAUCUACGUUAUCGGAUUCAGCUAUCCGGUGGUUCCCCAAGGAAAGGCACGCAUCCGUGUUCAAAUCUCCGCUGCCCACACGGA
.................--...........((((((((..........(((((......)))))((((((((....)))).((((((....)))))).......))))))))...)))). ( -27.70)
>DroAna_CAF1 8583 117 - 1
CCUUAUUAAAGCUA-GU--ACCUUUACAGCUCGAGGUAUUUAUGUCAUUGGCUUCAGUUACCCAGUGGUUCCCCAGGGCAAGGCCCGCAUCCGCGUUCAAAUCUCUGCCGCCCAUACUGA
........((((((-((--(((((........))))))).........))))))((((......(((((......((((...))))((....))............)))))....)))). ( -26.20)
>consensus
AUAUAUUAAAC_AAUAU__UAAAUUGCAGCCCGUGGCAUCUAUGUCAUCGGAUUCAGCUAUCCGGUGGUUCCCCAAGGAAAGGCACGCAUCCGCGUUCAAAUCUCCGCUGCCCACACGGA
................................(((((.......(((((((((......)))))))))((((....)))).((.((((....))))))........)))))......... (-23.34 = -22.82 +  -0.53)

alignment

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secondary structure

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dotplot

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Window 0

Location 11,773,072 – 11,773,173
Length 101
Sequences 6
Columns 104
Reading direction reverse
Mean pairwise identity 78.02
Mean single sequence MFE -20.08
Consensus MFE -16.40
Energy contribution -15.85
Covariance contribution -0.55
Combinations/Pair 1.25
Mean z-score -1.20
Structure conservation index 0.82
SVM decision value 0.62
SVM RNA-class probability 0.803673
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11773072 101 - 23771897
CUUAAUCAUCCCUUU---AUCUACAUAUAUAUUUAACUAAUAUUAAAUUUCAGCCCGUGGCAUCUAUGUCAUCGGAUUUAGCUAUCCGGUGGUUCCUCAGGGAA
........(((((..---....(((((...((((((......))))))....(((...)))...)))))((((((((......)))))))).......))))). ( -22.60)
>DroPse_CAF1 8956 96 - 1
CCUAAGGAUCUCUUUUCCAUCCACU----CAUUG---CAA-UUUCUGUCUUAGCUCGCGGCAUCUACGUGAUUGGAUUCAGUUAUCCGGUGGUGCCCCAGGGCA
((...((((..((..((((..(((.----...((---(..-.....((....)).....))).....)))..))))...))..))))...))((((....)))) ( -23.80)
>DroSec_CAF1 8783 100 - 1
CUUAAUCAUACCUUU---AUAUACAUAUAUAUUAAACU-AAAUUCAUUUCCAGCCCGUGGCAUCUAUGUCAUCGGAUUUAGCUAUCCGGUGGUUCCGCAAGGAA
......((((....(---((((....))))).......-.............(((...)))...))))(((((((((......)))))))))((((....)))) ( -20.90)
>DroSim_CAF1 8017 101 - 1
CUUAAUUAUACCUUU---AUCUACAUAUAUAUUAAACUUAUAUUAAAUUUCAGCCCGUGGCAUCUAUGUCAUCGGAUUUAGCUAUCCGGUGGUUCCUCAGGGAA
..........((((.---....(((((((((.......))))..........(((...)))...)))))((((((((......)))))))).......)))).. ( -18.20)
>DroEre_CAF1 9000 100 - 1
CUUAACUAUCGCCUU---AUGUAU-UCCACAUUAAACUAAUCAUAAAUUUCAGCCCGUGGCAUCUACGUUAUCGGAUUUAGCUAUCCGGUGGUUCCUCAAGGAA
...........((((---..(...-.((((......................(((...)))...........(((((......)))))))))...)..)))).. ( -18.00)
>DroYak_CAF1 8971 100 - 1
CUGAAUAAUUCCUUU---AUCUAU-UCUGUAAUAAACCAAUCAUAAAUUUCAGCCCGUGGCAUCUACGUUAUCGGAUUCAGCUAUCCGGUGGUUCCCCAAGGAA
........((((((.---...(((-(....))))((((..............(((...))).........(((((((......)))))))))))....)))))) ( -17.00)
>consensus
CUUAAUCAUCCCUUU___AUCUACAUAUAUAUUAAACUAAUAUUAAAUUUCAGCCCGUGGCAUCUACGUCAUCGGAUUUAGCUAUCCGGUGGUUCCUCAAGGAA
....................................................(((...))).......(((((((((......)))))))))((((....)))) (-16.40 = -15.85 +  -0.55)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:12:51 2006