Locus 4388

Sequence ID 3R_DroMel_CAF1
Location 11,601,803 – 11,601,957
Length 154
Max. P 0.879388
window7169 window7170

overview

Window 9

Location 11,601,803 – 11,601,917
Length 114
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 75.19
Mean single sequence MFE -47.14
Consensus MFE -23.12
Energy contribution -22.96
Covariance contribution -0.16
Combinations/Pair 1.41
Mean z-score -2.07
Structure conservation index 0.49
SVM decision value 0.91
SVM RNA-class probability 0.879388
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11601803 114 + 27905053
UUGGGCUUGUACGAGGAGGCCCAACAACUGAUGGCCAAUGCGGCU---GACAAUCCGCUGAAGCAGCGACUCCUCUUCCACUUGGCCCACAAGCUGGGCAACGAGGAGGAGUGGAGC
((((((((.(....).))))))))....((.(((((.....))))---).)).(((((((...)))).((((((((((......(((((.....)))))...))))))))))))).. ( -48.20)
>DroVir_CAF1 141766 114 + 1
UUGGGCCUCUAUGAGGAGGCGCAACAGCUAAUGGAGGGCACUGCG---AAUACGCCACUGAAGCAGCGUCUCCUCUUUCAUCUCGCCCACAAGCUGGGCGAUGAUCAGCAGUGGGCG
..(((.......((((((((((....(((.......)))...(((---....)))..........))))))))))......)))((((((..(((((.......))))).)))))). ( -44.32)
>DroPse_CAF1 152266 117 + 1
CUGGGUCUCUACGAGGAGGCCCAUCAACUGGUGUCGAACACAUCCGAGGAGAGUCCUCUCAAGCAGCGUCUGCUCUUCCAUUUGGUCCACAAAUUGGGCAGCGUUGAGGAGUGGGCG
.(((((((((....)))))))))((..(.(((((.....))))).)..))..((((.(((...(((((.((((((....(((((.....))))).)))))))))))..))).)))). ( -49.50)
>DroGri_CAF1 292685 114 + 1
CUGGGUCUCUAUGAGGAGGCACAGCAGCUGAUGGAGGACACGCCG---AAUACGCCACUCAAACAGCGUCUAUUGUUCCAUCUGGCCCACAAGCUGGGCGAUGAUCAGCAGUGGGCA
(((.((((((....)))))).)))..((((...(((....((...---....))...)))...))))((((((((((.((((..(((((.....)))))))))...)))))))))). ( -41.20)
>DroMoj_CAF1 135224 114 + 1
UUGGGCUUGUACGAGGAGGCACAGCAGCUGAUGGAAGGCACUGCG---GAUACGCCGCUGAAGCAGCGCCUCCUCUUUCACCUCGCCCACAAGCUGGGCGAUGAUCAACAGUGGGCA
....(((..(..((((((((.(.((.(((.......)))...(((---(.....))))....)).).))))))))..(((..(((((((.....))))))))))......)..))). ( -46.90)
>DroAna_CAF1 217594 114 + 1
CUGGGCCUCUACGAGGAGGCCCAGCAGCUGAUGGAGAAGGCCGCG---GACAGCCUGCUCAAGCAGCGCCUCCUGUUUCACUUGGCCCACAAAUUGGGCAACGAAGAGCAGUGGACU
((((((((((....))))))))))..((((...(((.((((....---....)))).)))...))))..(..((((((......(((((.....)))))......))))))..)... ( -52.70)
>consensus
CUGGGCCUCUACGAGGAGGCCCAGCAGCUGAUGGAGAACACGGCG___GAUACGCCGCUCAAGCAGCGUCUCCUCUUCCACCUGGCCCACAAGCUGGGCAACGAUCAGCAGUGGGCA
(((.((((((....)))))).)))...........................................(((..(((((.......(((((.....))))).......)))))..))). (-23.12 = -22.96 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 11,601,843 – 11,601,957
Length 114
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 74.90
Mean single sequence MFE -47.03
Consensus MFE -22.01
Energy contribution -21.82
Covariance contribution -0.19
Combinations/Pair 1.30
Mean z-score -1.90
Structure conservation index 0.47
SVM decision value 0.33
SVM RNA-class probability 0.692551
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11601843 114 + 27905053
CGGCU---GACAAUCCGCUGAAGCAGCGACUCCUCUUCCACUUGGCCCACAAGCUGGGCAACGAGGAGGAGUGGAGCCAGCUGCAGGAGGAGCUGCAGGAUUCCUCGAGCUUGGAAC
.((((---.......(((((...)))))((((((((((......(((((.....)))))...))))))))))..))))..((((((......))))))..((((........)))). ( -49.20)
>DroVir_CAF1 141806 114 + 1
CUGCG---AAUACGCCACUGAAGCAGCGUCUCCUCUUUCAUCUCGCCCACAAGCUGGGCGAUGAUCAGCAGUGGGCGGAACUGUUGGAUGUGCUGCUCAGCACACCCAGCGUGGAGC
((((.---..............))))...((((.(.....((.(((((((..(((((.......))))).)))))))))...(((((.((((((....)))))).)))))).)))). ( -46.26)
>DroPse_CAF1 152306 117 + 1
CAUCCGAGGAGAGUCCUCUCAAGCAGCGUCUGCUCUUCCAUUUGGUCCACAAAUUGGGCAGCGUUGAGGAGUGGGCGGAACUGCACGAUGAUCUGGAGAAUUCCUCGAGUGUGGAGC
((..(((((((.((((.(((...(((((.((((((....(((((.....))))).)))))))))))..))).))))....((.((.(.....))).))..)))))))..))...... ( -44.90)
>DroYak_CAF1 133009 114 + 1
CGGCU---GACAACCCGCUGAAGCAGCGACUGCUCUUCCACUUGGCCCACAAGCUGGGCAGCGAGGAGGAGUGGAGCCAGCUGCAGGAGGAGCUGCAGGACUCCUCGAGCUUGGAGC
.((((---.......(((((...))))).(..(((((((.(...(((((.....)))))...).)))))))..)))))..((((((......))))))..((((........)))). ( -51.20)
>DroAna_CAF1 217634 114 + 1
CCGCG---GACAGCCUGCUCAAGCAGCGCCUCCUGUUUCACUUGGCCCACAAAUUGGGCAACGAAGAGCAGUGGACUGAGCUCCAAGAGGAGCUCCAGAACUCGUCCAGCUUGGAGC
(((((---(((.((((((....)))).))(..((((((......(((((.....)))))......))))))..).(((((((((....)))))).))).....)))).))..))... ( -45.70)
>DroPer_CAF1 154274 117 + 1
CAUCCGAGGAGAGUCCUCUCAAGCAGCGUCUGCUCUUCCAUUUGGUCCACAAAUUGGGCAGCGUUGAGGAGUGGGCGGAACUGCACGAUGAUCUGGAGAAUUCCUCGAGUGUGGAGC
((..(((((((.((((.(((...(((((.((((((....(((((.....))))).)))))))))))..))).))))....((.((.(.....))).))..)))))))..))...... ( -44.90)
>consensus
CAGCC___GACAGUCCGCUCAAGCAGCGUCUCCUCUUCCACUUGGCCCACAAACUGGGCAACGAUGAGGAGUGGACGGAACUGCAGGAGGAGCUGCAGAACUCCUCGAGCGUGGAGC
..............((......((((...(..((((((......(((((.....)))))......))))))..)......))))..((.(((........))).))......))... (-22.01 = -21.82 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:27:54 2006