Locus 5964

Sequence ID 2R_DroMel_CAF1
Location 18,794,792 – 18,794,888
Length 96
Max. P 0.848775
window9566 window9567

overview

Window 6

Location 18,794,792 – 18,794,888
Length 96
Sequences 3
Columns 105
Reading direction forward
Mean pairwise identity 82.96
Mean single sequence MFE -27.60
Consensus MFE -21.10
Energy contribution -22.10
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -1.84
Structure conservation index 0.76
SVM decision value 0.39
SVM RNA-class probability 0.717421
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18794792 96 + 20766785
UAUCCGUUGACAAGUGUAAUGUCAGCCAACCGCGGCUGCCAUUCUCAUUGGCAUCUGCACGAGUCUCCCAUUGGCAACCAUCCCGCUGUUCCAACU---------
.....((((...((((..(((...(((((..((((.(((((.......))))).))))..(.....)...)))))...)))..))))....)))).--------- ( -28.10)
>DroSec_CAF1 14205 96 + 1
---------ACAAGUGUAAUGUCAGCCAACCGCGGCUGCCAUUCUCAUUGGCAUCUCCACGAGUCUCCCGUUGGCAACCAUCCCGCUGUUCCAACUCCAGCUCCU
---------...((((..(((...((((((((.((.(((((.......)))))...)).))........))))))...)))..)))).................. ( -23.30)
>DroEre_CAF1 14629 101 + 1
UACCCGUUGACAAGUGUAAUGUCAGCCAACCGCGGCUGCCAUUCCCAUUGGCAUCUCCACGAGGCUCCCGUUGGCGGCCAUCCCGCUGUUCCAGCUCCUCC----
.....((((...((((..(((.(.((((((.(.((((((((.......))))).(((...)))))).).)))))).).)))..))))....))))......---- ( -31.40)
>consensus
UA_CCGUUGACAAGUGUAAUGUCAGCCAACCGCGGCUGCCAUUCUCAUUGGCAUCUCCACGAGUCUCCCGUUGGCAACCAUCCCGCUGUUCCAACUCC__C____
........((((.(((..(((...((((((((.((.(((((.......)))))...)).)).(.....)))))))...)))..)))))))............... (-21.10 = -22.10 +   1.00)

alignment

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secondary structure

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dotplot

Postscript

Window 7

Location 18,794,792 – 18,794,888
Length 96
Sequences 3
Columns 105
Reading direction reverse
Mean pairwise identity 82.96
Mean single sequence MFE -35.17
Consensus MFE -30.61
Energy contribution -30.50
Covariance contribution -0.11
Combinations/Pair 1.08
Mean z-score -1.68
Structure conservation index 0.87
SVM decision value 0.78
SVM RNA-class probability 0.848775
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18794792 96 - 20766785
---------AGUUGGAACAGCGGGAUGGUUGCCAAUGGGAGACUCGUGCAGAUGCCAAUGAGAAUGGCAGCCGCGGUUGGCUGACAUUACACUUGUCAACGGAUA
---------.(((((...((.(..(((...((((((((....))((((....(((((.......)))))..))))))))))...)))..).))..)))))..... ( -31.60)
>DroSec_CAF1 14205 96 - 1
AGGAGCUGGAGUUGGAACAGCGGGAUGGUUGCCAACGGGAGACUCGUGGAGAUGCCAAUGAGAAUGGCAGCCGCGGUUGGCUGACAUUACACUUGU---------
....((((.........))))(..(((...((((((((....))(((((...(((((.......))))).)))))))))))...)))..)......--------- ( -37.30)
>DroEre_CAF1 14629 101 - 1
----GGAGGAGCUGGAACAGCGGGAUGGCCGCCAACGGGAGCCUCGUGGAGAUGCCAAUGGGAAUGGCAGCCGCGGUUGGCUGACAUUACACUUGUCAACGGGUA
----......((((...))))......(((((((((((....))(((((...(((((.......))))).)))))))))))(((((.......)))))...))). ( -36.60)
>consensus
____G__GGAGUUGGAACAGCGGGAUGGUUGCCAACGGGAGACUCGUGGAGAUGCCAAUGAGAAUGGCAGCCGCGGUUGGCUGACAUUACACUUGUCAACGG_UA
..........((((...))))(..(((...((((((((....))(((((...(((((.......))))).)))))))))))...)))..)............... (-30.61 = -30.50 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:59:10 2006