Locus 146

Sequence ID 2L_DroMel_CAF1
Location 433,927 – 434,044
Length 117
Max. P 0.635831
window229 window230

overview

Window 9

Location 433,927 – 434,044
Length 117
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 91.64
Mean single sequence MFE -34.63
Consensus MFE -28.60
Energy contribution -28.85
Covariance contribution 0.25
Combinations/Pair 1.14
Mean z-score -1.87
Structure conservation index 0.83
SVM decision value 0.10
SVM RNA-class probability 0.582964
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 433927 117 + 22407834
UCGGCGGGGACAUUUCACGCAUU-UCAAAGACAUCAAAUUGUUUGGCCAUAACUGGCACAACAAGUGGAAUUCCGCAGCUCGGAAUUCGGCAUUUGCCGCUUUGCUGUUUUAUUUCU--C
.((((((((.(......(((...-....(((((......))))).((((....)))).......)))((((((((.....))))))))(((....))))))))))))..........--. ( -34.20)
>DroSec_CAF1 11332 117 + 1
UCGGCGGGGACAUUUCACGCAUU-UCAAAGACAUCAAAUUGUUUGGCCAUAACUGGCACAACAAGUGGAAUUCCGCAGCUCGGAAUUCGGCAUUUGCCGCUUUGCUGUUUUGUUUUU--C
.((((((((.(......(((...-....(((((......))))).((((....)))).......)))((((((((.....))))))))(((....))))))))))))..........--. ( -34.20)
>DroSim_CAF1 10388 117 + 1
UCGGCGGGGACAUUUCACGCAUU-UCAAAGACAUCAAAUUGUUUGGCCAUAACUGGCACAACAAGUGGAAUUCCGCAGCUCGGAAUUCGGCAUUUGCCGCUUUGCUGUUUUGUUUCU--C
.((((((((.(......(((...-....(((((......))))).((((....)))).......)))((((((((.....))))))))(((....))))))))))))..........--. ( -34.20)
>DroEre_CAF1 11438 113 + 1
----CGGGGACAUUUCACGCAUU-UCAAAGACAUCAAAUUGUUUGGCCAUAACUGGCACAGCAAGUGGAAUUCCGCAGCUCGGAAUUCGGCAUUUGCCGCUGUGCUGUUUUGUUUCU--C
----.((..(((...((.((...-....(((((......))))).((((....))))(((((.....((((((((.....))))))))(((....))))))))))))...)))..))--. ( -39.20)
>DroYak_CAF1 11026 113 + 1
----CGGGGACAUUUCACGCAUU-UCAAAGACAUCAAAUUGUUUAGCCAUAACUGGCACAGCAAGUGGAAUUCCGCAGCUCGGAAUUCGGCAUUUGCCGCUUUGCUGUUUUGUUUCU--C
----.((..(((...........-....(((((......))))).((((....))))(((((((((.((((((((.....))))))))(((....))))).)))))))..)))..))--. ( -37.20)
>DroAna_CAF1 14320 112 + 1
--------GACAUUUCGCGCAUUUUCAAAGACACCAAAUUGUUUGGCCAUAACUGGCACAACAAGUGGAAUUUCGGAAUUCGGAAUUCGGCAUUUGCCGCUGUUUGGUUUUGUUUCUGUC
--------..........(((....((((...(((((((((((..((((....))))..))))(((.((((((((.....))))))))(((....)))))))))))))))))....))). ( -28.80)
>consensus
____CGGGGACAUUUCACGCAUU_UCAAAGACAUCAAAUUGUUUGGCCAUAACUGGCACAACAAGUGGAAUUCCGCAGCUCGGAAUUCGGCAUUUGCCGCUUUGCUGUUUUGUUUCU__C
.....(((((((...((.(((..........(((....(((((..((((....))))..))))))))((((((((.....))))))))(((....)))....)))))...)))))))... (-28.60 = -28.85 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

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Window 0

Location 433,927 – 434,044
Length 117
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 91.64
Mean single sequence MFE -31.07
Consensus MFE -27.90
Energy contribution -27.77
Covariance contribution -0.14
Combinations/Pair 1.10
Mean z-score -1.26
Structure conservation index 0.90
SVM decision value 0.21
SVM RNA-class probability 0.635831
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 433927 117 - 22407834
G--AGAAAUAAAACAGCAAAGCGGCAAAUGCCGAAUUCCGAGCUGCGGAAUUCCACUUGUUGUGCCAGUUAUGGCCAAACAAUUUGAUGUCUUUGA-AAUGCGUGAAAUGUCCCCGCCGA
(--(((..(((((((((((...(((....)))((((((((.....))))))))...)))))))((((....)))).......))))...))))...-...(((.(........))))... ( -30.50)
>DroSec_CAF1 11332 117 - 1
G--AAAAACAAAACAGCAAAGCGGCAAAUGCCGAAUUCCGAGCUGCGGAAUUCCACUUGUUGUGCCAGUUAUGGCCAAACAAUUUGAUGUCUUUGA-AAUGCGUGAAAUGUCCCCGCCGA
.--...(((...(((((((...(((....)))((((((((.....))))))))...)))))))....))).((((......((((.((((......-...)))).))))......)))). ( -31.20)
>DroSim_CAF1 10388 117 - 1
G--AGAAACAAAACAGCAAAGCGGCAAAUGCCGAAUUCCGAGCUGCGGAAUUCCACUUGUUGUGCCAGUUAUGGCCAAACAAUUUGAUGUCUUUGA-AAUGCGUGAAAUGUCCCCGCCGA
(--(((..(((((((((((...(((....)))((((((((.....))))))))...)))))))((((....)))).......))))...))))...-...(((.(........))))... ( -32.30)
>DroEre_CAF1 11438 113 - 1
G--AGAAACAAAACAGCACAGCGGCAAAUGCCGAAUUCCGAGCUGCGGAAUUCCACUUGCUGUGCCAGUUAUGGCCAAACAAUUUGAUGUCUUUGA-AAUGCGUGAAAUGUCCCCG----
.--.....((.(((.((((((((((....)))((((((((.....)))))))).....)))))))..))).))........((((.((((......-...)))).)))).......---- ( -33.40)
>DroYak_CAF1 11026 113 - 1
G--AGAAACAAAACAGCAAAGCGGCAAAUGCCGAAUUCCGAGCUGCGGAAUUCCACUUGCUGUGCCAGUUAUGGCUAAACAAUUUGAUGUCUUUGA-AAUGCGUGAAAUGUCCCCG----
(--(((..(((((((((((...(((....)))((((((((.....))))))))...)))))))((((....)))).......))))...))))...-...................---- ( -33.10)
>DroAna_CAF1 14320 112 - 1
GACAGAAACAAAACCAAACAGCGGCAAAUGCCGAAUUCCGAAUUCCGAAAUUCCACUUGUUGUGCCAGUUAUGGCCAAACAAUUUGGUGUCUUUGAAAAUGCGCGAAAUGUC--------
((((........(((((((((((((....)))(((((.((.....)).))))).....)))))((((....))))........)))))...((((........)))).))))-------- ( -25.90)
>consensus
G__AGAAACAAAACAGCAAAGCGGCAAAUGCCGAAUUCCGAGCUGCGGAAUUCCACUUGUUGUGCCAGUUAUGGCCAAACAAUUUGAUGUCUUUGA_AAUGCGUGAAAUGUCCCCG____
............((((((....(((....)))((((((((.....))))))))....))))))((((....))))......((((.((((.((....)).)))).))))........... (-27.90 = -27.77 +  -0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:27:25 2006