Locus 6021

Sequence ID 2L_DroMel_CAF1
Location 16,967,761 – 16,967,902
Length 141
Max. P 0.995605
window9560 window9561 window9562

overview

Window 0

Location 16,967,761 – 16,967,871
Length 110
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 77.96
Mean single sequence MFE -17.78
Consensus MFE -14.82
Energy contribution -14.18
Covariance contribution -0.64
Combinations/Pair 1.20
Mean z-score -1.69
Structure conservation index 0.83
SVM decision value 1.23
SVM RNA-class probability 0.933481
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16967761 110 - 22407834
CAGCUAGGAGUUCUCCACUUUCUAGUCCUCCCUC----------UAUCUUCGGCUUUCACUCGCCUCUCCUAGUUUUUACACUGUGAAGAAAAUAUAUUUUACAAACGGAAAAUAAAACA
.(((((((((............(((........)----------)).....(((........))).)))))))))......((((....((((....))))....))))........... ( -19.10)
>DroSec_CAF1 75457 101 - 1
CAGCUAGGAGUUCUCCACUUUCUAGUCCUCCCUC----------UAUCUUCGGCUUUCACUCGCCUCUUCUAGUUUCUACACUGUGAAGAAAAUAUAUAUUACAAAC---------AACA
..((((((((........))))))))........----------.......(((........)))(((((((((......)))).))))).................---------.... ( -16.50)
>DroSim_CAF1 77529 98 - 1
CAGCUAGGAGUUCUCCACUUUCUAGUCCUCCCUC----------UAUCUUCGGCUUUCACUCGCCUCUUCUAGUUUCUACACCGUGAAGAAAAUAUAUAUUACAAAC---------G---
..((((((((........))))))))........----------..((((((((........))).......((....)).....))))).................---------.--- ( -14.80)
>DroEre_CAF1 78095 110 - 1
CAGCUAGGAGUUCUCCGCUUGCUGGUCCUCCCUCUUCUCCUCCCUAUCUUCGGCUUUCACUCGCCUCUUCUAGUUCUUACACAGCGAAGAAAAUACUU--UCCUAUCAGCCA--------
((((..(((....)))....))))......................((((((((........))).......((....)).....)))))........--............-------- ( -18.10)
>DroYak_CAF1 77059 111 - 1
CAGCUAGGAGUUCUCCGCUUUCUAGUCCCCCCUC------UCUCUAACUUCGGCUUUCACUCGCCUCUCCUAGUUCUUACACCGCGAAUAAAAUAUUU--GCCCAU-AGCCAUUGAAAGC
.(((((((((......(((....)))........------...........(((........))).)))))))))........(((((((...)))))--))....-............. ( -20.40)
>consensus
CAGCUAGGAGUUCUCCACUUUCUAGUCCUCCCUC__________UAUCUUCGGCUUUCACUCGCCUCUUCUAGUUUUUACACCGUGAAGAAAAUAUAU_UUACAAAC_G__A____AA__
.(((((((((......(((....))).........................(((........))).)))))))))............................................. (-14.82 = -14.18 +  -0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 16,967,801 – 16,967,902
Length 101
Sequences 5
Columns 111
Reading direction forward
Mean pairwise identity 91.62
Mean single sequence MFE -29.02
Consensus MFE -24.26
Energy contribution -24.30
Covariance contribution 0.04
Combinations/Pair 1.06
Mean z-score -1.87
Structure conservation index 0.84
SVM decision value 1.48
SVM RNA-class probability 0.957399
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16967801 101 + 22407834
GUAAAAACUAGGAGAGGCGAGUGAAAGCCGAAGAUA----------GAGGGAGGACUAGAAAGUGGAGAACUCCUAGCUGUUGGCUCAACUUCAAAUUGCCAGCGGGGCAU
((.....(((((((.(((........))).......----------........(((....)))......)))))))((((((((.............)))))))).)).. ( -28.52)
>DroSec_CAF1 75488 101 + 1
GUAGAAACUAGAAGAGGCGAGUGAAAGCCGAAGAUA----------GAGGGAGGACUAGAAAGUGGAGAACUCCUAGCUGUUGGCUCAACUUCAAAUUGCCAGCGGGGCAU
.......(((.....(((........))).....))----------).(((((..((.........))..)))))..((((((((.............))))))))..... ( -26.62)
>DroSim_CAF1 77557 101 + 1
GUAGAAACUAGAAGAGGCGAGUGAAAGCCGAAGAUA----------GAGGGAGGACUAGAAAGUGGAGAACUCCUAGCUGUUGGCUCAACUUCAAAUUGCCAGCGGGGCAU
.......(((.....(((........))).....))----------).(((((..((.........))..)))))..((((((((.............))))))))..... ( -26.62)
>DroEre_CAF1 78125 111 + 1
GUAAGAACUAGAAGAGGCGAGUGAAAGCCGAAGAUAGGGAGGAGAAGAGGGAGGACCAGCAAGCGGAGAACUCCUAGCUGUUGGCUCAACUUCAAAUUGCCAGCGGGGCAU
.......(((.....(((........))).....))).........((((..(..((((((.(((((....)))..))))))))..)..))))....((((.....)))). ( -32.00)
>DroYak_CAF1 77096 105 + 1
GUAAGAACUAGGAGAGGCGAGUGAAAGCCGAAGUUAGAGA------GAGGGGGGACUAGAAAGCGGAGAACUCCUAGCUGUUGGCUCAACUUCAAAUUGCCAGCGGGGCAU
((.....(((((((.(((........))).......(...------...((....))......)......)))))))((((((((.............)))))))).)).. ( -31.32)
>consensus
GUAAAAACUAGAAGAGGCGAGUGAAAGCCGAAGAUA__________GAGGGAGGACUAGAAAGUGGAGAACUCCUAGCUGUUGGCUCAACUUCAAAUUGCCAGCGGGGCAU
..........................(((...................(((((..((.........))..)))))..((((((((.............))))))))))).. (-24.26 = -24.30 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 16,967,801 – 16,967,902
Length 101
Sequences 5
Columns 111
Reading direction reverse
Mean pairwise identity 91.62
Mean single sequence MFE -22.37
Consensus MFE -20.82
Energy contribution -20.18
Covariance contribution -0.64
Combinations/Pair 1.13
Mean z-score -1.85
Structure conservation index 0.93
SVM decision value 2.59
SVM RNA-class probability 0.995605
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16967801 101 - 22407834
AUGCCCCGCUGGCAAUUUGAAGUUGAGCCAACAGCUAGGAGUUCUCCACUUUCUAGUCCUCCCUC----------UAUCUUCGGCUUUCACUCGCCUCUCCUAGUUUUUAC
.((((.....)))).......((((...))))(((((((((............(((........)----------)).....(((........))).)))))))))..... ( -21.90)
>DroSec_CAF1 75488 101 - 1
AUGCCCCGCUGGCAAUUUGAAGUUGAGCCAACAGCUAGGAGUUCUCCACUUUCUAGUCCUCCCUC----------UAUCUUCGGCUUUCACUCGCCUCUUCUAGUUUCUAC
.((((.....))))....((((..(((......((((((((........)))))))).....)))----------...))))(((........)))............... ( -21.60)
>DroSim_CAF1 77557 101 - 1
AUGCCCCGCUGGCAAUUUGAAGUUGAGCCAACAGCUAGGAGUUCUCCACUUUCUAGUCCUCCCUC----------UAUCUUCGGCUUUCACUCGCCUCUUCUAGUUUCUAC
.((((.....))))....((((..(((......((((((((........)))))))).....)))----------...))))(((........)))............... ( -21.60)
>DroEre_CAF1 78125 111 - 1
AUGCCCCGCUGGCAAUUUGAAGUUGAGCCAACAGCUAGGAGUUCUCCGCUUGCUGGUCCUCCCUCUUCUCCUCCCUAUCUUCGGCUUUCACUCGCCUCUUCUAGUUCUUAC
.((((.....))))....((((..(((....((((..(((....)))....))))...)))...))))..............(((........)))............... ( -24.20)
>DroYak_CAF1 77096 105 - 1
AUGCCCCGCUGGCAAUUUGAAGUUGAGCCAACAGCUAGGAGUUCUCCGCUUUCUAGUCCCCCCUC------UCUCUAACUUCGGCUUUCACUCGCCUCUCCUAGUUCUUAC
.((((.....))))....(((((((((......((((((((........))))))))........------.))).))))))(((........)))............... ( -22.56)
>consensus
AUGCCCCGCUGGCAAUUUGAAGUUGAGCCAACAGCUAGGAGUUCUCCACUUUCUAGUCCUCCCUC__________UAUCUUCGGCUUUCACUCGCCUCUUCUAGUUUUUAC
.((((.....)))).......((((...))))(((((((((......(((....))).........................(((........))).)))))))))..... (-20.82 = -20.18 +  -0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:59:03 2006