Locus 7351

Sequence ID 2L_DroMel_CAF1
Location 20,492,931 – 20,493,037
Length 106
Max. P 0.913447
window11801 window11802

overview

Window 1

Location 20,492,931 – 20,493,037
Length 106
Sequences 6
Columns 113
Reading direction forward
Mean pairwise identity 79.33
Mean single sequence MFE -36.92
Consensus MFE -23.02
Energy contribution -25.38
Covariance contribution 2.36
Combinations/Pair 1.21
Mean z-score -2.22
Structure conservation index 0.62
SVM decision value 1.09
SVM RNA-class probability 0.913447
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20492931 106 + 22407834
UAUGAGCAGC-GGAGUGCCAACAGCAGUU---GGCAGUUGGCAAUUGGCAAGCCCUGCCUGUUGCUCGUCUGCUGCGUCAAA-GAUGCAGCAU--AUUUAUUUUGGCCAGGCU
.(((((((((-(((.(((((((....)))---)))).))((((...((....)).)))))))))))))).(((((((((...-))))))))).--.................. ( -44.60)
>DroSec_CAF1 9993 106 + 1
UAUUAGCAGC-GGAGUGCCAACAGCAGUU---GGCAGCUGGCAAUUGGCGAGCCCUGCCUGUUGCUCGUCUACUGCGUCAGA-GAUGCAGCAU--AUUUAUUUUGGCCAGGCU
.......(((-....(((((((....)))---)))).(((((....(((((((..........)))))))..(((((((...-)))))))...--..........)))))))) ( -40.10)
>DroSim_CAF1 15116 106 + 1
UAUGAGCAGC-GGAGUGCCAACAGCAGUU---GGCAGUUGGCAAUUGGCGAGUCCUGCCUGUUGCUCGUCUACUGCGUCAGA-GAUGCAGCAU--AUUUAUUUUGGCCAGGCU
...(((((((-.((.(((((((....)))---)))).)).))....((((.....))))...)))))((((.(((((((...-)))))))((.--........))...)))). ( -39.50)
>DroYak_CAF1 9159 106 + 1
UAUGAGCAGC-GAAGUGCCAACGGCAUAU---GGCAGUUGGCAAUUGGCAAACCCUGCCUGUUGCUCGUCUUCUGCGUCAAA-GAUGCAGCAU--AUUUAUUUUGGCCAGGCU
...(((((((-(...(((((((.((....---.)).)))))))...((((.....))))))))))))((((.(((((((...-)))))))((.--........))...)))). ( -39.00)
>DroAna_CAF1 1950 95 + 1
UAUAAGCAGC-CGAGUGCCAGGAGCAGUU---GGCAGUUUGU-------GA-ACUUGCCUGUUGCUUG---ACUGCAUCAAA-GAUGCAGCAU--AUUUAUUUUGGCCAGGAA
(((((((.((-(((.(((.....))).))---))).))))))-------).-.((.(((.((....((---.(((((((...-))))))))).--....))...))).))... ( -32.50)
>DroPer_CAF1 54081 102 + 1
UAUAAUCUGCUCGACUGCCAGCUGCCUCGACUGCCAGCUGCCU--------CUGCUGCCUGUUGCACG---ACUGCAUCAAACGUUGCAGCAUAUAUUUAUUUUGGCCAGGCA
........((..(...(((((((((..((...(.((((.....--------..)))).)((.((((..---..)))).))..))..)))))(((....)))..)))))..)). ( -25.80)
>consensus
UAUGAGCAGC_GGAGUGCCAACAGCAGUU___GGCAGUUGGCAAUUGGCGAGCCCUGCCUGUUGCUCGUCUACUGCGUCAAA_GAUGCAGCAU__AUUUAUUUUGGCCAGGCU
.(((((((((......((((((.((........)).))))))....((((.....)))).)))))))))...(((((((....)))))))....................... (-23.02 = -25.38 +   2.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 20,492,931 – 20,493,037
Length 106
Sequences 6
Columns 113
Reading direction reverse
Mean pairwise identity 79.33
Mean single sequence MFE -33.32
Consensus MFE -18.92
Energy contribution -20.37
Covariance contribution 1.45
Combinations/Pair 1.14
Mean z-score -2.21
Structure conservation index 0.57
SVM decision value 0.81
SVM RNA-class probability 0.856403
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20492931 106 - 22407834
AGCCUGGCCAAAAUAAAU--AUGCUGCAUC-UUUGACGCAGCAGACGAGCAACAGGCAGGGCUUGCCAAUUGCCAACUGCC---AACUGCUGUUGGCACUCC-GCUGCUCAUA
.(((((............--.((((((.((-...)).)))))).........))))).((((..((....(((((((.((.---....)).)))))))....-)).))))... ( -37.95)
>DroSec_CAF1 9993 106 - 1
AGCCUGGCCAAAAUAAAU--AUGCUGCAUC-UCUGACGCAGUAGACGAGCAACAGGCAGGGCUCGCCAAUUGCCAGCUGCC---AACUGCUGUUGGCACUCC-GCUGCUAAUA
(((((.(((.........--.((((((.((-...)).))))))...........))).))))).....((((.((((((((---(((....)))))))....-)))).)))). ( -35.70)
>DroSim_CAF1 15116 106 - 1
AGCCUGGCCAAAAUAAAU--AUGCUGCAUC-UCUGACGCAGUAGACGAGCAACAGGCAGGACUCGCCAAUUGCCAACUGCC---AACUGCUGUUGGCACUCC-GCUGCUCAUA
..................--.((((((.((-...)).))))))...(((((.(.(((.......)))...(((((((.((.---....)).)))))))....-).)))))... ( -32.20)
>DroYak_CAF1 9159 106 - 1
AGCCUGGCCAAAAUAAAU--AUGCUGCAUC-UUUGACGCAGAAGACGAGCAACAGGCAGGGUUUGCCAAUUGCCAACUGCC---AUAUGCCGUUGGCACUUC-GCUGCUCAUA
.(((((............--.((((.(.((-(((......))))).))))).))))).((((..((.((.(((((((.((.---....)).))))))).)).-)).))))... ( -34.24)
>DroAna_CAF1 1950 95 - 1
UUCCUGGCCAAAAUAAAU--AUGCUGCAUC-UUUGAUGCAGU---CAAGCAACAGGCAAGU-UC-------ACAAACUGCC---AACUGCUCCUGGCACUCG-GCUGCUUAUA
.....((((.........--....((((((-...))))))((---((((((...((((.((-(.-------...)))))))---...))))..))))....)-)))....... ( -26.30)
>DroPer_CAF1 54081 102 - 1
UGCCUGGCCAAAAUAAAUAUAUGCUGCAACGUUUGAUGCAGU---CGUGCAACAGGCAGCAG--------AGGCAGCUGGCAGUCGAGGCAGCUGGCAGUCGAGCAGAUUAUA
(((.((((.............((((((.....(((.((((..---..)))).))))))))).--------.(.((((((.(......).)))))).).)))).)))....... ( -33.50)
>consensus
AGCCUGGCCAAAAUAAAU__AUGCUGCAUC_UUUGACGCAGUAGACGAGCAACAGGCAGGGCUCGCCAAUUGCCAACUGCC___AACUGCUGUUGGCACUCC_GCUGCUCAUA
.(((((...............((((((.((....)).)))))).........)))))..............((((((.((........)).))))))................ (-18.92 = -20.37 +   1.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:34:31 2006