Locus 1765

Sequence ID 2L_DroMel_CAF1
Location 4,823,983 – 4,824,080
Length 97
Max. P 0.997338
window2837 window2838

overview

Window 7

Location 4,823,983 – 4,824,080
Length 97
Sequences 5
Columns 104
Reading direction forward
Mean pairwise identity 90.72
Mean single sequence MFE -30.20
Consensus MFE -25.04
Energy contribution -25.64
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -2.23
Structure conservation index 0.83
SVM decision value 2.09
SVM RNA-class probability 0.987694
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4823983 97 + 22407834
AAAAACCCAAACGUAGCCAAAAUAAAUUGGCUGACAAGUGCGAUAGCAUGCCACAGGUAAGGAAGCAUGCCGCAGUCGUGGGCGGGGUAGU-------CUACCC
.....((((.....((((((......))))))(((...((((...((((((..(......)...))))))))))))).))))..(((((..-------.))))) ( -30.80)
>DroSec_CAF1 10551 96 + 1
A-AAACCCAAACGUAGCCAAAAUAAAUUGGCUGACAAGUGCGAUAGCAUGCCACAGGUAAGGAAGCAUGCCGCAGUCGUGGGCGGGGUAGU-------CUACCC
.-...((((.....((((((......))))))(((...((((...((((((..(......)...))))))))))))).))))..(((((..-------.))))) ( -30.80)
>DroSim_CAF1 10708 97 + 1
AAAAACCCAAACGUAGCCAAAAUAAAUUGGCUGACAAGUGCGAUAGCAUGCCACAGGUAAGGAAGCAUGCCGCAGUCGUGGGCGGGGUAGU-------CUACCC
.....((((.....((((((......))))))(((...((((...((((((..(......)...))))))))))))).))))..(((((..-------.))))) ( -30.80)
>DroEre_CAF1 10628 97 + 1
AAAAACCCAAACGUAGCGAAAAUAAAUUGGCUGACAAGUGCGAUAGCAUGCCACAGGUAAGGAA-------GCAGUCGUGGGCGGGGUAGUCGGUGGACUACCG
.....(((..((.((((.((......)).))))....))(((((.((...((........))..-------)).))))))))...(((((((....))))))). ( -29.40)
>DroYak_CAF1 10889 90 + 1
AAAAACCCAAACGUAGCCAAAAUAAAUUGGCUGACAAGUGCGAUAGCAUGCCACAGGUAAGGCG-------GCAGUCGUGGGCGGGGUAGU-------CUACCG
.....(((..((.(((((((......)))))))....))(((((.((.((((........))))-------)).))))))))...((((..-------.)))). ( -29.20)
>consensus
AAAAACCCAAACGUAGCCAAAAUAAAUUGGCUGACAAGUGCGAUAGCAUGCCACAGGUAAGGAAGCAUGCCGCAGUCGUGGGCGGGGUAGU_______CUACCC
.....((((.....((((((......))))))(((..((((....))))(((...)))................))).))))..((((((........)))))) (-25.04 = -25.64 +   0.60)

alignment

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secondary structure

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dotplot

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Window 8

Location 4,823,983 – 4,824,080
Length 97
Sequences 5
Columns 104
Reading direction reverse
Mean pairwise identity 90.72
Mean single sequence MFE -32.10
Consensus MFE -25.86
Energy contribution -26.46
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -3.03
Structure conservation index 0.81
SVM decision value 2.84
SVM RNA-class probability 0.997338
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4823983 97 - 22407834
GGGUAG-------ACUACCCCGCCCACGACUGCGGCAUGCUUCCUUACCUGUGGCAUGCUAUCGCACUUGUCAGCCAAUUUAUUUUGGCUACGUUUGGGUUUUU
(((((.-------..))))).(((((.((((((((((((((...........)))))))...))))...)))((((((......)))))).....))))).... ( -35.40)
>DroSec_CAF1 10551 96 - 1
GGGUAG-------ACUACCCCGCCCACGACUGCGGCAUGCUUCCUUACCUGUGGCAUGCUAUCGCACUUGUCAGCCAAUUUAUUUUGGCUACGUUUGGGUUU-U
(((((.-------..))))).(((((.((((((((((((((...........)))))))...))))...)))((((((......)))))).....)))))..-. ( -35.40)
>DroSim_CAF1 10708 97 - 1
GGGUAG-------ACUACCCCGCCCACGACUGCGGCAUGCUUCCUUACCUGUGGCAUGCUAUCGCACUUGUCAGCCAAUUUAUUUUGGCUACGUUUGGGUUUUU
(((((.-------..))))).(((((.((((((((((((((...........)))))))...))))...)))((((((......)))))).....))))).... ( -35.40)
>DroEre_CAF1 10628 97 - 1
CGGUAGUCCACCGACUACCCCGCCCACGACUGC-------UUCCUUACCUGUGGCAUGCUAUCGCACUUGUCAGCCAAUUUAUUUUCGCUACGUUUGGGUUUUU
.(((((((....)))))))..((((((((..((-------..((........))...))..))).....((.(((.((......)).)))))...))))).... ( -25.30)
>DroYak_CAF1 10889 90 - 1
CGGUAG-------ACUACCCCGCCCACGACUGC-------CGCCUUACCUGUGGCAUGCUAUCGCACUUGUCAGCCAAUUUAUUUUGGCUACGUUUGGGUUUUU
.((((.-------..))))..(((((.((((((-------(((.......))))))(((....)))...)))((((((......)))))).....))))).... ( -29.00)
>consensus
GGGUAG_______ACUACCCCGCCCACGACUGCGGCAUGCUUCCUUACCUGUGGCAUGCUAUCGCACUUGUCAGCCAAUUUAUUUUGGCUACGUUUGGGUUUUU
((((((........)))))).(((((.(((......................(((((((....)))..))))((((((......))))))..)))))))).... (-25.86 = -26.46 +   0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:10:38 2006