Locus 2152

Sequence ID 2L_DroMel_CAF1
Location 5,798,828 – 5,798,966
Length 138
Max. P 0.934070
window3480 window3481 window3482

overview

Window 0

Location 5,798,828 – 5,798,942
Length 114
Sequences 3
Columns 115
Reading direction forward
Mean pairwise identity 94.19
Mean single sequence MFE -23.33
Consensus MFE -19.89
Energy contribution -19.67
Covariance contribution -0.22
Combinations/Pair 1.04
Mean z-score -2.02
Structure conservation index 0.85
SVM decision value 0.12
SVM RNA-class probability 0.594258
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5798828 114 + 22407834
CCAAGAAUGUUAUCAAUCUUAUCAUUCAAGUGGUAUAG-AACCGCAUGAUUAGCGCUCAAGGAAAACCCCAUAAAUGACGACAAUCAUGGGAAAUUUUAAACAAAUUAUGGUAAC
........(((((((.(((((((((....)))))).))-).((.(((((((..((.(((.((......)).....)))))..))))))))).................))))))) ( -23.70)
>DroSec_CAF1 36050 115 + 1
CCAAGAAUGUUAUCAAUCUUAUUAUUCUAGUGGUCUAGGAACCGCAUGAUUAGCGUCCAAGGAAAAACCCAUAGAUGACGACAAUCAUGGGAAAUUUUAAACAAAUUAUAGAAAC
..((((.((....)).))))....((((((....)))))).((.(((((((..((((...((......))......))))..)))))))))........................ ( -22.90)
>DroSim_CAF1 38475 114 + 1
CCAAGAAUGUUAUCAAUCUUAUCAUUCUAGUGGUCUAG-AACCGCAUGAUUAGCGUCCAAGGAAAAACCCAUAAAUGACGACAAUCAUGGGAAAUUUUAAACAAAUUAUAGAAAC
..((((.((....)).)))).((.((((((....))))-))((.(((((((..((((...((......))......))))..)))))))))...................))... ( -23.40)
>consensus
CCAAGAAUGUUAUCAAUCUUAUCAUUCUAGUGGUCUAG_AACCGCAUGAUUAGCGUCCAAGGAAAAACCCAUAAAUGACGACAAUCAUGGGAAAUUUUAAACAAAUUAUAGAAAC
(((.((.(((..(((..((.(((((....(((((......)))))))))).)).......((......)).....)))..))).)).)))......................... (-19.89 = -19.67 +  -0.22)

alignment

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secondary structure

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dotplot

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Window 1

Location 5,798,867 – 5,798,966
Length 99
Sequences 3
Columns 103
Reading direction forward
Mean pairwise identity 83.61
Mean single sequence MFE -16.11
Consensus MFE -14.27
Energy contribution -14.17
Covariance contribution -0.11
Combinations/Pair 1.10
Mean z-score -1.98
Structure conservation index 0.89
SVM decision value 1.23
SVM RNA-class probability 0.934070
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5798867 99 + 22407834
ACCGCAUGAUUAGCGCUCAAGGAAAACCCCAUAAAUGACGACAAUCAUGGGAAAUUUUAAACAAAUUAUGGUAACAUUAUAAACCUUAAAAAU----UGUACU
.((.(((((((..((.(((.((......)).....)))))..))))))))).........((((.(((.(((..........))).)))...)----)))... ( -15.60)
>DroSec_CAF1 36090 86 + 1
ACCGCAUGAUUAGCGUCCAAGGAAAAACCCAUAGAUGACGACAAUCAUGGGAAAUUUUAAACAAAUUAUAGAAACAUUAUAAAUC-----------------U
.((.(((((((..((((...((......))......))))..)))))))))..................................-----------------. ( -15.90)
>DroSim_CAF1 38514 103 + 1
ACCGCAUGAUUAGCGUCCAAGGAAAAACCCAUAAAUGACGACAAUCAUGGGAAAUUUUAAACAAAUUAUAGAAACAUUAUAAAUCUUAAAAAUUUAUUGAUCU
.((.(((((((..((((...((......))......))))..)))))))))(((((((.......((((((.....))))))......)))))))........ ( -16.82)
>consensus
ACCGCAUGAUUAGCGUCCAAGGAAAAACCCAUAAAUGACGACAAUCAUGGGAAAUUUUAAACAAAUUAUAGAAACAUUAUAAAUCUUAAAAAU____UG__CU
.((.(((((((..((((...((......))......))))..)))))))))..............((((((.....))))))..................... (-14.27 = -14.17 +  -0.11)

alignment

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secondary structure

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dotplot

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Window 2

Location 5,798,867 – 5,798,966
Length 99
Sequences 3
Columns 103
Reading direction reverse
Mean pairwise identity 83.61
Mean single sequence MFE -19.40
Consensus MFE -16.62
Energy contribution -16.73
Covariance contribution 0.11
Combinations/Pair 1.06
Mean z-score -1.55
Structure conservation index 0.86
SVM decision value 0.38
SVM RNA-class probability 0.714751
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5798867 99 - 22407834
AGUACA----AUUUUUAAGGUUUAUAAUGUUACCAUAAUUUGUUUAAAAUUUCCCAUGAUUGUCGUCAUUUAUGGGGUUUUCCUUGAGCGCUAAUCAUGCGGU
......----...(((((((................(((((.....)))))((((((((.((....)).))))))))....)))))))(((.......))).. ( -19.00)
>DroSec_CAF1 36090 86 - 1
A-----------------GAUUUAUAAUGUUUCUAUAAUUUGUUUAAAAUUUCCCAUGAUUGUCGUCAUCUAUGGGUUUUUCCUUGGACGCUAAUCAUGCGGU
.-----------------..................................((((((((((.((((......(((....)))...)))).)))))))).)). ( -18.30)
>DroSim_CAF1 38514 103 - 1
AGAUCAAUAAAUUUUUAAGAUUUAUAAUGUUUCUAUAAUUUGUUUAAAAUUUCCCAUGAUUGUCGUCAUUUAUGGGUUUUUCCUUGGACGCUAAUCAUGCGGU
(((.(((((((((.....)))))))..))..)))..................((((((((((.((((......(((....)))...)))).)))))))).)). ( -20.90)
>consensus
AG__CA____AUUUUUAAGAUUUAUAAUGUUUCUAUAAUUUGUUUAAAAUUUCCCAUGAUUGUCGUCAUUUAUGGGUUUUUCCUUGGACGCUAAUCAUGCGGU
....................................................((((((((((.((((......(((.....)))..)))).)))))))).)). (-16.62 = -16.73 +   0.11)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:21:00 2006