Locus 7605

Sequence ID 3R_DroMel_CAF1
Location 20,392,704 – 20,392,859
Length 155
Max. P 0.868969
window12267 window12268

overview

Window 7

Location 20,392,704 – 20,392,819
Length 115
Sequences 5
Columns 118
Reading direction forward
Mean pairwise identity 79.90
Mean single sequence MFE -25.35
Consensus MFE -16.57
Energy contribution -17.58
Covariance contribution 1.01
Combinations/Pair 1.04
Mean z-score -1.61
Structure conservation index 0.65
SVM decision value 0.06
SVM RNA-class probability 0.561613
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20392704 115 + 27905053
CACCGUCUGUCU--CUUUUGCUUUGAUAUUCCCCUUCUUUCUGGCAAAAGUCUUU-ACCCAGUGGCUUAGUCAUGGGGGGUUUUUAAUAGCCCUGUAAAAUGGGUUUCUUUACCCACU
............--((((((((..((.............)).)))))))).....-.((((.((((...))))))))((((.......(((((........))))).....))))... ( -28.92)
>DroSec_CAF1 15333 115 + 1
CGUCUUCUGUCU--CUCUUGCUUUGAUAUUCCCUUUCUUUCUGGCAAAAGUCUUU-ACCCAGUGGCUUAGUCACAGGUGGAUUUUAAUAGCCCUGUAAUAAGGGUUUCCUAACCCACU
......((((..--((.(((((..((.............)).)))))(((((...-.......)))))))..))))((((.((.....((((((......))))))....)).)))). ( -24.12)
>DroSim_CAF1 18339 115 + 1
CGUCUUCUGUCU--CUUUUGCUUUGAUAUUCCCUUUCUUUCUGGCAAAAGUCUUU-UCCCAGUGGCUUAGUCACAGGGGGAUUUUAAUAGCCCUGUAAAGAGAGUUUCCUAACCCCCU
.........(((--((((.(((((((.((((((((......(((.(((.....))-).)))(((((...))))))))))))).)))).))).....)))))))............... ( -25.80)
>DroEre_CAF1 14806 94 + 1
CACUCUGUCUCU--CUUUUGCUGUGAUAUUCCCUUUCUUUCUGGCAAAAGACUUUUGCCCAGUGGCUUAGUCAUAGGGGGAUUU----------------------UAAUAACCCACU
......((((((--(((((((((.((.............))))))))))((((...(((....)))..))))...)))))))..----------------------............ ( -21.92)
>DroYak_CAF1 18791 117 + 1
CACUCUGUCUCUCUCUCUCGCUUUGAUAUUCCAUUUCUUUCUGGCAAAAGUCUUUUGCCCAGUGGCUUAGUCAUAGGGGGACUU-AAUAGCCCUGUAAAAUGGGUUUCCUAACCCACC
......((((((((............................((((((.....))))))..(((((...)))))))))))))..-...............((((((....)))))).. ( -26.00)
>consensus
CACCCUCUGUCU__CUUUUGCUUUGAUAUUCCCUUUCUUUCUGGCAAAAGUCUUU_ACCCAGUGGCUUAGUCAUAGGGGGAUUUUAAUAGCCCUGUAAAAAGGGUUUCCUAACCCACU
..............((((((((..((.............)).)))))))).......(((.(((((...))))).)))((........(((((........))))).......))... (-16.57 = -17.58 +   1.01)

alignment

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secondary structure

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dotplot

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Window 8

Location 20,392,740 – 20,392,859
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 73.22
Mean single sequence MFE -29.68
Consensus MFE -14.13
Energy contribution -14.42
Covariance contribution 0.29
Combinations/Pair 1.17
Mean z-score -1.93
Structure conservation index 0.48
SVM decision value 0.86
SVM RNA-class probability 0.868969
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20392740 119 + 27905053
UUCUGGCAAAAGUCUUU-ACCCAGUGGCUUAGUCAUGGGGGGUUUUUAAUAGCCCUGUAAAAUGGGUUUCUUUACCCACUAUAGUUAAUAUAGCACAAAUAUUGACUAGUUGUGGCUUCU
........((((.....-((((((((((...)))))(.((((((......)))))).)....)))))..))))..((((..((((((((((.......))))))))))...))))..... ( -32.60)
>DroSec_CAF1 15369 119 + 1
UUCUGGCAAAAGUCUUU-ACCCAGUGGCUUAGUCACAGGUGGAUUUUAAUAGCCCUGUAAUAAGGGUUUCCUAACCCACUAUAGUUAAUGUAGCACAAAUAUUGACUAGUUGCGGCUUUU
....(((.(((((((..-(((..(((((...))))).))))))))))....)))(((((((..(((((....)))))....((((((((((.......)))))))))))))))))..... ( -34.20)
>DroSim_CAF1 18375 119 + 1
UUCUGGCAAAAGUCUUU-UCCCAGUGGCUUAGUCACAGGGGGAUUUUAAUAGCCCUGUAAAGAGAGUUUCCUAACCCCCUAUAGUUAAUGUAGCACAAAUAUUGACUAGUUGCGGCUUUU
.......(((((((...-.....(((((...)))))((((((.((.....(((.((......)).)))....)))))))).((((((((((.......)))))))))).....))))))) ( -29.50)
>DroEre_CAF1 14842 97 + 1
UUCUGGCAAAAGACUUUUGCCCAGUGGCUUAGUCAUAGGGGGAUUU----------------------UAAUAACCCACUAUUAUUAAAGGAGCACA-AUACUGACAAGUUUCUGCUUCU
..((((((((.....)))).))))....(((((.(((((((.....----------------------......))).)))).)))))(((((((..-..(((....)))...))))))) ( -24.70)
>DroYak_CAF1 18829 95 + 1
UUCUGGCAAAAGUCUUUUGCCCAGUGGCUUAGUCAUAGGGGGACUU-AAUAGCCCUGUAAAAUGGGUUUCCUAACCCACCCAUGUUCAAG------------------------GCUUCU
....((((((.....)))))).((.(((((.(.(((.(((((.((.-...))))).......((((((....)))))))).)))..).))------------------------))).)) ( -27.40)
>consensus
UUCUGGCAAAAGUCUUU_ACCCAGUGGCUUAGUCAUAGGGGGAUUUUAAUAGCCCUGUAAAAAGGGUUUCCUAACCCACUAUAGUUAAUGUAGCACAAAUAUUGACUAGUUGCGGCUUCU
....(((............(((.(((((...))))).)))((........(((((........))))).......))...........((((((..............)))))))))... (-14.13 = -14.42 +   0.29)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:49:56 2006