Locus 3051

Sequence ID 2R_DroMel_CAF1
Location 10,513,167 – 10,513,279
Length 112
Max. P 0.987611
window5023 window5024

overview

Window 3

Location 10,513,167 – 10,513,279
Length 112
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 85.79
Mean single sequence MFE -20.87
Consensus MFE -16.24
Energy contribution -16.88
Covariance contribution 0.64
Combinations/Pair 1.06
Mean z-score -1.82
Structure conservation index 0.78
SVM decision value 0.58
SVM RNA-class probability 0.787427
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10513167 112 + 20766785
AAA--AAUAAGGUCUAGUACA----A-AAAACAGAGACAGGACAACAAAAACAGGCGAGUGCCUUUGGCCAACUAUUAAAUUGGCCAGCUUAAACGUAGUCUAUAUAAUAAAUUGAUGG
...--......((((.((...----.-...))..)))).((((.((......((((....))))((((((((........)))))))).......)).))))................. ( -23.10)
>DroSec_CAF1 13776 117 + 1
AAA--AAUAAGGUAUAGUACAGAAAAAAAAACAGAGACAGGACAACAAAAACAGACGAGUGCCUCUAGCCAACUAUUAAAUUGGCAAGCUUAAACGUAGUCUAUAUAAUAAAUUGAUGG
...--......((((((.((............((((.((....................)).)))).(((((........))))).............))))))))............. ( -13.75)
>DroSim_CAF1 8788 116 + 1
AAA--AAUAAGGUAUAGUACAGAAAA-AAAACAGAGACAGGACAACAAAAACAGACGAGUGCCUCUGGCGAACUAUUAAAUUGGCCAGCUUAAACGUAGUCUAUAUAAUAAAUUGAUGG
...--......((((((.((......-...........(((...((............)).)))(((((.((........)).)))))..........))))))))............. ( -14.80)
>DroEre_CAF1 13965 108 + 1
AAAAUAAGAAGCUGC----------A-AAAACAGAGACAGGACAACAAAAACAGGCAAGUGCCGCUGGCCAACUAUUAAAUUGGCCAGCUUAAACGUGGUCUAUAUAAUAAAUUGAUGG
...........(((.----------.-....))).....((((.((.......(((....)))(((((((((........)))))))))......)).))))................. ( -28.30)
>DroYak_CAF1 10435 106 + 1
AAA--AAUAAGCUAC----------C-AAAACAGAAACAGGACAACGCAAACAGGCAAGUGCCACUGGCCAACUUUUAAAUUGGCCAGCUUAAACGUGGUCUAUACAAUAAAUUGAUGA
...--..........----------.-............((((.(((......(((....))).((((((((........))))))))......))).))))................. ( -24.40)
>consensus
AAA__AAUAAGGUAUAGUACA____A_AAAACAGAGACAGGACAACAAAAACAGGCGAGUGCCUCUGGCCAACUAUUAAAUUGGCCAGCUUAAACGUAGUCUAUAUAAUAAAUUGAUGG
.......................................((((.((.......(((....))).((((((((........)))))))).......)).))))................. (-16.24 = -16.88 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 10,513,167 – 10,513,279
Length 112
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 85.79
Mean single sequence MFE -25.29
Consensus MFE -19.52
Energy contribution -19.52
Covariance contribution -0.00
Combinations/Pair 1.09
Mean z-score -2.76
Structure conservation index 0.77
SVM decision value 2.09
SVM RNA-class probability 0.987611
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10513167 112 - 20766785
CCAUCAAUUUAUUAUAUAGACUACGUUUAAGCUGGCCAAUUUAAUAGUUGGCCAAAGGCACUCGCCUGUUUUUGUUGUCCUGUCUCUGUUUU-U----UGUACUAGACCUUAUU--UUU
..................(((.(((...(((((((((((((....))))))))).((((....)))))))).))).)))..((((..((...-.----...)).))))......--... ( -26.40)
>DroSec_CAF1 13776 117 - 1
CCAUCAAUUUAUUAUAUAGACUACGUUUAAGCUUGCCAAUUUAAUAGUUGGCUAGAGGCACUCGUCUGUUUUUGUUGUCCUGUCUCUGUUUUUUUUUCUGUACUAUACCUUAUU--UUU
.........(((..((((((..............(((((((....)))))))((((((((..((.(.......).))...))))))))........))))))..))).......--... ( -20.80)
>DroSim_CAF1 8788 116 - 1
CCAUCAAUUUAUUAUAUAGACUACGUUUAAGCUGGCCAAUUUAAUAGUUCGCCAGAGGCACUCGUCUGUUUUUGUUGUCCUGUCUCUGUUUU-UUUUCUGUACUAUACCUUAUU--UUU
..............(((((((.......((((.(((.((((....)))).)))(((((((..((.(.......).))...))))))))))).-......)).))))).......--... ( -18.04)
>DroEre_CAF1 13965 108 - 1
CCAUCAAUUUAUUAUAUAGACCACGUUUAAGCUGGCCAAUUUAAUAGUUGGCCAGCGGCACUUGCCUGUUUUUGUUGUCCUGUCUCUGUUUU-U----------GCAGCUUCUUAUUUU
..................(((.(((.....(((((((((((....)))))))))))(((....)))......))).)))......((((...-.----------))))........... ( -30.30)
>DroYak_CAF1 10435 106 - 1
UCAUCAAUUUAUUGUAUAGACCACGUUUAAGCUGGCCAAUUUAAAAGUUGGCCAGUGGCACUUGCCUGUUUGCGUUGUCCUGUUUCUGUUUU-G----------GUAGCUUAUU--UUU
..(((((..((....((((((.((((....(((((((((((....)))))))))))(((....))).....)))).)).))))...))..))-)----------))........--... ( -30.90)
>consensus
CCAUCAAUUUAUUAUAUAGACUACGUUUAAGCUGGCCAAUUUAAUAGUUGGCCAGAGGCACUCGCCUGUUUUUGUUGUCCUGUCUCUGUUUU_U____UGUACUAUACCUUAUU__UUU
..................(((.(((...(((((((((((((....)))))))))..(((....))).)))).))).)))........................................ (-19.52 = -19.52 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:46:03 2006