Locus 4138

Sequence ID 2R_DroMel_CAF1
Location 13,600,121 – 13,600,212
Length 91
Max. P 0.695715
window6662 window6663

overview

Window 2

Location 13,600,121 – 13,600,212
Length 91
Sequences 6
Columns 100
Reading direction forward
Mean pairwise identity 82.62
Mean single sequence MFE -30.84
Consensus MFE -20.74
Energy contribution -21.48
Covariance contribution 0.74
Combinations/Pair 1.21
Mean z-score -1.90
Structure conservation index 0.67
SVM decision value 0.20
SVM RNA-class probability 0.631428
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13600121 91 + 20766785
ACAUGGGGCUGUGUAAACGGCUGAGCGAGUGUGCGUGUGCUGAUUGCAUUGUUGCACUU---------GUUGCAUUCCCACCACGCACACACUCUCAAGC
......((((((....))))))(((.(.(((((((((((..((.((((...........---------..)))).)).)).))))))))).).))).... ( -33.52)
>DroSec_CAF1 147800 91 + 1
ACAUGGCGUUGUGUAAACGGCUGAGCGAGUGUGCGUGUGCUGAUUGCAUUGUUGCACUU---------GUUGCAUUCCCUCCACGCACACACUCUCAAGC
....(.((((.....)))).)((((.(.((((((((((((.....)))....((((...---------..)))).......))))))))).).))))... ( -30.90)
>DroSim_CAF1 146171 91 + 1
ACAUGGGGUUGUGUAAACGGCUGAGCGAGUGUGCGUGUGCUGAUUGCAUUGUUGCACUU---------GUUGCAUUCCCUCCACGCACACACUCUCAAGC
......((((((....))))))(((.(.((((((((((((.....)))....((((...---------..)))).......))))))))).).))).... ( -30.60)
>DroEre_CAF1 143183 91 + 1
ACAUGGGGUUGUGUAAACGGCUGAGUGAGUGUGCGUGUGCUGAUUGCAUUGUUGCACUU---------GUUGCAUUCCCUCCACACACACGCUCGCAAAU
......((((((....))))))..(((((((((.(((((..((.((((...........---------..)))).))....))))).))))))))).... ( -32.72)
>DroYak_CAF1 147538 91 + 1
ACAUGGGGUUGUGUAAACGGCUGAGCGUGUGUGCGUGUGCUGAUUGCAUUGUUGCACUU---------GUUGCAUUCCCUCCACGCACACGCUCGCAAAC
......((((((....))))))(((((((((((.(.((((.((.((((....)))).))---------...))))......).)))))))))))...... ( -32.20)
>DroAna_CAF1 140220 91 + 1
AUAUACUG-UGUGUUAGUG-CU-AGUAUAUGAGUGUGCAUUGAUUGUAUUGUUGCACUUGUUGCACUUGUUGCAUUCCUCGCACGCACACU--CCC----
.......(-(((((..(((-(.-((...(((...(((((..((.((((....)))).))..)))))......)))..)).)))))))))).--...---- ( -25.10)
>consensus
ACAUGGGGUUGUGUAAACGGCUGAGCGAGUGUGCGUGUGCUGAUUGCAUUGUUGCACUU_________GUUGCAUUCCCUCCACGCACACACUCUCAAGC
......((((((....))))))(((...(((((((((....((.((((......................)))).))....))))))))).)))...... (-20.74 = -21.48 +   0.74)

alignment

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secondary structure

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dotplot

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Window 3

Location 13,600,121 – 13,600,212
Length 91
Sequences 6
Columns 100
Reading direction reverse
Mean pairwise identity 82.62
Mean single sequence MFE -27.78
Consensus MFE -20.08
Energy contribution -21.25
Covariance contribution 1.17
Combinations/Pair 1.14
Mean z-score -1.86
Structure conservation index 0.72
SVM decision value 0.34
SVM RNA-class probability 0.695715
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13600121 91 - 20766785
GCUUGAGAGUGUGUGCGUGGUGGGAAUGCAAC---------AAGUGCAACAAUGCAAUCAGCACACGCACACUCGCUCAGCCGUUUACACAGCCCCAUGU
(((.(((.(.(((((((((((..((.((((..---------...........)))).)).)).))))))))).).))))))................... ( -30.82)
>DroSec_CAF1 147800 91 - 1
GCUUGAGAGUGUGUGCGUGGAGGGAAUGCAAC---------AAGUGCAACAAUGCAAUCAGCACACGCACACUCGCUCAGCCGUUUACACAACGCCAUGU
(((.(((.(.(((((((((.......((((..---------...))))....(((.....)))))))))))).).))))))((((.....))))...... ( -30.70)
>DroSim_CAF1 146171 91 - 1
GCUUGAGAGUGUGUGCGUGGAGGGAAUGCAAC---------AAGUGCAACAAUGCAAUCAGCACACGCACACUCGCUCAGCCGUUUACACAACCCCAUGU
(((.(((.(.(((((((((.......((((..---------...))))....(((.....)))))))))))).).))))))................... ( -30.00)
>DroEre_CAF1 143183 91 - 1
AUUUGCGAGCGUGUGUGUGGAGGGAAUGCAAC---------AAGUGCAACAAUGCAAUCAGCACACGCACACUCACUCAGCCGUUUACACAACCCCAUGU
......(((.(((((((((....((.((((..---------...........)))).))..))))))))).))).......................... ( -23.62)
>DroYak_CAF1 147538 91 - 1
GUUUGCGAGCGUGUGCGUGGAGGGAAUGCAAC---------AAGUGCAACAAUGCAAUCAGCACACGCACACACGCUCAGCCGUUUACACAACCCCAUGU
....(((((((((((((((.......((((..---------...))))....(((.....))))))))))))..)))).))................... ( -28.40)
>DroAna_CAF1 140220 91 - 1
----GGG--AGUGUGCGUGCGAGGAAUGCAACAAGUGCAACAAGUGCAACAAUACAAUCAAUGCACACUCAUAUACU-AG-CACUAACACA-CAGUAUAU
----..(--(((((((((.....((.((.......((((.....))))......)).)).))))))))))(((((((-..-..........-.))))))) ( -23.14)
>consensus
GCUUGAGAGUGUGUGCGUGGAGGGAAUGCAAC_________AAGUGCAACAAUGCAAUCAGCACACGCACACUCGCUCAGCCGUUUACACAACCCCAUGU
..(((((.(.(((((((((....((.((((......................)))).))....))))))))).).))))).................... (-20.08 = -21.25 +   1.17)

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 11:12:44 2006