Locus 3598

Sequence ID 3R_DroMel_CAF1
Location 9,706,513 – 9,706,607
Length 94
Max. P 0.934215
window5797 window5798

overview

Window 7

Location 9,706,513 – 9,706,607
Length 94
Sequences 6
Columns 94
Reading direction forward
Mean pairwise identity 82.79
Mean single sequence MFE -27.55
Consensus MFE -16.63
Energy contribution -18.93
Covariance contribution 2.31
Combinations/Pair 1.10
Mean z-score -3.94
Structure conservation index 0.60
SVM decision value 1.23
SVM RNA-class probability 0.934215
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9706513 94 + 27905053
UAAAAGGGAAACGGGGAAAAGGAAAAGUGUAUGUGGGACCAAUGCACAAAAGACAUUUGUCAACACCCCACACUUAAGUAGGAAACUCCCCCGA
.....(((....((((..........((((((.((....))))))))....(((....)))....))))........(.((....)).)))).. ( -26.00)
>DroSec_CAF1 30488 93 + 1
UAGAAGGGAAA-GGGAAAAAGGAAAAGUGUAUGUGGGACCAAUGCACAAAAGACAUUUGUCAACACCCCACACUUAAGGAGGAAACUCCCCCGA
.....(((...-(((...........((((((.((....))))))))....(((....))).....)))........((((....))))))).. ( -29.20)
>DroSim_CAF1 30206 93 + 1
UAGAAGGGAAA-GGGGAAAAGGAAAAGUGUAUGUGGGACCAAUGCACAAAAGACAUUUGUCAACACCCCACACUUAAGGAGGAAACUCCCCCGA
.....(((...-((((..........((((((.((....))))))))....(((....)))....))))........((((....))))))).. ( -32.70)
>DroEre_CAF1 31698 92 + 1
UUGAAUGAAAA-GGGGAAAAGGAAAAGUGUAUGCGGGACCACUGCACAAAAGACAUUUGUCAACACCCCACACUUAAGGAGGAAACUCC-CCGA
...........-((((.....((.((((((.(((((.....)))))......)))))).))....))))........((((....))))-.... ( -27.30)
>DroYak_CAF1 31462 93 + 1
UUGAAGGGAAA-GGGGAAAAGGAAAAGUGUAUGUGGGACCACUGCACAAAAGACAUUUGUCAACACCCCACACUUAAGGAGGAAACUCCCCCGA
.....(((...-((((..........(((((.(((....))))))))....(((....)))....))))........((((....))))))).. ( -35.00)
>DroAna_CAF1 28079 71 + 1
U-----------------------AUUCGUAUUCGUGUCUGUGGCACAAAAGACAUUUGUCAACACCCCCCACUUAAGGCCGCAACACCCCCGC
.-----------------------..........((((.((((((......(((....)))...........(....)))))))))))...... ( -15.10)
>consensus
UAGAAGGGAAA_GGGGAAAAGGAAAAGUGUAUGUGGGACCAAUGCACAAAAGACAUUUGUCAACACCCCACACUUAAGGAGGAAACUCCCCCGA
.....(((....((((..........((((...((....))..))))....(((....)))....))))........((((....))))))).. (-16.63 = -18.93 +   2.31)

alignment

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secondary structure

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dotplot

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Window 8

Location 9,706,513 – 9,706,607
Length 94
Sequences 6
Columns 94
Reading direction reverse
Mean pairwise identity 82.79
Mean single sequence MFE -24.08
Consensus MFE -16.51
Energy contribution -17.90
Covariance contribution 1.39
Combinations/Pair 1.05
Mean z-score -2.00
Structure conservation index 0.69
SVM decision value 0.28
SVM RNA-class probability 0.665306
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9706513 94 - 27905053
UCGGGGGAGUUUCCUACUUAAGUGUGGGGUGUUGACAAAUGUCUUUUGUGCAUUGGUCCCACAUACACUUUUCCUUUUCCCCGUUUCCCUUUUA
.((((((((...(((((......)))))(((..(((.(((((.......))))).))).))).............))))))))........... ( -26.70)
>DroSec_CAF1 30488 93 - 1
UCGGGGGAGUUUCCUCCUUAAGUGUGGGGUGUUGACAAAUGUCUUUUGUGCAUUGGUCCCACAUACACUUUUCCUUUUUCCC-UUUCCCUUCUA
..(((..((..........(((((((..(((..(((.(((((.......))))).))).))).)))))))...........)-)..)))..... ( -25.50)
>DroSim_CAF1 30206 93 - 1
UCGGGGGAGUUUCCUCCUUAAGUGUGGGGUGUUGACAAAUGUCUUUUGUGCAUUGGUCCCACAUACACUUUUCCUUUUCCCC-UUUCCCUUCUA
..(((((((............((((((((...(((((((.....))))).))....))))))))............))))))-).......... ( -25.55)
>DroEre_CAF1 31698 92 - 1
UCGG-GGAGUUUCCUCCUUAAGUGUGGGGUGUUGACAAAUGUCUUUUGUGCAGUGGUCCCGCAUACACUUUUCCUUUUCCCC-UUUUCAUUCAA
..((-((((............((((((((..((((((((.....))))).)))...))))))))............))))))-........... ( -24.95)
>DroYak_CAF1 31462 93 - 1
UCGGGGGAGUUUCCUCCUUAAGUGUGGGGUGUUGACAAAUGUCUUUUGUGCAGUGGUCCCACAUACACUUUUCCUUUUCCCC-UUUCCCUUCAA
..(((((((............((((((((..((((((((.....))))).)))...))))))))............))))))-).......... ( -25.85)
>DroAna_CAF1 28079 71 - 1
GCGGGGGUGUUGCGGCCUUAAGUGGGGGGUGUUGACAAAUGUCUUUUGUGCCACAGACACGAAUACGAAU-----------------------A
......((((((.(((.....(..(((((..((....))..)))))..)))).)).))))..........-----------------------. ( -15.90)
>consensus
UCGGGGGAGUUUCCUCCUUAAGUGUGGGGUGUUGACAAAUGUCUUUUGUGCAUUGGUCCCACAUACACUUUUCCUUUUCCCC_UUUCCCUUCUA
..(((((.....)))))....((((((((...(((((((.....))))).))....)))))))).............................. (-16.51 = -17.90 +   1.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:05:26 2006