Locus 7879

Sequence ID 3R_DroMel_CAF1
Location 21,102,230 – 21,102,350
Length 120
Max. P 0.800576
window12693 window12694

overview

Window 3

Location 21,102,230 – 21,102,350
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 80.50
Mean single sequence MFE -45.42
Consensus MFE -30.49
Energy contribution -30.92
Covariance contribution 0.42
Combinations/Pair 1.32
Mean z-score -1.84
Structure conservation index 0.67
SVM decision value 0.62
SVM RNA-class probability 0.800576
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21102230 120 + 27905053
CGCUCACCCAAUUCGGGACACUCCCUGGCAAAGUCAGCCGCCACGCCCACCGUAUUCACAAAGAAGGGUGCAAAGGCCUGGGUGUGGCGAUUGAAGAUGCCGUGAUCGAACUUGGUCAGC
.(((.(((...((((((.....))).((((...(((..(((((((((((((((((((........))))))...))..)))))))))))..)))...))))......)))...))).))) ( -50.10)
>DroSec_CAF1 11264 120 + 1
CGCUCACCCAAUUCUGGACACUCUCUGGCAAAGUCAGCCGCCACGCCCACCAUAUUCACAAAGCAGGGCGCAAAGGCCUGGGUGUGGCGAUUGAAGAUGCCGUGAUCGAACUUGGUCAGC
.(((.(((...(((.((.(((.....((((...(((..(((((((((((.........(......)(((......))))))))))))))..)))...))))))).)))))...))).))) ( -43.60)
>DroSim_CAF1 11697 120 + 1
CGCUCCCCCAAUUCGGGACACUCCCUGGCAAAGUCAGCGGCCACGCCCACCGUAUUCACAAAGAAGGGCGCAAAGGCCUGGGUGUGGCGAUUGAAGAUGCCGUGAUCGAACUUGGUCAGC
.(((...((((((((((.....))).((((...((((..(((((((((......(((.....)))((((......)))))))))))))..))))...))))......))).))))..))) ( -47.40)
>DroYak_CAF1 11725 120 + 1
CGCUCACCCAAUUCGGGGCACUGGCUGGCAAAGUCCGCGGCCACGCCCACCAUGUUCACAAAGAAGGGCGCAAAGGCCUGGGUGUGACGAUUGAAGAUGCCGUGAUCGAACUUGGUCAGC
.((...(((.....)))))....((((((.((((((((((((((((((......(((.....)))((((......))))))))))).(.......)..))))))...).)))).)))))) ( -41.40)
>DroMoj_CAF1 5253 120 + 1
ACCUUGCCCAGCUCUGGACACUGCCCGGCAAAGUCUGCGGCCAUGCCCAUCAGGCUCUCAAACAUGGGCGAGAAUCCUCGGGUGUGACGAUUGAAAAUGCCGUGAUCCAGUUUGGUGACC
.......((((..((((((((.....((((...((..((..(((((((.....((((........))))(((....)))))))))).))...))...))))))).))))).))))..... ( -40.80)
>DroAna_CAF1 9549 120 + 1
UUCUCACCUAGCUCUGGAGUUUCUGCAGCAAAAUCAGCUGCCACACCGACCAAGUUCUCGAAGAAAGGGGCGAAGCCUUUGGUGUGGCGGUUAAAAAUGCCAUGAUCCAGCUUGGUGAGA
.(((((((.((((..(((......(((........((((((((((((((((...(((.....))).))(((...))).)))))))))))))).....))).....))))))).))))))) ( -49.22)
>consensus
CGCUCACCCAAUUCGGGACACUCCCUGGCAAAGUCAGCGGCCACGCCCACCAUAUUCACAAAGAAGGGCGCAAAGGCCUGGGUGUGGCGAUUGAAGAUGCCGUGAUCGAACUUGGUCAGC
.(((.(((...(((.((.(((.....((((...((((..(((((((((......(((.....)))((((......)))))))))))))..))))...))))))).)))))...))).))) (-30.49 = -30.92 +   0.42)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 4

Location 21,102,230 – 21,102,350
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 80.50
Mean single sequence MFE -46.90
Consensus MFE -31.87
Energy contribution -31.85
Covariance contribution -0.02
Combinations/Pair 1.35
Mean z-score -1.64
Structure conservation index 0.68
SVM decision value 0.45
SVM RNA-class probability 0.740195
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21102230 120 - 27905053
GCUGACCAAGUUCGAUCACGGCAUCUUCAAUCGCCACACCCAGGCCUUUGCACCCUUCUUUGUGAAUACGGUGGGCGUGGCGGCUGACUUUGCCAGGGAGUGUCCCGAAUUGGGUGAGCG
(((.(((.(((((......((((...(((..((((((.(((..(((((..((........))..))...)))))).))))))..)))...)))).(((.....)))))))).))).))). ( -53.80)
>DroSec_CAF1 11264 120 - 1
GCUGACCAAGUUCGAUCACGGCAUCUUCAAUCGCCACACCCAGGCCUUUGCGCCCUGCUUUGUGAAUAUGGUGGGCGUGGCGGCUGACUUUGCCAGAGAGUGUCCAGAAUUGGGUGAGCG
(((.(((.(((((...(((((((...(((..((((((.(((..(((....(((........))).....)))))).))))))..)))...)))).....)))....))))).))).))). ( -49.00)
>DroSim_CAF1 11697 120 - 1
GCUGACCAAGUUCGAUCACGGCAUCUUCAAUCGCCACACCCAGGCCUUUGCGCCCUUCUUUGUGAAUACGGUGGGCGUGGCCGCUGACUUUGCCAGGGAGUGUCCCGAAUUGGGGGAGCG
(((..((.((((((..((((((..........)))...(((.((((...((((((....((((....)))).))))))))))((.......))..))).)))...)))))).))..))). ( -46.60)
>DroYak_CAF1 11725 120 - 1
GCUGACCAAGUUCGAUCACGGCAUCUUCAAUCGUCACACCCAGGCCUUUGCGCCCUUCUUUGUGAACAUGGUGGGCGUGGCCGCGGACUUUGCCAGCCAGUGCCCCGAAUUGGGUGAGCG
(((.(((.((((((..((((((....................((((...((((((..((.((....)).)).))))))))))..((......)).))).)))...)))))).))).))). ( -47.70)
>DroMoj_CAF1 5253 120 - 1
GGUCACCAAACUGGAUCACGGCAUUUUCAAUCGUCACACCCGAGGAUUCUCGCCCAUGUUUGAGAGCCUGAUGGGCAUGGCCGCAGACUUUGCCGGGCAGUGUCCAGAGCUGGGCAAGGU
(((((.((((((((.....(((..........))).....((((....)))).))).)))))...(((.....))).)))))....((((((((.(((..........))).)))))))) ( -39.80)
>DroAna_CAF1 9549 120 - 1
UCUCACCAAGCUGGAUCAUGGCAUUUUUAACCGCCACACCAAAGGCUUCGCCCCUUUCUUCGAGAACUUGGUCGGUGUGGCAGCUGAUUUUGCUGCAGAAACUCCAGAGCUAGGUGAGAA
(((((((.(((((((.....((..........((((((((...(((...)))((.(((.....)))...))..))))))))(((.......)))))......)))..)))).))))))). ( -44.50)
>consensus
GCUGACCAAGUUCGAUCACGGCAUCUUCAAUCGCCACACCCAGGCCUUUGCGCCCUUCUUUGUGAACAUGGUGGGCGUGGCCGCUGACUUUGCCAGGGAGUGUCCAGAAUUGGGUGAGCG
(((.(((.(((((...(((((((...(((.(.(((((.((((....((((((........)))))).....)))).))))).).)))...)))).....)))....))))).))).))). (-31.87 = -31.85 +  -0.02)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:57:03 2006