Locus 4838

Sequence ID 2R_DroMel_CAF1
Location 15,881,031 – 15,881,126
Length 95
Max. P 0.849670
window7775 window7776

overview

Window 5

Location 15,881,031 – 15,881,126
Length 95
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 82.48
Mean single sequence MFE -23.20
Consensus MFE -18.28
Energy contribution -18.03
Covariance contribution -0.25
Combinations/Pair 1.15
Mean z-score -2.15
Structure conservation index 0.79
SVM decision value 0.78
SVM RNA-class probability 0.849670
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15881031 95 + 20766785
CCUUUUCCUUU-------UGCUUUUCUUUUUCCAUGCUGCCCCGAAGACAUCUUUGUCCU---CCUAAAGACGCUUGACAGGCAAUUGUCUUAUGU---GGCAUGCAA
...........-------................(((((((.((((((((((((((....---..)))))).(((.....)))...)))))).)).---)))).))). ( -22.00)
>DroSec_CAF1 18171 98 + 1
CCUUUUCCUUU-------UGCUUUUCUUUUUCCAUGCUGCCCCGAAGACAUCUUUGUCCU---CCUAAAGACGCUUGACAGGCAAUUGUCUUAUGUGGUGGCAUGCAA
...........-------..............(((((..((.((((((((((((((....---..)))))).(((.....)))...)))))).)).))..)))))... ( -25.90)
>DroSim_CAF1 15589 95 + 1
CCUUUUCCUUU-------UGCUUUUCUUUUUCCAUGCUGCCCCGAAGACAUCUUUGUCCU---CCUAAAGACGCUUGACAGGCAAUUGUCUUAUGU---GGCAUGCAA
...........-------................(((((((.((((((((((((((....---..)))))).(((.....)))...)))))).)).---)))).))). ( -22.00)
>DroEre_CAF1 15916 102 + 1
CCUUUUCGUUUUGCUCCUCGCUUUCCUUUUGCCAUGCUGCCCCAAAGACAUCUUUGUCCU---CCUAAAGGCGCUUGACAGGCAAUUGUCUUAUGU---GGCAUGCAA
............((.....)).............(((((((.((((((((..(((((((.---((....)).)...))))))....)))))).)).---)))).))). ( -22.30)
>DroYak_CAF1 18551 97 + 1
CCUUUU-----UCCUUUUUGCUUUUCUUUUACCAUGCUGCCCCGCAGACAUCUUUGUCCU---GCUAAAGACGCUUGACAGGCAAUUGUCUUAUGU---GGCAUGCAA
......-----.....................(((((..(...(((((((....))).))---))..((((((.(((.....))).))))))..).---.)))))... ( -24.00)
>DroPer_CAF1 13017 87 + 1
CCUUU-CUGGC-------CGCU--------GC--CGCUGCCCCCCAGAUGUCUUUGUCUUUUUGCUAAAGACGCUUGACAGCCAAUUGUCUUAUGU---GGCAUGCAA
((...-..)).-------.(((--------((--(((........((.((((((((.(.....).)))))))))).(((((....)))))....))---)))).)).. ( -23.00)
>consensus
CCUUUUCCUUU_______UGCUUUUCUUUUUCCAUGCUGCCCCGAAGACAUCUUUGUCCU___CCUAAAGACGCUUGACAGGCAAUUGUCUUAUGU___GGCAUGCAA
..................................(((((((.....((((....)))).........((((((.(((.....))).)))))).......)))).))). (-18.28 = -18.03 +  -0.25)

alignment

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secondary structure

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dotplot

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Window 6

Location 15,881,031 – 15,881,126
Length 95
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 82.48
Mean single sequence MFE -24.32
Consensus MFE -17.03
Energy contribution -17.08
Covariance contribution 0.06
Combinations/Pair 1.10
Mean z-score -1.69
Structure conservation index 0.70
SVM decision value 0.17
SVM RNA-class probability 0.619139
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15881031 95 - 20766785
UUGCAUGCC---ACAUAAGACAAUUGCCUGUCAAGCGUCUUUAGG---AGGACAAAGAUGUCUUCGGGGCAGCAUGGAAAAAGAAAAGCA-------AAAGGAAAAGG
.(((.((((---....(((((..(((.....)))..)))))...(---((((((....)))))))..)))))))................-------........... ( -22.40)
>DroSec_CAF1 18171 98 - 1
UUGCAUGCCACCACAUAAGACAAUUGCCUGUCAAGCGUCUUUAGG---AGGACAAAGAUGUCUUCGGGGCAGCAUGGAAAAAGAAAAGCA-------AAAGGAAAAGG
.(((.((((.((....(((((..(((.....)))..)))))...(---((((((....))))))))))))))))................-------........... ( -25.50)
>DroSim_CAF1 15589 95 - 1
UUGCAUGCC---ACAUAAGACAAUUGCCUGUCAAGCGUCUUUAGG---AGGACAAAGAUGUCUUCGGGGCAGCAUGGAAAAAGAAAAGCA-------AAAGGAAAAGG
.(((.((((---....(((((..(((.....)))..)))))...(---((((((....)))))))..)))))))................-------........... ( -22.40)
>DroEre_CAF1 15916 102 - 1
UUGCAUGCC---ACAUAAGACAAUUGCCUGUCAAGCGCCUUUAGG---AGGACAAAGAUGUCUUUGGGGCAGCAUGGCAAAAGGAAAGCGAGGAGCAAAACGAAAAGG
.....((((---(.....((((......))))..(((((((...(---((((((....)))))))))))).)).)))))........((.....))............ ( -27.20)
>DroYak_CAF1 18551 97 - 1
UUGCAUGCC---ACAUAAGACAAUUGCCUGUCAAGCGUCUUUAGC---AGGACAAAGAUGUCUGCGGGGCAGCAUGGUAAAAGAAAAGCAAAAAGGA-----AAAAGG
.(((.((((---.(...(((((.(((((((..(((....)))..)---))).)))...)))))...)))))))).......................-----...... ( -23.80)
>DroPer_CAF1 13017 87 - 1
UUGCAUGCC---ACAUAAGACAAUUGGCUGUCAAGCGUCUUUAGCAAAAAGACAAAGACAUCUGGGGGGCAGCG--GC--------AGCG-------GCCAG-AAAGG
..((.((((---.(...(((......(((....)))((((((..(.....)..)))))).)))...)))))))(--((--------....-------)))..-..... ( -24.60)
>consensus
UUGCAUGCC___ACAUAAGACAAUUGCCUGUCAAGCGUCUUUAGG___AGGACAAAGAUGUCUUCGGGGCAGCAUGGAAAAAGAAAAGCA_______AAAGGAAAAGG
.(((.((((.........((((......))))..((((((((.(........)))))))))......))))))).................................. (-17.03 = -17.08 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:30:32 2006