Locus 5853

Sequence ID X_DroMel_CAF1
Location 15,114,188 – 15,114,285
Length 97
Max. P 0.999157
window9494 window9495

overview

Window 4

Location 15,114,188 – 15,114,285
Length 97
Sequences 4
Columns 102
Reading direction forward
Mean pairwise identity 76.96
Mean single sequence MFE -17.43
Consensus MFE -9.62
Energy contribution -10.12
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -2.63
Structure conservation index 0.55
SVM decision value 1.95
SVM RNA-class probability 0.983520
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15114188 97 + 22224390
GCCUCCGCCCCUCCUCUCAGCCAAUUUAACUUGGCUAAUUUGCAUGUACA-AUAUAUGUAUAUAAAUUCAUAUAUACUUUUG----CCGUCUAGACGCAGCU
......((..........((((((......))))))....(((.......-......(((((((......))))))).....----..((....))))))). ( -16.10)
>DroSec_CAF1 25914 86 + 1
------UCUCCUCUUCUCAGCCAAUUUAACUUGGCUAAUUUGCAUGUA----------UAUAUAAAUUCAUAUAUAUAUGUAUACUUCGUCUAGACGCAGCU
------............((((((......))))))....((((((((----------(((((......)))))))))))))..((.(((....))).)).. ( -20.80)
>DroEre_CAF1 33080 88 + 1
---GC-CACUCUCUUCUCAGCCAAUUUAACUUGGCUAAUUUGCAUGUA----C--AUACAUACACAUGCACAUAUACUUUUG----CCGUCUAGACGCAGCC
---..-............((((((......))))))....(((((((.----.--........))))))).........(((----(.((....)))))).. ( -16.90)
>DroYak_CAF1 32993 97 + 1
GCCCC-CCCCCUCUUAUCAGCCAAUUUAACUUGGCUAAUUUGCAAGUAUGUACAUAUACAUAUACAUUCAUAUAUACUUUUG----CCGUCUAGACGCAGCU
.....-............((((((......)))))).....((..(((((((....))))))).................((----(.((....))))))). ( -15.90)
>consensus
____C_CCCCCUCUUCUCAGCCAAUUUAACUUGGCUAAUUUGCAUGUA____C__AUACAUAUAAAUUCAUAUAUACUUUUG____CCGUCUAGACGCAGCU
..................((((((......))))))...((((................(((((......))))).............((....)))))).. ( -9.62 = -10.12 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 15,114,188 – 15,114,285
Length 97
Sequences 4
Columns 102
Reading direction reverse
Mean pairwise identity 76.96
Mean single sequence MFE -25.30
Consensus MFE -15.88
Energy contribution -15.38
Covariance contribution -0.50
Combinations/Pair 1.20
Mean z-score -2.96
Structure conservation index 0.63
SVM decision value 3.40
SVM RNA-class probability 0.999157
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15114188 97 - 22224390
AGCUGCGUCUAGACGG----CAAAAGUAUAUAUGAAUUUAUAUACAUAUAU-UGUACAUGCAAAUUAGCCAAGUUAAAUUGGCUGAGAGGAGGGGCGGAGGC
..((.(((((...(.(----((.....(((((((.((....)).)))))))-......)))...((((((((......))))))))..)...))))).)).. ( -26.90)
>DroSec_CAF1 25914 86 - 1
AGCUGCGUCUAGACGAAGUAUACAUAUAUAUAUGAAUUUAUAUA----------UACAUGCAAAUUAGCCAAGUUAAAUUGGCUGAGAAGAGGAGA------
..((.(.(((.......((((...((((((((......))))))----------)).))))...((((((((......))))))))..))).))).------ ( -20.40)
>DroEre_CAF1 33080 88 - 1
GGCUGCGUCUAGACGG----CAAAAGUAUAUGUGCAUGUGUAUGUAU--G----UACAUGCAAAUUAGCCAAGUUAAAUUGGCUGAGAAGAGAGUG-GC---
.((..(.(((......----........((((((((((......)))--)----))))))....((((((((......))))))))....))))..-))--- ( -26.40)
>DroYak_CAF1 32993 97 - 1
AGCUGCGUCUAGACGG----CAAAAGUAUAUAUGAAUGUAUAUGUAUAUGUACAUACUUGCAAAUUAGCCAAGUUAAAUUGGCUGAUAAGAGGGGG-GGGGC
.(((.(.(((.....(----(((..(((((((((.((....)).)))))))))....))))..(((((((((......))))))))).....))).-).))) ( -27.50)
>consensus
AGCUGCGUCUAGACGG____CAAAAGUAUAUAUGAAUGUAUAUAUAU__G____UACAUGCAAAUUAGCCAAGUUAAAUUGGCUGAGAAGAGGGGG_G____
.((..(((....)))..........(((((((......)))))))..............))...((((((((......))))))))................ (-15.88 = -15.38 +  -0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:57:55 2006