Locus 2436

Sequence ID 3R_DroMel_CAF1
Location 6,772,563 – 6,772,654
Length 91
Max. P 0.780204
window3975 window3976

overview

Window 5

Location 6,772,563 – 6,772,654
Length 91
Sequences 4
Columns 101
Reading direction forward
Mean pairwise identity 83.13
Mean single sequence MFE -23.85
Consensus MFE -15.07
Energy contribution -15.33
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -2.04
Structure conservation index 0.63
SVM decision value 0.50
SVM RNA-class probability 0.759809
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6772563 91 + 27905053
AUAUAUAUGUGUAUGUAGUACUACUAUA----------UAUGUAUAUGAGGGCAAAAAGUUGCGAGUGUUUGUCAUGUGCCAUCACUUCCAACUGCUUUGG
...((((((..(((((((.....)))))----------))..))))))....((((.(((((.(((((..((.(....).)).))))).)))))..)))). ( -25.80)
>DroSec_CAF1 36829 89 + 1
AUA--UUUGUAUAUGUAGUACUACUAUA----------UAUGUAUAUGAGGGCAAAAAGUUGCGAGUGUUUGUCAUGUGCCAACACUUCCAACUGCUUUGG
.((--(.(((((((((((.....)))))----------)))))).)))....((((.(((((.(((((((.((.....)).))))))).)))))..)))). ( -23.60)
>DroEre_CAF1 21816 82 + 1
AUA--UAUAUGCAUGUGGUACCC-UAU----------------AUAUGAGGGCAAAAAGUUGCGAGUGUUUGUCAUGUGCCAACACUUUCAACUGCUUUGG
...--...............(((-(..----------------.....))))((((.(((((.(((((((.((.....)).))))))).)))))..)))). ( -20.40)
>DroYak_CAF1 33955 98 + 1
AUA--CGUAUGUAUGUGGCACUA-UAUAUGUAUGAAGGUAUGUAUAUGAGGGCAAAAAGUUGCGAGUGUUUGUCAUGUGCCAACACUUUCAACUGCUUUGG
...--((((((((((((....))-))))))))))..................((((.(((((.(((((((.((.....)).))))))).)))))..)))). ( -25.60)
>consensus
AUA__UAUAUGUAUGUAGUACUA_UAUA__________UAUGUAUAUGAGGGCAAAAAGUUGCGAGUGUUUGUCAUGUGCCAACACUUCCAACUGCUUUGG
....................................................((((.(((((.(((((((.((.....)).))))))).)))))..)))). (-15.07 = -15.33 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 6,772,563 – 6,772,654
Length 91
Sequences 4
Columns 101
Reading direction reverse
Mean pairwise identity 83.13
Mean single sequence MFE -16.80
Consensus MFE -13.07
Energy contribution -13.33
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -1.77
Structure conservation index 0.78
SVM decision value 0.56
SVM RNA-class probability 0.780204
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6772563 91 - 27905053
CCAAAGCAGUUGGAAGUGAUGGCACAUGACAAACACUCGCAACUUUUUGCCCUCAUAUACAUA----------UAUAGUAGUACUACAUACACAUAUAUAU
.(((((.(((((..((((.((........))..))))..))))))))))...........(((----------((((((.(((.....))))).))))))) ( -14.60)
>DroSec_CAF1 36829 89 - 1
CCAAAGCAGUUGGAAGUGUUGGCACAUGACAAACACUCGCAACUUUUUGCCCUCAUAUACAUA----------UAUAGUAGUACUACAUAUACAAA--UAU
.(((((.(((((..((((((..(....)...))))))..))))))))))............((----------(((.(((....))))))))....--... ( -16.10)
>DroEre_CAF1 21816 82 - 1
CCAAAGCAGUUGAAAGUGUUGGCACAUGACAAACACUCGCAACUUUUUGCCCUCAUAU----------------AUA-GGGUACCACAUGCAUAUA--UAU
.....(((((((..((((((..(....)...))))))..))))....((((((.....----------------..)-))))).....))).....--... ( -21.10)
>DroYak_CAF1 33955 98 - 1
CCAAAGCAGUUGAAAGUGUUGGCACAUGACAAACACUCGCAACUUUUUGCCCUCAUAUACAUACCUUCAUACAUAUA-UAGUGCCACAUACAUACG--UAU
.(((((.(((((..((((((..(....)...))))))..))))))))))...................((((.(((.-((........)).))).)--))) ( -15.40)
>consensus
CCAAAGCAGUUGAAAGUGUUGGCACAUGACAAACACUCGCAACUUUUUGCCCUCAUAUACAUA__________UAUA_UAGUACCACAUACACAUA__UAU
.(((((.(((((..((((((..(....)...))))))..)))))))))).................................................... (-13.07 = -13.33 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:36:02 2006