Locus 5460

Sequence ID 2R_DroMel_CAF1
Location 17,587,981 – 17,588,079
Length 98
Max. P 0.996354
window8715 window8716

overview

Window 5

Location 17,587,981 – 17,588,079
Length 98
Sequences 3
Columns 112
Reading direction forward
Mean pairwise identity 76.07
Mean single sequence MFE -39.87
Consensus MFE -23.11
Energy contribution -25.37
Covariance contribution 2.26
Combinations/Pair 1.14
Mean z-score -2.27
Structure conservation index 0.58
SVM decision value 1.41
SVM RNA-class probability 0.951451
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17587981 98 + 20766785
CACACGCACGCG-------CCAGCAGUGAGUGGGAGAGAGCGAGAGAGAGCACAGCUGCCGCCGGUGCAUGUCAUUGCUGUGUGUGCGU-------GUGUGGGUGAACUUGA
((((((((((((-------(.((((((((((((.((...((........))....)).)))).........))))))))))))))))))-------))).(((....))).. ( -43.70)
>DroEre_CAF1 3918 96 + 1
CACACACACGCA-------UAAGCGGAGAGUGGGAGAGAGCGAGAGAGAGCACAGCUGUCGCCGGUGCAUGUGAGUGCUA---------CGUGUGUGUGUGCGUGAACUUGU
(((.((((((((-------(..(((.......((.((.(((.............))).)).))((..(......)..)).---------)))))))))))).)))....... ( -32.52)
>DroYak_CAF1 4002 109 + 1
CAAACACACACACACACGACAAGCAGAGAGUGUGAGAGAGCGAGAGAGAGCACAGCUGUCGCCGGUGCAUGUGAGUGCUGCCUGUG---CGUGUGUGUGUGCGUGAACUUGA
...((.(((((((((((((((.((((...(..((...(.((((.((.........)).)))))....))..).....)))).))).---)))))))))))).))........ ( -43.40)
>consensus
CACACACACGCA_______CAAGCAGAGAGUGGGAGAGAGCGAGAGAGAGCACAGCUGUCGCCGGUGCAUGUGAGUGCUG__UGUG___CGUGUGUGUGUGCGUGAACUUGA
(((.(((((((((((.......(((..(.((((.((...((........))....)).)))))..)))..((....))............))))))))))).)))....... (-23.11 = -25.37 +   2.26)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 17,587,981 – 17,588,079
Length 98
Sequences 3
Columns 112
Reading direction reverse
Mean pairwise identity 76.07
Mean single sequence MFE -35.28
Consensus MFE -19.04
Energy contribution -19.82
Covariance contribution 0.78
Combinations/Pair 1.05
Mean z-score -3.30
Structure conservation index 0.54
SVM decision value 2.69
SVM RNA-class probability 0.996354
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17587981 98 - 20766785
UCAAGUUCACCCACAC-------ACGCACACACAGCAAUGACAUGCACCGGCGGCAGCUGUGCUCUCUCUCGCUCUCUCCCACUCACUGCUGG-------CGCGUGCGUGUG
.............(((-------((((((.....(((......)))....(((.((((.(((......................))).)))).-------)))))))))))) ( -33.15)
>DroEre_CAF1 3918 96 - 1
ACAAGUUCACGCACACACACACG---------UAGCACUCACAUGCACCGGCGACAGCUGUGCUCUCUCUCGCUCUCUCCCACUCUCCGCUUA-------UGCGUGUGUGUG
.............((((((((((---------.(((........((((.(((....)))))))........)))).............((...-------.))))))))))) ( -27.59)
>DroYak_CAF1 4002 109 - 1
UCAAGUUCACGCACACACACACG---CACAGGCAGCACUCACAUGCACCGGCGACAGCUGUGCUCUCUCUCGCUCUCUCACACUCUCUGCUUGUCGUGUGUGUGUGUGUUUG
........(((((((((((((((---.((((((((.........((((.(((....)))))))........(........).....)))))))))))))))))))))))... ( -45.10)
>consensus
UCAAGUUCACGCACACACACACG___CACA__CAGCACUCACAUGCACCGGCGACAGCUGUGCUCUCUCUCGCUCUCUCCCACUCUCUGCUUG_______UGCGUGUGUGUG
.......(((((((((.................(((........((((.(((....)))))))........)))..............((...........))))))))))) (-19.04 = -19.82 +   0.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:45:29 2006