Locus 5401

Sequence ID X_DroMel_CAF1
Location 14,051,977 – 14,052,068
Length 91
Max. P 0.763244
window8764 window8765

overview

Window 4

Location 14,051,977 – 14,052,068
Length 91
Sequences 4
Columns 100
Reading direction forward
Mean pairwise identity 82.72
Mean single sequence MFE -17.70
Consensus MFE -12.60
Energy contribution -13.35
Covariance contribution 0.75
Combinations/Pair 1.00
Mean z-score -1.81
Structure conservation index 0.71
SVM decision value 0.51
SVM RNA-class probability 0.763244
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14051977 91 + 22224390
UGGCGGAAGGACCUGCCAAACAGCUGUUCAAGUCUCAAUGCAAUGAUAAAAAAAACAGCGACUACACUGACAAAUAUGUGUGCACAUA---------AAA
((((((......))))))....((((((......(((......))).......))))))...(((((..........)))))......---------... ( -19.12)
>DroSec_CAF1 20397 91 + 1
UGGCGGAAGGACCUGCCAAACAGCUGUUCAAGUCUCAAUGCAAUGAUAAAAAAAACAGCGACUACACUGAAAAAAAUGUAAGCGUGUA---------AAA
((((((......))))))....((((((......(((......))).......))))))...(((((................)))))---------... ( -18.61)
>DroEre_CAF1 20782 100 + 1
UGGCGGAAGGACCUGCCAAACAGCUGUUCCAGUCUCAAUGCAAUAAUAAAAAAACCAGCAGCUACACAGACAAAAAUGUAUAGCUAUAUAGAUAAAAAGA
((((((......))))))....((((.............................))))(((((.(((........))).)))))............... ( -19.05)
>DroYak_CAF1 20292 91 + 1
UGGCGGAAGGACCUGCCAAACAGCUGUUCAAGUCUCAAUACAAUGACAAAUAAACCAGCAACUACACUGACACAAAUUUAAAACUAUA---------AGA
((((((......))))))....((((.....(((..........)))........)))).............................---------... ( -14.02)
>consensus
UGGCGGAAGGACCUGCCAAACAGCUGUUCAAGUCUCAAUGCAAUGAUAAAAAAAACAGCAACUACACUGACAAAAAUGUAAACCUAUA_________AAA
((((((......))))))....((((((......(((......))).......))))))......................................... (-12.60 = -13.35 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 14,051,977 – 14,052,068
Length 91
Sequences 4
Columns 100
Reading direction reverse
Mean pairwise identity 82.72
Mean single sequence MFE -21.25
Consensus MFE -14.69
Energy contribution -15.50
Covariance contribution 0.81
Combinations/Pair 1.05
Mean z-score -1.61
Structure conservation index 0.69
SVM decision value 0.11
SVM RNA-class probability 0.588881
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14051977 91 - 22224390
UUU---------UAUGUGCACACAUAUUUGUCAGUGUAGUCGCUGUUUUUUUUAUCAUUGCAUUGAGACUUGAACAGCUGUUUGGCAGGUCCUUCCGCCA
...---------....((((((((....)))..)))))...(((((((......(((......))).....)))))))....((((.((.....)))))) ( -22.10)
>DroSec_CAF1 20397 91 - 1
UUU---------UACACGCUUACAUUUUUUUCAGUGUAGUCGCUGUUUUUUUUAUCAUUGCAUUGAGACUUGAACAGCUGUUUGGCAGGUCCUUCCGCCA
..(---------(((((................))))))..(((((((......(((......))).....)))))))....((((.((.....)))))) ( -21.19)
>DroEre_CAF1 20782 100 - 1
UCUUUUUAUCUAUAUAGCUAUACAUUUUUGUCUGUGUAGCUGCUGGUUUUUUUAUUAUUGCAUUGAGACUGGAACAGCUGUUUGGCAGGUCCUUCCGCCA
...............(((((((((........)))))))))((((.((((....(((......)))....))))))))....((((.((.....)))))) ( -23.00)
>DroYak_CAF1 20292 91 - 1
UCU---------UAUAGUUUUAAAUUUGUGUCAGUGUAGUUGCUGGUUUAUUUGUCAUUGUAUUGAGACUUGAACAGCUGUUUGGCAGGUCCUUCCGCCA
...---------.((((((............((((......))))(((((..(.(((......))).)..))))))))))).((((.((.....)))))) ( -18.70)
>consensus
UCU_________UAUAGGCAUACAUUUUUGUCAGUGUAGUCGCUGGUUUUUUUAUCAUUGCAUUGAGACUUGAACAGCUGUUUGGCAGGUCCUUCCGCCA
....................(((((........)))))...(((((((......(((......))).....)))))))....((((.((.....)))))) (-14.69 = -15.50 +   0.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:47:05 2006