Locus 2571

Sequence ID X_DroMel_CAF1
Location 6,893,605 – 6,893,700
Length 95
Max. P 0.767114
window4201 window4202

overview

Window 1

Location 6,893,605 – 6,893,700
Length 95
Sequences 3
Columns 112
Reading direction forward
Mean pairwise identity 62.07
Mean single sequence MFE -22.64
Consensus MFE -8.91
Energy contribution -9.47
Covariance contribution 0.56
Combinations/Pair 1.13
Mean z-score -2.18
Structure conservation index 0.39
SVM decision value 0.14
SVM RNA-class probability 0.603856
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6893605 95 + 22224390
UGCACAGCAAGAAAAUAUUAGGUGAUAU-CCUUGUUCAGCA------------UUUACAUUUCUUCUAUUUUUA----UAUAUUUCUAUUCUCACAGUGUAGCUGUGCAUUA
((((((((..(((((((..(((......-...((.....))------------........)))..))))))).----((((((...........))))))))))))))... ( -18.63)
>DroSec_CAF1 17909 95 + 1
UGCACAGCAAGAAAAUAUUAGGAGGUAC-CCUUGUUCUAUA------------UAUAUAUAUAUGUCCUUGUUA----UAUAUAUUUUUUCUUACAGUGUAGCUGUGCAUUA
(((((((((((((((((((((((.(...-...).))))).)------------)))(((((((((.......))----)))))))..))))))........))))))))... ( -23.10)
>DroYak_CAF1 20527 104 + 1
UGCACUCCAAGAAUAUAUUAAGUGCAAUCCCUUGUUCGGCCCCGUAACAAUAUCAA--------UCAAUUGAUAUCAGCAGUGUGGUUUUCUUGCAGUGUAGCUGUGCAUUG
((((((.((((((.((....(.(((.......((((((....)).))))(((((((--------....)))))))..))).)...)).)))))).))))))........... ( -26.20)
>consensus
UGCACAGCAAGAAAAUAUUAGGUGAUAU_CCUUGUUCAGCA____________UAUA_AU_U_UUCAAUUGUUA____UAUAUUUCUUUUCUUACAGUGUAGCUGUGCAUUA
((((((((..........((((........))))..........................................................(((...)))))))))))... ( -8.91 =  -9.47 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 6,893,605 – 6,893,700
Length 95
Sequences 3
Columns 112
Reading direction reverse
Mean pairwise identity 62.07
Mean single sequence MFE -21.63
Consensus MFE -8.42
Energy contribution -8.87
Covariance contribution 0.45
Combinations/Pair 1.08
Mean z-score -2.35
Structure conservation index 0.39
SVM decision value 0.52
SVM RNA-class probability 0.767114
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6893605 95 - 22224390
UAAUGCACAGCUACACUGUGAGAAUAGAAAUAUA----UAAAAAUAGAAGAAAUGUAAA------------UGCUGAACAAGG-AUAUCACCUAAUAUUUUCUUGCUGUGCA
...((((((((....((((....(((....))).----.....))))(((((((((...------------......)))(((-......))).....)))))))))))))) ( -20.10)
>DroSec_CAF1 17909 95 - 1
UAAUGCACAGCUACACUGUAAGAAAAAAUAUAUA----UAACAAGGACAUAUAUAUAUA------------UAUAGAACAAGG-GUACCUCCUAAUAUUUUCUUGCUGUGCA
...((((((((........(((((((.(((((((----((.........))))))))).------------.........(((-(....))))....))))))))))))))) ( -22.20)
>DroYak_CAF1 20527 104 - 1
CAAUGCACAGCUACACUGCAAGAAAACCACACUGCUGAUAUCAAUUGA--------UUGAUAUUGUUACGGGGCCGAACAAGGGAUUGCACUUAAUAUAUUCUUGGAGUGCA
.............((((.((((((..((.....((.((((((((....--------))))))))))....)).((......))................)))))).)))).. ( -22.60)
>consensus
UAAUGCACAGCUACACUGUAAGAAAAAAAAUAUA____UAACAAUAGAA_A_AU_UAUA____________UGCAGAACAAGG_AUACCACCUAAUAUUUUCUUGCUGUGCA
...((((((((....(.....)..........................................................(((.......)))...........)))))))) ( -8.42 =  -8.87 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:38:02 2006