Locus 1171

Sequence ID X_DroMel_CAF1
Location 3,489,689 – 3,489,818
Length 129
Max. P 0.825904
window1877 window1878

overview

Window 7

Location 3,489,689 – 3,489,784
Length 95
Sequences 3
Columns 95
Reading direction forward
Mean pairwise identity 84.06
Mean single sequence MFE -19.60
Consensus MFE -17.26
Energy contribution -16.93
Covariance contribution -0.33
Combinations/Pair 1.14
Mean z-score -1.12
Structure conservation index 0.88
SVM decision value -0.01
SVM RNA-class probability 0.528246
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3489689 95 + 22224390
CCAACUAUAGUUUCACCAUUGAACAGACACUCUUUUGGAAUUCUGUCAACGAAAUUCCUACAUCUCUGGACGCACUCAAUUAUGGCGCCUUGUCC
.........((((.......)))).((((.......((((((.((....)).)))))).........((.(((.(........)))))).)))). ( -15.30)
>DroSec_CAF1 50253 86 + 1
-------CAGUUUCGCAGUUGAACAGA--CUCUUUUGGGAUUCUGUCAACGGAAUUCCUUCAUCUUUGGACGCUCCUAAUUAUGGCGCCUCGUCC
-------..........(((((.((((--.(((....))).)))))))))((....)).........((((((.((.......)).))...)))) ( -21.10)
>DroSim_CAF1 44667 86 + 1
-------UAGUUUCGCAGUUGAACAGA--CUCUUUUGGGAUUCCGUCAACGGAAUUCCUUCAUCUUUGGACGCACUCAAUUAUGGCGCCUCGUCC
-------..((((.......)))).((--(......(((((((((....))))))))).........((.(((.(........))))))..))). ( -22.40)
>consensus
_______UAGUUUCGCAGUUGAACAGA__CUCUUUUGGGAUUCUGUCAACGGAAUUCCUUCAUCUUUGGACGCACUCAAUUAUGGCGCCUCGUCC
.........((((.......))))............(((((((((....))))))))).........((((((.((.......)).))...)))) (-17.26 = -16.93 +  -0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 3,489,724 – 3,489,818
Length 94
Sequences 4
Columns 94
Reading direction reverse
Mean pairwise identity 89.80
Mean single sequence MFE -23.69
Consensus MFE -18.58
Energy contribution -18.70
Covariance contribution 0.12
Combinations/Pair 1.10
Mean z-score -1.97
Structure conservation index 0.78
SVM decision value 0.70
SVM RNA-class probability 0.825904
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3489724 94 - 22224390
GGGGAUUGACAAACGAGAUGACGAGAAAAGCGAAGGACAAGGCGCCAUAAUUGAGUGCGUCCAGAGAUGUAGGAAUUUCGUUGACAGAAUUCCA
.((((((....((((((((..(........(...((((...((((((....)).)))))))).).......)..)))))))).....)))))). ( -24.66)
>DroSec_CAF1 50279 89 - 1
GGGGAUUGACAAACG--AUGACGAGAAAA---AAGGACGAGGCGCCAUAAUUAGGAGCGUCCAAAGAUGAAGGAAUUCCGUUGACAGAAUCCCA
.((((((....(((.--............---..(((((.....((.......))..))))).........((....))))).....)))))). ( -21.30)
>DroSim_CAF1 44693 89 - 1
GGGGAUUGACAAACG--AUGACGAGAAAA---AAGGACGAGGCGCCAUAAUUGAGUGCGUCCAAAGAUGAAGGAAUUCCGUUGACGGAAUCCCA
.((((..........--............---..((((...((((((....)).)))))))).............(((((....))))))))). ( -23.20)
>DroEre_CAF1 53267 89 - 1
GGGGAUUGACAAACG--AUGGGGAGAAAA---AUGGACAAGGCGCCAUAAUUGAGUGCGUCCAAAGAUGCAGGAAUUCCGUUGACUGAAUCCCA
.((((((..((..((--((((((......---((((........)))).......((((((....))))))....))))))))..)))))))). ( -25.60)
>consensus
GGGGAUUGACAAACG__AUGACGAGAAAA___AAGGACAAGGCGCCAUAAUUGAGUGCGUCCAAAGAUGAAGGAAUUCCGUUGACAGAAUCCCA
.((((((....(((....................((((...((((((....)).)))))))).........((....))))).....)))))). (-18.58 = -18.70 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:02:59 2006