Locus 6894

Sequence ID 3R_DroMel_CAF1
Location 18,221,364 – 18,221,461
Length 97
Max. P 0.919044
window11193 window11194

overview

Window 3

Location 18,221,364 – 18,221,461
Length 97
Sequences 3
Columns 97
Reading direction forward
Mean pairwise identity 94.50
Mean single sequence MFE -22.20
Consensus MFE -20.11
Energy contribution -19.90
Covariance contribution -0.21
Combinations/Pair 1.12
Mean z-score -1.67
Structure conservation index 0.91
SVM decision value -0.00
SVM RNA-class probability 0.532438
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18221364 97 + 27905053
AAUAUCUAGCUUAGUACAUUUUAUUUGUGCAGUAAAUCAUAGUAUAGUACUUCCAGUGGAUUUGUGCAGUGUAGAAUUGGCAGUACUAUCUUGGUAU
.............(((((.......))))).....((((.((.((((((((.(((((..((.........))...))))).)))))))))))))).. ( -21.10)
>DroSec_CAF1 23436 97 + 1
AAUAUUCAGCUUAGUACAUUUUAUUUAUGCAGUAAGUCAUAUUGUAGUACUACCAGUAGAUUUGUGCAGUGUAGAAUUGGCAGUACUAUCUUGGUAU
.....((((..(((((((((((((...((((.((((((.(((((((....)).)))))))))))))))..))))))).....))))))..))))... ( -22.90)
>DroSim_CAF1 24317 97 + 1
AAUAUUCAGCUUAGUACAUUUUAUUUAUGCAGUAAGUCAUAUUGUAGUACUACCAGUGGAUUUGUGCAGUGUAGAAUUGGCAGUACUAUCUUGGUAU
.....((((..(((((((((((((...((((.((((((.(((((((....)).)))))))))))))))..))))))).....))))))..))))... ( -22.60)
>consensus
AAUAUUCAGCUUAGUACAUUUUAUUUAUGCAGUAAGUCAUAUUGUAGUACUACCAGUGGAUUUGUGCAGUGUAGAAUUGGCAGUACUAUCUUGGUAU
.....((((..(((((((((((((...((((.((((((.(((((.........)))))))))))))))..))))))).....))))))..))))... (-20.11 = -19.90 +  -0.21)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 18,221,364 – 18,221,461
Length 97
Sequences 3
Columns 97
Reading direction reverse
Mean pairwise identity 94.50
Mean single sequence MFE -16.95
Consensus MFE -15.54
Energy contribution -15.98
Covariance contribution 0.45
Combinations/Pair 1.05
Mean z-score -2.40
Structure conservation index 0.92
SVM decision value 1.13
SVM RNA-class probability 0.919044
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18221364 97 - 27905053
AUACCAAGAUAGUACUGCCAAUUCUACACUGCACAAAUCCACUGGAAGUACUAUACUAUGAUUUACUGCACAAAUAAAAUGUACUAAGCUAGAUAUU
........((((((((.(((......................))).)))))))).(((.(.((((.((((.........)))).))))))))..... ( -12.75)
>DroSec_CAF1 23436 97 - 1
AUACCAAGAUAGUACUGCCAAUUCUACACUGCACAAAUCUACUGGUAGUACUACAAUAUGACUUACUGCAUAAAUAAAAUGUACUAAGCUGAAUAUU
.........(((((((((((......................))))))))))).(((((..((((.(((((.......))))).))))....))))) ( -19.05)
>DroSim_CAF1 24317 97 - 1
AUACCAAGAUAGUACUGCCAAUUCUACACUGCACAAAUCCACUGGUAGUACUACAAUAUGACUUACUGCAUAAAUAAAAUGUACUAAGCUGAAUAUU
.........(((((((((((......................))))))))))).(((((..((((.(((((.......))))).))))....))))) ( -19.05)
>consensus
AUACCAAGAUAGUACUGCCAAUUCUACACUGCACAAAUCCACUGGUAGUACUACAAUAUGACUUACUGCAUAAAUAAAAUGUACUAAGCUGAAUAUU
.........(((((((((((......................)))))))))))........((((.(((((.......))))).))))......... (-15.54 = -15.98 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:32:43 2006