Locus 8555

Sequence ID 3L_DroMel_CAF1
Location 22,332,724 – 22,332,818
Length 94
Max. P 0.817660
window14023 window14024

overview

Window 3

Location 22,332,724 – 22,332,818
Length 94
Sequences 3
Columns 94
Reading direction forward
Mean pairwise identity 98.58
Mean single sequence MFE -17.90
Consensus MFE -17.40
Energy contribution -17.40
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.87
Structure conservation index 0.97
SVM decision value 0.67
SVM RNA-class probability 0.817660
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22332724 94 + 23771897
CUCUCCACACGACCAAGUGUUUGGAAUUUCAUUAAUAUUUUAUUACUUUUUUUCUCGCUCUCUUCCUGUGGAAGAUGCGUUGUGUUCUUGAAUU
.((...(((((((.(((((..((((((.........)))))).)))))........((..((((((...)))))).)))))))))....))... ( -18.90)
>DroSim_CAF1 218 93 + 1
CUCUCCACACGACCAAGUGUUUGGAAUUUCAUUAAUAUUUUAUUACUUU-UUUCUCGCUCUCUUCCUGUGGAAGCUGCGUUGUGUUCUUGAAUU
.((...(((((((.(((((..((((((.........)))))).))))).-......((...(((((...)))))..)))))))))....))... ( -17.40)
>DroEre_CAF1 208 93 + 1
CUCUCCACACGACCAAGUGUUUGGAAUUUCAUUAAUAUUUUAUUACUUU-UUUCUCGCUCUCUUCCUGUGGAAGCUGCGUUGUGUUCUUGAAUU
.((...(((((((.(((((..((((((.........)))))).))))).-......((...(((((...)))))..)))))))))....))... ( -17.40)
>consensus
CUCUCCACACGACCAAGUGUUUGGAAUUUCAUUAAUAUUUUAUUACUUU_UUUCUCGCUCUCUUCCUGUGGAAGCUGCGUUGUGUUCUUGAAUU
.((...(((((((.(((((..((((((.........)))))).)))))........((...(((((...)))))..)))))))))....))... (-17.40 = -17.40 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 22,332,724 – 22,332,818
Length 94
Sequences 3
Columns 94
Reading direction reverse
Mean pairwise identity 98.58
Mean single sequence MFE -17.40
Consensus MFE -16.43
Energy contribution -16.43
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.76
Structure conservation index 0.94
SVM decision value 0.32
SVM RNA-class probability 0.685264
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22332724 94 - 23771897
AAUUCAAGAACACAACGCAUCUUCCACAGGAAGAGAGCGAGAAAAAAAGUAAUAAAAUAUUAAUGAAAUUCCAAACACUUGGUCGUGUGGAGAG
..(((....((((..(((.((((((...))))))..)))...............................((((....))))..)))).))).. ( -18.60)
>DroSim_CAF1 218 93 - 1
AAUUCAAGAACACAACGCAGCUUCCACAGGAAGAGAGCGAGAAA-AAAGUAAUAAAAUAUUAAUGAAAUUCCAAACACUUGGUCGUGUGGAGAG
..(((....((((..(((..(((((...)))))...))).....-.........................((((....))))..)))).))).. ( -16.80)
>DroEre_CAF1 208 93 - 1
AAUUCAAGAACACAACGCAGCUUCCACAGGAAGAGAGCGAGAAA-AAAGUAAUAAAAUAUUAAUGAAAUUCCAAACACUUGGUCGUGUGGAGAG
..(((....((((..(((..(((((...)))))...))).....-.........................((((....))))..)))).))).. ( -16.80)
>consensus
AAUUCAAGAACACAACGCAGCUUCCACAGGAAGAGAGCGAGAAA_AAAGUAAUAAAAUAUUAAUGAAAUUCCAAACACUUGGUCGUGUGGAGAG
..(((....((((..(((..(((((...)))))...)))...............................((((....))))..)))).))).. (-16.43 = -16.43 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:18:57 2006