miRNA display CGI


Results 1 - 20 of 21 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
8131 5' -53 NC_001978.2 + 259 0.66 0.781749
Target:  5'- aCGACGggGGcAGCGgACUcAGCGGCa-- -3'
miRNA:   3'- -GCUGCa-UC-UUGCgUGAcUCGCCGaac -5'
8131 5' -53 NC_001978.2 + 32189 0.66 0.765054
Target:  5'- gGACGcgcgcaccgcugagGGAugGCgcacggcugagGCUGAGCGGCa-- -3'
miRNA:   3'- gCUGCa-------------UCUugCG-----------UGACUCGCCGaac -5'
8131 5' -53 NC_001978.2 + 22597 0.66 0.76082
Target:  5'- aGGCGUcGGGGCGCAUggUGAcCGGCa-- -3'
miRNA:   3'- gCUGCA-UCUUGCGUG--ACUcGCCGaac -5'
8131 5' -53 NC_001978.2 + 41281 0.66 0.75121
Target:  5'- uCGACGUcGAccacaucaagccgcuUGCAUUGGGCGGCg-- -3'
miRNA:   3'- -GCUGCAuCUu--------------GCGUGACUCGCCGaac -5'
8131 5' -53 NC_001978.2 + 30938 0.66 0.74041
Target:  5'- cCGAUGccgaaggagugcuugAGAAuguCGCGCUGAGUGGCg-- -3'
miRNA:   3'- -GCUGCa--------------UCUU---GCGUGACUCGCCGaac -5'
8131 5' -53 NC_001978.2 + 16856 0.66 0.739323
Target:  5'- aCGugGUAGAACGCGa--AGuCGGCcgUGc -3'
miRNA:   3'- -GCugCAUCUUGCGUgacUC-GCCGa-AC- -5'
8131 5' -53 NC_001978.2 + 36417 0.66 0.739323
Target:  5'- gCGGCGUucaucAugGCGCUGAGC-GCUg- -3'
miRNA:   3'- -GCUGCAuc---UugCGUGACUCGcCGAac -5'
8131 5' -53 NC_001978.2 + 18142 0.66 0.739323
Target:  5'- -cACGUGGGACGCGCUGAa-GGUc-- -3'
miRNA:   3'- gcUGCAUCUUGCGUGACUcgCCGaac -5'
8131 5' -53 NC_001978.2 + 31794 0.67 0.717362
Target:  5'- aCGACGUucc-CG-ACUGGGCGGCUc- -3'
miRNA:   3'- -GCUGCAucuuGCgUGACUCGCCGAac -5'
8131 5' -53 NC_001978.2 + 23646 0.68 0.626884
Target:  5'- aCGACGUuGAGCGCGuCggcaaGGGUGGCg-- -3'
miRNA:   3'- -GCUGCAuCUUGCGU-Ga----CUCGCCGaac -5'
8131 5' -53 NC_001978.2 + 10680 0.69 0.592719
Target:  5'- uGACGgaaucaAGAACGgucuuucgaaGCUGGGCGGCUUu -3'
miRNA:   3'- gCUGCa-----UCUUGCg---------UGACUCGCCGAAc -5'
8131 5' -53 NC_001978.2 + 25460 0.69 0.570103
Target:  5'- gCGGCGUAGucgGCgGCAUccugggUGAGCGGCa-- -3'
miRNA:   3'- -GCUGCAUCu--UG-CGUG------ACUCGCCGaac -5'
8131 5' -53 NC_001978.2 + 10566 0.7 0.536609
Target:  5'- -cGCGaAGGACGCACUGAacGCGGUc-- -3'
miRNA:   3'- gcUGCaUCUUGCGUGACU--CGCCGaac -5'
8131 5' -53 NC_001978.2 + 37491 0.7 0.514662
Target:  5'- uCGGCGUaggcGGAGCGCACUccGGCGGUc-- -3'
miRNA:   3'- -GCUGCA----UCUUGCGUGAc-UCGCCGaac -5'
8131 5' -53 NC_001978.2 + 14388 0.7 0.493088
Target:  5'- aCGACGUcccGCGCGCUGGGCacGGUUUa -3'
miRNA:   3'- -GCUGCAucuUGCGUGACUCG--CCGAAc -5'
8131 5' -53 NC_001978.2 + 38126 0.7 0.493088
Target:  5'- aGAUGUgGGAGCGCACgGGGCGaGCc-- -3'
miRNA:   3'- gCUGCA-UCUUGCGUGaCUCGC-CGaac -5'
8131 5' -53 NC_001978.2 + 25563 0.71 0.476132
Target:  5'- aCGGCGUgacccguggcgcccaGGGGCGUgacCUGAGCGGCa-- -3'
miRNA:   3'- -GCUGCA---------------UCUUGCGu--GACUCGCCGaac -5'
8131 5' -53 NC_001978.2 + 13188 0.73 0.373888
Target:  5'- gCGACGgcGAACcCgACUgGGGCGGCUUGc -3'
miRNA:   3'- -GCUGCauCUUGcG-UGA-CUCGCCGAAC- -5'
8131 5' -53 NC_001978.2 + 33122 0.73 0.338723
Target:  5'- gCGGCGUugggcAGuAGCGCAC-GGGCGGCUUc -3'
miRNA:   3'- -GCUGCA-----UC-UUGCGUGaCUCGCCGAAc -5'
8131 5' -53 NC_001978.2 + 31316 0.75 0.275796
Target:  5'- uCGACGuUGGcgccGACGCGCUGAGUGGUg-- -3'
miRNA:   3'- -GCUGC-AUC----UUGCGUGACUCGCCGaac -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.