miRNA display CGI


Results 1 - 20 of 40 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
20756 3' -53.5 NC_004688.1 + 5354 0.79 0.33898
Target:  5'- gGGCAcCGGUccGCGGGU-CCACGCUGu -3'
miRNA:   3'- -CCGUuGCCAaaCGCCUAuGGUGCGGC- -5'
20756 3' -53.5 NC_004688.1 + 63886 0.76 0.442207
Target:  5'- aGGCcgaccGCGGUgaaUGCGGuggcaACCGCGCCGg -3'
miRNA:   3'- -CCGu----UGCCAa--ACGCCua---UGGUGCGGC- -5'
20756 3' -53.5 NC_004688.1 + 80073 0.76 0.448763
Target:  5'- gGGCAuuCGGUgcgccgcguggccacGUGGGUGCCAUGCCGa -3'
miRNA:   3'- -CCGUu-GCCAaa-------------CGCCUAUGGUGCGGC- -5'
20756 3' -53.5 NC_004688.1 + 56044 0.74 0.571356
Target:  5'- uGGCGcucGCGGggcgUGCGGAaucuccuguUGCCGCGCUu -3'
miRNA:   3'- -CCGU---UGCCaa--ACGCCU---------AUGGUGCGGc -5'
20756 3' -53.5 NC_004688.1 + 79949 0.73 0.644845
Target:  5'- gGGcCAugGGcUUGuCGGAcggGCCACGCCc -3'
miRNA:   3'- -CC-GUugCCaAAC-GCCUa--UGGUGCGGc -5'
20756 3' -53.5 NC_004688.1 + 25610 0.72 0.665872
Target:  5'- uGGCGAUGGccUGCGGAgauCCGggguUGCCGa -3'
miRNA:   3'- -CCGUUGCCaaACGCCUau-GGU----GCGGC- -5'
20756 3' -53.5 NC_004688.1 + 103771 0.72 0.676347
Target:  5'- aGGUAA-GGcUUGgGGAUACCGCGgCGg -3'
miRNA:   3'- -CCGUUgCCaAACgCCUAUGGUGCgGC- -5'
20756 3' -53.5 NC_004688.1 + 109359 0.72 0.686784
Target:  5'- cGGCAACGaGUacgUGCGGGUugAgUACGUCGg -3'
miRNA:   3'- -CCGUUGC-CAa--ACGCCUA--UgGUGCGGC- -5'
20756 3' -53.5 NC_004688.1 + 68026 0.71 0.707504
Target:  5'- uGGCGACGGUuuUUGCGcccGCC-CGCUGa -3'
miRNA:   3'- -CCGUUGCCA--AACGCcuaUGGuGCGGC- -5'
20756 3' -53.5 NC_004688.1 + 24326 0.71 0.738051
Target:  5'- cGGCAACGGaacgucaUGCGGAgcCCACGgaGg -3'
miRNA:   3'- -CCGUUGCCaa-----ACGCCUauGGUGCggC- -5'
20756 3' -53.5 NC_004688.1 + 74705 0.7 0.777365
Target:  5'- ----cCGGUUgaccagGCGGGUGCCgucgGCGCCGa -3'
miRNA:   3'- ccguuGCCAAa-----CGCCUAUGG----UGCGGC- -5'
20756 3' -53.5 NC_004688.1 + 7441 0.69 0.826833
Target:  5'- aGGCGACGGUgucgGCgagaaGGGUGacgcaggcguagaaCGCGCCGa -3'
miRNA:   3'- -CCGUUGCCAaa--CG-----CCUAUg-------------GUGCGGC- -5'
20756 3' -53.5 NC_004688.1 + 101915 0.69 0.840502
Target:  5'- cGCAACGGggagUUGUucgaGGucgcgcgcAUACCACGCCc -3'
miRNA:   3'- cCGUUGCCa---AACG----CC--------UAUGGUGCGGc -5'
20756 3' -53.5 NC_004688.1 + 36095 0.69 0.840502
Target:  5'- cGC-ACGGUUgUGCgccacGGcgGCCAUGCCGa -3'
miRNA:   3'- cCGuUGCCAA-ACG-----CCuaUGGUGCGGC- -5'
20756 3' -53.5 NC_004688.1 + 65376 0.69 0.840502
Target:  5'- cGGCuuCGGUgccGUGGucUACCACGaCCa -3'
miRNA:   3'- -CCGuuGCCAaa-CGCCu-AUGGUGC-GGc -5'
20756 3' -53.5 NC_004688.1 + 3115 0.69 0.849604
Target:  5'- cGGCAGCGGgccacggagccaucUGCGGAaGCggcgaucaCGCGCCa -3'
miRNA:   3'- -CCGUUGCCaa------------ACGCCUaUG--------GUGCGGc -5'
20756 3' -53.5 NC_004688.1 + 67591 0.68 0.856065
Target:  5'- cGGCGGCGGUcgGCGGGcugagguCCACcuuuucgGCUGg -3'
miRNA:   3'- -CCGUUGCCAaaCGCCUau-----GGUG-------CGGC- -5'
20756 3' -53.5 NC_004688.1 + 46385 0.68 0.856863
Target:  5'- cGGCAgugcuACGGUUcgGcCGGAUGCaACGuCCGa -3'
miRNA:   3'- -CCGU-----UGCCAAa-C-GCCUAUGgUGC-GGC- -5'
20756 3' -53.5 NC_004688.1 + 28319 0.68 0.856863
Target:  5'- -cCAGCGGUUgaccgccgGCGGA-ACCAgcUGCCGg -3'
miRNA:   3'- ccGUUGCCAAa-------CGCCUaUGGU--GCGGC- -5'
20756 3' -53.5 NC_004688.1 + 100560 0.68 0.886951
Target:  5'- uGCGGCGauacUGCGGccccCCGCGCCGg -3'
miRNA:   3'- cCGUUGCcaa-ACGCCuau-GGUGCGGC- -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.