miRNA display CGI


Results 1 - 8 of 8 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
22193 3' -55.5 NC_004927.1 + 30942 0.68 0.685112
Target:  5'- cGAcuUGAGGACGuuuuCCAUCgaacgCUCGAUGCGg -3'
miRNA:   3'- uCU--ACUCCUGU----GGUGG-----GAGCUACGCa -5'
22193 3' -55.5 NC_004927.1 + 35744 0.67 0.727267
Target:  5'- cGGUG-GGAuuguCACCAucUCCUCGGUGUGg -3'
miRNA:   3'- uCUACuCCU----GUGGU--GGGAGCUACGCa -5'
22193 3' -55.5 NC_004927.1 + 41344 0.74 0.355513
Target:  5'- aGGccGAGGuGCGCCACCgagUUCGAUGCGUu -3'
miRNA:   3'- -UCuaCUCC-UGUGGUGG---GAGCUACGCA- -5'
22193 3' -55.5 NC_004927.1 + 50880 0.68 0.674426
Target:  5'- cGAgGAGGGgGCCACCUauUCGGUGUc- -3'
miRNA:   3'- uCUaCUCCUgUGGUGGG--AGCUACGca -5'
22193 3' -55.5 NC_004927.1 + 54258 0.7 0.53543
Target:  5'- --cUGAGGAgGaaAUCCUCGAUGCGa -3'
miRNA:   3'- ucuACUCCUgUggUGGGAGCUACGCa -5'
22193 3' -55.5 NC_004927.1 + 61780 0.73 0.361355
Target:  5'- cGGUGAGGACAgCCcgcucacccgcaacAUCCUCGAUGCu- -3'
miRNA:   3'- uCUACUCCUGU-GG--------------UGGGAGCUACGca -5'
22193 3' -55.5 NC_004927.1 + 68740 0.81 0.113952
Target:  5'- uGAUGAGGACgaaGCCAaccCCCUCGAUGUGg -3'
miRNA:   3'- uCUACUCCUG---UGGU---GGGAGCUACGCa -5'
22193 3' -55.5 NC_004927.1 + 72338 0.81 0.12007
Target:  5'- gAGAUGGcguucuuGGaagaccagaGCGCCACCCUCGAUGCGUa -3'
miRNA:   3'- -UCUACU-------CC---------UGUGGUGGGAGCUACGCA- -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.