miRNA display CGI


Results 1 - 20 of 25 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
23395 5' -59.4 NC_005259.1 + 30771 0.66 0.582304
Target:  5'- -cGcCGGUGGcaccgCUGCCGUuguucgcguaCCGCCGGAa -3'
miRNA:   3'- ccC-GCCACCa----GACGGUA----------GGCGGCUUg -5'
23395 5' -59.4 NC_005259.1 + 67165 0.66 0.582304
Target:  5'- --aUGGUGG-CgGCCAUgCCGCCGAu- -3'
miRNA:   3'- cccGCCACCaGaCGGUA-GGCGGCUug -5'
23395 5' -59.4 NC_005259.1 + 32899 0.66 0.571894
Target:  5'- gGGGCGaG-GGUgaGCCAcccggcCCGCuCGGGCg -3'
miRNA:   3'- -CCCGC-CaCCAgaCGGUa-----GGCG-GCUUG- -5'
23395 5' -59.4 NC_005259.1 + 27992 0.66 0.571894
Target:  5'- uGGGUGGUGcGggUGCCGgggcggggUCGCCGGGg -3'
miRNA:   3'- -CCCGCCAC-CagACGGUa-------GGCGGCUUg -5'
23395 5' -59.4 NC_005259.1 + 41638 0.66 0.571894
Target:  5'- uGGCGGUgccGGUCUGCgGgcgCuCGgUGAGCg -3'
miRNA:   3'- cCCGCCA---CCAGACGgUa--G-GCgGCUUG- -5'
23395 5' -59.4 NC_005259.1 + 29196 0.66 0.571894
Target:  5'- gGGGCGGaUGGUUcGCCcccgcaugGUUCGCC-AGCc -3'
miRNA:   3'- -CCCGCC-ACCAGaCGG--------UAGGCGGcUUG- -5'
23395 5' -59.4 NC_005259.1 + 42508 0.66 0.571894
Target:  5'- cGGCGGUGuGgccagCaGCCGUCCGgccCCGAuggGCa -3'
miRNA:   3'- cCCGCCAC-Ca----GaCGGUAGGC---GGCU---UG- -5'
23395 5' -59.4 NC_005259.1 + 32699 0.66 0.570855
Target:  5'- cGGGCGGUGGUucguacaCUGgCAcUCUcCCGAGu -3'
miRNA:   3'- -CCCGCCACCA-------GACgGU-AGGcGGCUUg -5'
23395 5' -59.4 NC_005259.1 + 27475 0.66 0.561529
Target:  5'- gGGGcCGG-GGUCggugugGCCA-CCGCCccACg -3'
miRNA:   3'- -CCC-GCCaCCAGa-----CGGUaGGCGGcuUG- -5'
23395 5' -59.4 NC_005259.1 + 68902 0.66 0.551215
Target:  5'- aGGCGGUGGUUUGUgGUCaUGaCC-AGCa -3'
miRNA:   3'- cCCGCCACCAGACGgUAG-GC-GGcUUG- -5'
23395 5' -59.4 NC_005259.1 + 31277 0.67 0.520651
Target:  5'- aGGCGGUGGcgagaUCuUGCCcgGUCUGCgcaaCGAGCu -3'
miRNA:   3'- cCCGCCACC-----AG-ACGG--UAGGCG----GCUUG- -5'
23395 5' -59.4 NC_005259.1 + 32376 0.67 0.500646
Target:  5'- aGGGCGGgca-CUGCCcgCCGUCGcGAUa -3'
miRNA:   3'- -CCCGCCaccaGACGGuaGGCGGC-UUG- -5'
23395 5' -59.4 NC_005259.1 + 40443 0.67 0.49471
Target:  5'- uGGUGuGUGGcCUGCCGgugugguugacguaCUGCCGGGCc -3'
miRNA:   3'- cCCGC-CACCaGACGGUa-------------GGCGGCUUG- -5'
23395 5' -59.4 NC_005259.1 + 43065 0.67 0.480987
Target:  5'- gGGGuCGGUGaGgaacgCgaGCCcguugCCGCCGAACa -3'
miRNA:   3'- -CCC-GCCAC-Ca----Ga-CGGua---GGCGGCUUG- -5'
23395 5' -59.4 NC_005259.1 + 55344 0.67 0.480987
Target:  5'- -aGCGGUGGcgaUGCCGaaCGCCuGAGCg -3'
miRNA:   3'- ccCGCCACCag-ACGGUagGCGG-CUUG- -5'
23395 5' -59.4 NC_005259.1 + 33361 0.7 0.36375
Target:  5'- cGGGCGa-GGUCaUGaCUcuccuaccgGUCCGCCGAGCg -3'
miRNA:   3'- -CCCGCcaCCAG-AC-GG---------UAGGCGGCUUG- -5'
23395 5' -59.4 NC_005259.1 + 26054 0.7 0.36375
Target:  5'- cGGGU--UGGcCaUGCCG-CCGCCGAGCa -3'
miRNA:   3'- -CCCGccACCaG-ACGGUaGGCGGCUUG- -5'
23395 5' -59.4 NC_005259.1 + 36422 0.7 0.355585
Target:  5'- aGGGUcaUGGUCUGCgCAgcgUCGCCGAGg -3'
miRNA:   3'- -CCCGccACCAGACG-GUa--GGCGGCUUg -5'
23395 5' -59.4 NC_005259.1 + 42808 0.7 0.34755
Target:  5'- cGGCGcgugcacuGUGGUauugCUGCCG-CCGCCGAAa -3'
miRNA:   3'- cCCGC--------CACCA----GACGGUaGGCGGCUUg -5'
23395 5' -59.4 NC_005259.1 + 44981 0.7 0.34755
Target:  5'- aGGGcCGGUGcGaCUGCCGaggcaCCGCCGAc- -3'
miRNA:   3'- -CCC-GCCAC-CaGACGGUa----GGCGGCUug -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.