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 + 3115 0.69 0.849604
Target:  5'- cGGCAGCGGgccacggagccaucUGCGGAaGCggcgaucaCGCGCCa -3'
miRNA:   3'- -CCGUUGCCaa------------ACGCCUaUG--------GUGCGGc -5'
20756 3' -53.5 NC_004688.1 + 3487 0.67 0.924881
Target:  5'- uGGuCGGCGGcUUGCugauGGUGCCA-GCCGa -3'
miRNA:   3'- -CC-GUUGCCaAACGc---CUAUGGUgCGGC- -5'
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 + 7441 0.69 0.826833
Target:  5'- aGGCGACGGUgucgGCgagaaGGGUGacgcaggcguagaaCGCGCCGa -3'
miRNA:   3'- -CCGUUGCCAaa--CG-----CCUAUg-------------GUGCGGC- -5'
20756 3' -53.5 NC_004688.1 + 8104 0.67 0.924881
Target:  5'- uGCGGCGGaaUGCGGA-ACCACaUCGc -3'
miRNA:   3'- cCGUUGCCaaACGCCUaUGGUGcGGC- -5'
20756 3' -53.5 NC_004688.1 + 10904 0.66 0.949142
Target:  5'- uGGUGGCaGUgaccUGCGuGAUACCggcgguggcgcgcACGCCGa -3'
miRNA:   3'- -CCGUUGcCAa---ACGC-CUAUGG-------------UGCGGC- -5'
20756 3' -53.5 NC_004688.1 + 15237 0.66 0.949575
Target:  5'- gGGCcuacuGCGGUUaucacGUGGucaacggcGCCGCGCCGc -3'
miRNA:   3'- -CCGu----UGCCAAa----CGCCua------UGGUGCGGC- -5'
20756 3' -53.5 NC_004688.1 + 16979 0.67 0.913235
Target:  5'- cGGCcGCGGU--GCGGGcgAUgACGUCGg -3'
miRNA:   3'- -CCGuUGCCAaaCGCCUa-UGgUGCGGC- -5'
20756 3' -53.5 NC_004688.1 + 19229 0.68 0.889755
Target:  5'- cGGCAGCGGcgaguucgGCGGccguucgugucgaacGU-CCACGCCc -3'
miRNA:   3'- -CCGUUGCCaaa-----CGCC---------------UAuGGUGCGGc -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 + 25610 0.72 0.665872
Target:  5'- uGGCGAUGGccUGCGGAgauCCGggguUGCCGa -3'
miRNA:   3'- -CCGUUGCCaaACGCCUau-GGU----GCGGC- -5'
20756 3' -53.5 NC_004688.1 + 27173 0.68 0.886951
Target:  5'- aGGCGGCGcauGUUUuCGGccgACUGCGCCGa -3'
miRNA:   3'- -CCGUUGC---CAAAcGCCua-UGGUGCGGC- -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 + 31271 0.67 0.900585
Target:  5'- gGGCAAUcaGGUccacGCGcGuaucgGCCGCGCCGg -3'
miRNA:   3'- -CCGUUG--CCAaa--CGC-Cua---UGGUGCGGC- -5'
20756 3' -53.5 NC_004688.1 + 35486 0.66 0.94422
Target:  5'- uGGcCGACGGggcugagcccGCGcGGUcCCACGCCa -3'
miRNA:   3'- -CC-GUUGCCaaa-------CGC-CUAuGGUGCGGc -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 + 45082 0.67 0.913235
Target:  5'- uGGUGGCGGccugcuuagcgUUGUGGc-GCCGCGCCu -3'
miRNA:   3'- -CCGUUGCCa----------AACGCCuaUGGUGCGGc -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 + 56044 0.74 0.571356
Target:  5'- uGGCGcucGCGGggcgUGCGGAaucuccuguUGCCGCGCUu -3'
miRNA:   3'- -CCGU---UGCCaa--ACGCCU---------AUGGUGCGGc -5'
20756 3' -53.5 NC_004688.1 + 62970 0.66 0.935513
Target:  5'- cGGC-GCGGcg-GCGGAgaucACCGCGUg- -3'
miRNA:   3'- -CCGuUGCCaaaCGCCUa---UGGUGCGgc -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.