miRNA display CGI


Results 1 - 20 of 28 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
30538 3' -58.2 NC_006548.1 + 5584 0.66 0.495779
Target:  5'- gGGCCGGCuugcgCAACUggUUGGcGAUGGCGu -3'
miRNA:   3'- -CCGGCCGcaa--GUUGA--GGUC-CUGCCGC- -5'
30538 3' -58.2 NC_006548.1 + 21715 0.66 0.495779
Target:  5'- cGGCCGaccaGgGUU----UCCGGGACGGUGa -3'
miRNA:   3'- -CCGGC----CgCAAguugAGGUCCUGCCGC- -5'
30538 3' -58.2 NC_006548.1 + 30459 0.66 0.495779
Target:  5'- aGGCCaGGuUGUaguAgUCCAGGGCGGUa -3'
miRNA:   3'- -CCGG-CC-GCAaguUgAGGUCCUGCCGc -5'
30538 3' -58.2 NC_006548.1 + 32945 0.66 0.454416
Target:  5'- cGUCGGCGaUUCAACUggcgcgcCCGGuGcaGCGGCGc -3'
miRNA:   3'- cCGGCCGC-AAGUUGA-------GGUC-C--UGCCGC- -5'
30538 3' -58.2 NC_006548.1 + 6533 0.67 0.445587
Target:  5'- gGGCaucgaGGUcaUCGugcACgcgCCAGGGCGGCGc -3'
miRNA:   3'- -CCGg----CCGcaAGU---UGa--GGUCCUGCCGC- -5'
30538 3' -58.2 NC_006548.1 + 20016 0.67 0.43589
Target:  5'- aGGUcgCGGCGaUCucCUgCAGGAUGGCc -3'
miRNA:   3'- -CCG--GCCGCaAGuuGAgGUCCUGCCGc -5'
30538 3' -58.2 NC_006548.1 + 27599 0.67 0.433005
Target:  5'- uGGCagcaGGCGUUguacaccauggaggCAGCUaCGGGGuCGGCGg -3'
miRNA:   3'- -CCGg---CCGCAA--------------GUUGAgGUCCU-GCCGC- -5'
30538 3' -58.2 NC_006548.1 + 758 0.67 0.426316
Target:  5'- uGUCGGCa--UAGCUCCAGGGCaGCc -3'
miRNA:   3'- cCGGCCGcaaGUUGAGGUCCUGcCGc -5'
30538 3' -58.2 NC_006548.1 + 12078 0.67 0.416869
Target:  5'- gGGUCGGUGcgCugauGCUCCugcugcuGGcCGGCGg -3'
miRNA:   3'- -CCGGCCGCaaGu---UGAGGu------CCuGCCGC- -5'
30538 3' -58.2 NC_006548.1 + 20286 0.67 0.40755
Target:  5'- uGGCCGGCGgcaCGGCaCCgAGGAagccgauaUGGCGc -3'
miRNA:   3'- -CCGGCCGCaa-GUUGaGG-UCCU--------GCCGC- -5'
30538 3' -58.2 NC_006548.1 + 23814 0.67 0.398363
Target:  5'- uGCCGGUGgcgCGAC-CCGGcaGAUGGCa -3'
miRNA:   3'- cCGGCCGCaa-GUUGaGGUC--CUGCCGc -5'
30538 3' -58.2 NC_006548.1 + 35370 0.68 0.389309
Target:  5'- aGCCGGUGgcgacgagcgcUCAACggaUGGGACGGUGg -3'
miRNA:   3'- cCGGCCGCa----------AGUUGag-GUCCUGCCGC- -5'
30538 3' -58.2 NC_006548.1 + 20925 0.68 0.371612
Target:  5'- uGGCCgucgcccucGGCG---AACUCCAGGGgGGUGu -3'
miRNA:   3'- -CCGG---------CCGCaagUUGAGGUCCUgCCGC- -5'
30538 3' -58.2 NC_006548.1 + 575 0.68 0.362971
Target:  5'- aGGCCcuGGUGgaaacGCUCCAGG-CGGCc -3'
miRNA:   3'- -CCGG--CCGCaagu-UGAGGUCCuGCCGc -5'
30538 3' -58.2 NC_006548.1 + 13389 0.68 0.346112
Target:  5'- cGCCGGCGgaaUCGgcgcgcGCUCCu--GCGGCGg -3'
miRNA:   3'- cCGGCCGCa--AGU------UGAGGuccUGCCGC- -5'
30538 3' -58.2 NC_006548.1 + 27193 0.68 0.346111
Target:  5'- uGCCGaGCGUgcUCGcgUCCAGcaGGCGGCGa -3'
miRNA:   3'- cCGGC-CGCA--AGUugAGGUC--CUGCCGC- -5'
30538 3' -58.2 NC_006548.1 + 27757 0.69 0.337895
Target:  5'- uGGCUGGUGUugagCAGCUCCAGGccaagccguuCGGa- -3'
miRNA:   3'- -CCGGCCGCAa---GUUGAGGUCCu---------GCCgc -5'
30538 3' -58.2 NC_006548.1 + 35988 0.69 0.337895
Target:  5'- cGUCGGCuaUCcgcaAGCUCCAGGuGCGGCu -3'
miRNA:   3'- cCGGCCGcaAG----UUGAGGUCC-UGCCGc -5'
30538 3' -58.2 NC_006548.1 + 20079 0.69 0.32189
Target:  5'- aGGCCGGCGcaUUgAGCUUgGGGugGcCGa -3'
miRNA:   3'- -CCGGCCGC--AAgUUGAGgUCCugCcGC- -5'
30538 3' -58.2 NC_006548.1 + 33448 0.69 0.306459
Target:  5'- gGGCUGGCGcgguucUUCAgggcugauGCUCCcGGcCGGCGc -3'
miRNA:   3'- -CCGGCCGC------AAGU--------UGAGGuCCuGCCGC- -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.