miRNA display CGI


Results 1 - 20 of 49 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
18404 3' -56.4 NC_004681.1 + 625 0.66 0.757111
Target:  5'- uCGUUGAGGgacucGCGGCCGCggaAGaugGCCGgGu -3'
miRNA:   3'- -GCGAUUCU-----UGCCGGCGg--UCa--UGGCgC- -5'
18404 3' -56.4 NC_004681.1 + 2034 0.72 0.410655
Target:  5'- uCGUgGAGGGCGGCCGC----ACCGCGg -3'
miRNA:   3'- -GCGaUUCUUGCCGGCGgucaUGGCGC- -5'
18404 3' -56.4 NC_004681.1 + 2132 0.67 0.709192
Target:  5'- cCGCggu--GCGGCCGCCcuccacgaccaccugGCCGCGg -3'
miRNA:   3'- -GCGauucuUGCCGGCGGuca------------UGGCGC- -5'
18404 3' -56.4 NC_004681.1 + 4158 0.68 0.600119
Target:  5'- uCGCUGAGAugGcguuCCGCCAGUucaagcugaACCaGUGg -3'
miRNA:   3'- -GCGAUUCUugCc---GGCGGUCA---------UGG-CGC- -5'
18404 3' -56.4 NC_004681.1 + 5787 0.72 0.418825
Target:  5'- gGCgauguggAAGAACgcuGGCCGCCccaaccuGGUACUGCGg -3'
miRNA:   3'- gCGa------UUCUUG---CCGGCGG-------UCAUGGCGC- -5'
18404 3' -56.4 NC_004681.1 + 7187 0.66 0.744075
Target:  5'- uCGCgcacGAGAagguacucgagaagGCGGCCgguGCCGGUaacggcgacACCGCGc -3'
miRNA:   3'- -GCGa---UUCU--------------UGCCGG---CGGUCA---------UGGCGC- -5'
18404 3' -56.4 NC_004681.1 + 7569 0.66 0.757111
Target:  5'- gGUgGAGGACGGCCG--GGgagGCCGUGa -3'
miRNA:   3'- gCGaUUCUUGCCGGCggUCa--UGGCGC- -5'
18404 3' -56.4 NC_004681.1 + 8751 0.66 0.767002
Target:  5'- gGCUGGuGACgGGCCGCgAGgaaaucagguCCGCGa -3'
miRNA:   3'- gCGAUUcUUG-CCGGCGgUCau--------GGCGC- -5'
18404 3' -56.4 NC_004681.1 + 10762 0.66 0.726761
Target:  5'- aCGC----GACGGCCGCgGGcACCGgGg -3'
miRNA:   3'- -GCGauucUUGCCGGCGgUCaUGGCgC- -5'
18404 3' -56.4 NC_004681.1 + 12243 0.67 0.706069
Target:  5'- gGCUGAGucgGGUgGcCCGGUGCUGUGg -3'
miRNA:   3'- gCGAUUCuugCCGgC-GGUCAUGGCGC- -5'
18404 3' -56.4 NC_004681.1 + 16030 0.66 0.73698
Target:  5'- uGCUGgcaAGGGC-GCCGCCGcuGUcACCGCa -3'
miRNA:   3'- gCGAU---UCUUGcCGGCGGU--CA-UGGCGc -5'
18404 3' -56.4 NC_004681.1 + 16245 0.86 0.053757
Target:  5'- aGCgacGGGAUGGCCGCCAGcGCCGCGa -3'
miRNA:   3'- gCGau-UCUUGCCGGCGGUCaUGGCGC- -5'
18404 3' -56.4 NC_004681.1 + 16772 0.67 0.695616
Target:  5'- uGCUcGGAGCGccGUCGCCAGcACCaGUGa -3'
miRNA:   3'- gCGAuUCUUGC--CGGCGGUCaUGG-CGC- -5'
18404 3' -56.4 NC_004681.1 + 17699 0.69 0.557955
Target:  5'- aCGCcuc-GACGGuUCGCCAGUcgacgGCCGCGg -3'
miRNA:   3'- -GCGauucUUGCC-GGCGGUCA-----UGGCGC- -5'
18404 3' -56.4 NC_004681.1 + 17761 0.69 0.577901
Target:  5'- cCGgUGAGAGCGGgaucgaaCCGCCAGcggGCCGg- -3'
miRNA:   3'- -GCgAUUCUUGCC-------GGCGGUCa--UGGCgc -5'
18404 3' -56.4 NC_004681.1 + 18383 0.69 0.578955
Target:  5'- aGUcGAGGACuGCgGCC-GUGCCGCGc -3'
miRNA:   3'- gCGaUUCUUGcCGgCGGuCAUGGCGC- -5'
18404 3' -56.4 NC_004681.1 + 18730 0.66 0.726761
Target:  5'- uCGCcAAGGgcgACGGCgGCgAG-GCCGCGc -3'
miRNA:   3'- -GCGaUUCU---UGCCGgCGgUCaUGGCGC- -5'
18404 3' -56.4 NC_004681.1 + 19662 0.66 0.767002
Target:  5'- uGCgGGGAACGGgaagCGCUGGaUGCCGCu -3'
miRNA:   3'- gCGaUUCUUGCCg---GCGGUC-AUGGCGc -5'
18404 3' -56.4 NC_004681.1 + 19796 1.09 0.001318
Target:  5'- cCGCUAAGAACGGCCGCCAGUACCGCGu -3'
miRNA:   3'- -GCGAUUCUUGCCGGCGGUCAUGGCGC- -5'
18404 3' -56.4 NC_004681.1 + 24961 0.68 0.610743
Target:  5'- uGCUGGuGAgggagccuugGCGGCCGCCGc--CCGCGc -3'
miRNA:   3'- gCGAUU-CU----------UGCCGGCGGUcauGGCGC- -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.