miRNA display CGI


Results 1 - 17 of 17 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
23339 3' -51.9 NC_005259.1 + 31049 0.66 0.946893
Target:  5'- cGAacGCGUCGaccacauaguUGAUcGGGUCGGCGagguUCCc -3'
miRNA:   3'- cCU--UGCAGU----------ACUGcUCCAGCCGU----AGG- -5'
23339 3' -51.9 NC_005259.1 + 25436 0.66 0.946893
Target:  5'- aGGAAUGcgagcCGU-AUGAGGUCGGCGagCg -3'
miRNA:   3'- -CCUUGCa----GUAcUGCUCCAGCCGUagG- -5'
23339 3' -51.9 NC_005259.1 + 19337 0.66 0.942141
Target:  5'- uGAugGUCAgcuacgagGACGAGGacgcCGGgAUCa -3'
miRNA:   3'- cCUugCAGUa-------CUGCUCCa---GCCgUAGg -5'
23339 3' -51.9 NC_005259.1 + 22345 0.66 0.937636
Target:  5'- aGGAuuuaccgccacgauGCGUCGcGACGAcaagggcaaaagcccGGUCGGCcUCg -3'
miRNA:   3'- -CCU--------------UGCAGUaCUGCU---------------CCAGCCGuAGg -5'
23339 3' -51.9 NC_005259.1 + 32638 0.66 0.937122
Target:  5'- cGGuACGcCGcauUGGcCGGGGuggggaaaucgUCGGCAUCCg -3'
miRNA:   3'- -CCuUGCaGU---ACU-GCUCC-----------AGCCGUAGG- -5'
23339 3' -51.9 NC_005259.1 + 58674 0.66 0.926273
Target:  5'- cGGggUGcagcuucCAUcGCGGGGUCGGCucgucgCCg -3'
miRNA:   3'- -CCuuGCa------GUAcUGCUCCAGCCGua----GG- -5'
23339 3' -51.9 NC_005259.1 + 33813 0.67 0.91434
Target:  5'- cGAuCaUCGUGACGGGGUcCGGCGa-- -3'
miRNA:   3'- cCUuGcAGUACUGCUCCA-GCCGUagg -5'
23339 3' -51.9 NC_005259.1 + 54501 0.68 0.859411
Target:  5'- -cGGCGggCAUGGCGgcgaugugggguggcGGGUCGaGUAUCCg -3'
miRNA:   3'- ccUUGCa-GUACUGC---------------UCCAGC-CGUAGG- -5'
23339 3' -51.9 NC_005259.1 + 41105 0.69 0.830331
Target:  5'- cGGucGGCGgUAUGACGAuGUCGGCGgugCCc -3'
miRNA:   3'- -CC--UUGCaGUACUGCUcCAGCCGUa--GG- -5'
23339 3' -51.9 NC_005259.1 + 30806 0.7 0.780438
Target:  5'- cGGAACaccugagucggguaGUCcgGcgcgcCGAGGUCGGCAaCCu -3'
miRNA:   3'- -CCUUG--------------CAGuaCu----GCUCCAGCCGUaGG- -5'
23339 3' -51.9 NC_005259.1 + 17341 0.7 0.753295
Target:  5'- cGGucAACGUCGccGuCGAGGUCGGCggCUc -3'
miRNA:   3'- -CC--UUGCAGUa-CuGCUCCAGCCGuaGG- -5'
23339 3' -51.9 NC_005259.1 + 45120 0.71 0.743007
Target:  5'- cGAGaGUgGUgccGACGAGGUCGGCAaUCUg -3'
miRNA:   3'- cCUUgCAgUA---CUGCUCCAGCCGU-AGG- -5'
23339 3' -51.9 NC_005259.1 + 36369 0.71 0.732608
Target:  5'- gGGAuuGCGUCGaagcGGCGAGGUUGGCc--- -3'
miRNA:   3'- -CCU--UGCAGUa---CUGCUCCAGCCGuagg -5'
23339 3' -51.9 NC_005259.1 + 9333 0.72 0.690138
Target:  5'- uGAACGU---GuCGAGGUCGGCA-CCg -3'
miRNA:   3'- cCUUGCAguaCuGCUCCAGCCGUaGG- -5'
23339 3' -51.9 NC_005259.1 + 40893 0.74 0.549368
Target:  5'- ------cCGUGGCGGGGUCGGCAgcgUCCc -3'
miRNA:   3'- ccuugcaGUACUGCUCCAGCCGU---AGG- -5'
23339 3' -51.9 NC_005259.1 + 2586 0.77 0.391148
Target:  5'- aGGAACGUCGcGACGAGGacacgaucucCGGUGUCUg -3'
miRNA:   3'- -CCUUGCAGUaCUGCUCCa---------GCCGUAGG- -5'
23339 3' -51.9 NC_005259.1 + 3243 1.15 0.00149
Target:  5'- aGGAACGUCAUGACGAGGUCGGCAUCCu -3'
miRNA:   3'- -CCUUGCAGUACUGCUCCAGCCGUAGG- -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.