miRNA display CGI


Results 1 - 20 of 24 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
13961 5' -55.9 NC_003521.1 + 172269 0.66 0.954189
Target:  5'- cGGGGGCacagCUGGUGGGuguGGGUCUCCu-- -3'
miRNA:   3'- aCCUCCG----GGUCAUCU---CCUAGAGGuac -5'
13961 5' -55.9 NC_003521.1 + 110436 0.66 0.953024
Target:  5'- cGGAGcggcgguuguugguGCCCAGggGGAGGAauuccugCUCCAg- -3'
miRNA:   3'- aCCUC--------------CGGGUCa-UCUCCUa------GAGGUac -5'
13961 5' -55.9 NC_003521.1 + 17373 0.66 0.946047
Target:  5'- cGGcGGCCCAGacucgAGAGGGaccgCUCCc-- -3'
miRNA:   3'- aCCuCCGGGUCa----UCUCCUa---GAGGuac -5'
13961 5' -55.9 NC_003521.1 + 212267 0.66 0.946047
Target:  5'- cGGuGGCCggcgguaGGUAGAGGAUCaUCAg- -3'
miRNA:   3'- aCCuCCGGg------UCAUCUCCUAGaGGUac -5'
13961 5' -55.9 NC_003521.1 + 34669 0.66 0.94164
Target:  5'- cGGAGGCCagcucGUAGAGGcaGUcCUCCu-- -3'
miRNA:   3'- aCCUCCGGgu---CAUCUCC--UA-GAGGuac -5'
13961 5' -55.9 NC_003521.1 + 91214 0.67 0.937006
Target:  5'- cGuGGGCaCAGUAcGGGGAUC-CCAUGg -3'
miRNA:   3'- aCcUCCGgGUCAU-CUCCUAGaGGUAC- -5'
13961 5' -55.9 NC_003521.1 + 124276 0.67 0.932145
Target:  5'- cGGAGGCgCGGcuGAcGAUCUCCAg- -3'
miRNA:   3'- aCCUCCGgGUCauCUcCUAGAGGUac -5'
13961 5' -55.9 NC_003521.1 + 228893 0.67 0.927054
Target:  5'- aGGAgcaccagccgGGCCCGGcUGGGGGAcucgaUCUCCu-- -3'
miRNA:   3'- aCCU----------CCGGGUC-AUCUCCU-----AGAGGuac -5'
13961 5' -55.9 NC_003521.1 + 223927 0.67 0.927054
Target:  5'- uUGGAGGCgCGGccgAGGGGGUCgaggcggCCGc- -3'
miRNA:   3'- -ACCUCCGgGUCa--UCUCCUAGa------GGUac -5'
13961 5' -55.9 NC_003521.1 + 147866 0.67 0.927054
Target:  5'- gGGGGGCCCGaUGGugcuGGGAUUUUgGUGu -3'
miRNA:   3'- aCCUCCGGGUcAUC----UCCUAGAGgUAC- -5'
13961 5' -55.9 NC_003521.1 + 8634 0.67 0.921733
Target:  5'- cGGGGGCCCAuGgcgugGGAGGAcgguuuUCUCgAg- -3'
miRNA:   3'- aCCUCCGGGU-Ca----UCUCCU------AGAGgUac -5'
13961 5' -55.9 NC_003521.1 + 150030 0.67 0.910405
Target:  5'- gGGGGGCUgGGgAGGGGGguaagggcUCUCCGUu -3'
miRNA:   3'- aCCUCCGGgUCaUCUCCU--------AGAGGUAc -5'
13961 5' -55.9 NC_003521.1 + 212926 0.67 0.910405
Target:  5'- aGGAGGCgCuGUaAGAGGAcaagcccgcCUCCAUGc -3'
miRNA:   3'- aCCUCCGgGuCA-UCUCCUa--------GAGGUAC- -5'
13961 5' -55.9 NC_003521.1 + 103139 0.68 0.891718
Target:  5'- gGGAGaGCCCAGgggcAGcAGGcgcGUCUCCAc- -3'
miRNA:   3'- aCCUC-CGGGUCa---UC-UCC---UAGAGGUac -5'
13961 5' -55.9 NC_003521.1 + 216131 0.69 0.871066
Target:  5'- cGGAGGCCgCGGcAGAGGAaggCCAc- -3'
miRNA:   3'- aCCUCCGG-GUCaUCUCCUagaGGUac -5'
13961 5' -55.9 NC_003521.1 + 169981 0.69 0.871066
Target:  5'- gGGAGGCggCGGcGGGGGAcgcUUUCCAUGa -3'
miRNA:   3'- aCCUCCGg-GUCaUCUCCU---AGAGGUAC- -5'
13961 5' -55.9 NC_003521.1 + 13899 0.69 0.863764
Target:  5'- gGGGGGCCCGGcgcGGAGGGgg-CCGc- -3'
miRNA:   3'- aCCUCCGGGUCa--UCUCCUagaGGUac -5'
13961 5' -55.9 NC_003521.1 + 148394 0.69 0.863764
Target:  5'- gGGAGGCUgGGggguGAGGG-CUCCAc- -3'
miRNA:   3'- aCCUCCGGgUCau--CUCCUaGAGGUac -5'
13961 5' -55.9 NC_003521.1 + 221758 0.69 0.856262
Target:  5'- ---cGGCCCAGcugGGAGGAcgggaUCUCCGUu -3'
miRNA:   3'- accuCCGGGUCa--UCUCCU-----AGAGGUAc -5'
13961 5' -55.9 NC_003521.1 + 27383 0.69 0.832613
Target:  5'- cGGGGGgCCAGgccacGGGGAUCU-CGUGg -3'
miRNA:   3'- aCCUCCgGGUCau---CUCCUAGAgGUAC- -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.