miRNA display CGI


Results 1 - 18 of 18 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
12433 5' -60.6 NC_003324.1 + 40066 0.66 0.476391
Target:  5'- uGCGCGGGuCUGGCcggaaCGCGGCg- -3'
miRNA:   3'- uCGCGCCC-GGCUGcauagGUGCCGac -5'
12433 5' -60.6 NC_003324.1 + 42910 0.66 0.457085
Target:  5'- cAGCGCGGGgCGACc-AUUgGCGGUc- -3'
miRNA:   3'- -UCGCGCCCgGCUGcaUAGgUGCCGac -5'
12433 5' -60.6 NC_003324.1 + 23688 0.66 0.455177
Target:  5'- cGCGcCGGGCuucacauCGAUGUcgacugccucgauGUCCGcCGGCUGc -3'
miRNA:   3'- uCGC-GCCCG-------GCUGCA-------------UAGGU-GCCGAC- -5'
12433 5' -60.6 NC_003324.1 + 44318 0.66 0.451375
Target:  5'- uGGCGC-GGCCGAUagccucugcagCCACGGCg- -3'
miRNA:   3'- -UCGCGcCCGGCUGcaua-------GGUGCCGac -5'
12433 5' -60.6 NC_003324.1 + 1435 0.66 0.418873
Target:  5'- cAGCGCGacgcaaaggaaacGGCgCGACGUAUCCggcaGCGGa-- -3'
miRNA:   3'- -UCGCGC-------------CCG-GCUGCAUAGG----UGCCgac -5'
12433 5' -60.6 NC_003324.1 + 2677 0.67 0.40985
Target:  5'- cAGCGCGguGGCCGcuucggcaagggcACGaUGUCgGCGGCg- -3'
miRNA:   3'- -UCGCGC--CCGGC-------------UGC-AUAGgUGCCGac -5'
12433 5' -60.6 NC_003324.1 + 1509 0.67 0.401834
Target:  5'- cGGC-CGGGCCaGCGaggAUCCgGCGGCa- -3'
miRNA:   3'- -UCGcGCCCGGcUGCa--UAGG-UGCCGac -5'
12433 5' -60.6 NC_003324.1 + 7394 0.67 0.401834
Target:  5'- cGCGCGGaaCGACGgucacgGUgUugGGCUGg -3'
miRNA:   3'- uCGCGCCcgGCUGCa-----UAgGugCCGAC- -5'
12433 5' -60.6 NC_003324.1 + 53544 0.67 0.375846
Target:  5'- cGCGCGGguguacuuGCCGGCGUugaUACGGuCUGu -3'
miRNA:   3'- uCGCGCC--------CGGCUGCAuagGUGCC-GAC- -5'
12433 5' -60.6 NC_003324.1 + 54345 0.68 0.351018
Target:  5'- cGGCuCGGcGCUGAUGccgGUCCAUGGCa- -3'
miRNA:   3'- -UCGcGCC-CGGCUGCa--UAGGUGCCGac -5'
12433 5' -60.6 NC_003324.1 + 35478 0.68 0.343004
Target:  5'- gAGCGUGGGgaCGGCGaUcgCCGuacCGGCUGc -3'
miRNA:   3'- -UCGCGCCCg-GCUGC-AuaGGU---GCCGAC- -5'
12433 5' -60.6 NC_003324.1 + 19609 0.68 0.335124
Target:  5'- uGCGCGugaagcGGCUGAUGgacgccuUCCGCGGCa- -3'
miRNA:   3'- uCGCGC------CCGGCUGCau-----AGGUGCCGac -5'
12433 5' -60.6 NC_003324.1 + 6217 0.68 0.327376
Target:  5'- cGGCGCGGGUcaguccgcuauCGGCGUAggCGCGGgUa -3'
miRNA:   3'- -UCGCGCCCG-----------GCUGCAUagGUGCCgAc -5'
12433 5' -60.6 NC_003324.1 + 36525 0.69 0.312282
Target:  5'- cGcCGCGGGCgCGACGgcaugccCUACGGCa- -3'
miRNA:   3'- uC-GCGCCCG-GCUGCaua----GGUGCCGac -5'
12433 5' -60.6 NC_003324.1 + 14544 0.69 0.304935
Target:  5'- uGGCGCucaaGGCCGACGUGgucaacaugggUCGCGGCc- -3'
miRNA:   3'- -UCGCGc---CCGGCUGCAUa----------GGUGCCGac -5'
12433 5' -60.6 NC_003324.1 + 19465 0.71 0.232793
Target:  5'- cGGCGCGacgcgcGCCGGCGUcgAUCCAUcGCUGa -3'
miRNA:   3'- -UCGCGCc-----CGGCUGCA--UAGGUGcCGAC- -5'
12433 5' -60.6 NC_003324.1 + 38824 0.71 0.210352
Target:  5'- cGUGCGGGUCcauGGCGUAUUCGuCGGCg- -3'
miRNA:   3'- uCGCGCCCGG---CUGCAUAGGU-GCCGac -5'
12433 5' -60.6 NC_003324.1 + 14355 1.07 0.000484
Target:  5'- aAGCGCGGGCCGACGUAUCCACGGCUGc -3'
miRNA:   3'- -UCGCGCCCGGCUGCAUAGGUGCCGAC- -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.