miRNA display CGI


Results 1 - 13 of 13 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
20643 3' -59.8 NC_004688.1 + 34812 0.66 0.664886
Target:  5'- cGAAGcCcGCGGCCC--UCCCGGucGGGAg -3'
miRNA:   3'- -CUUCuGcCGUCGGGcuAGGGCC--UCCU- -5'
20643 3' -59.8 NC_004688.1 + 68474 0.66 0.654736
Target:  5'- aGAAGACGGCGcagcuuGUCUGGUguucCCCGGaAGGc -3'
miRNA:   3'- -CUUCUGCCGU------CGGGCUA----GGGCC-UCCu -5'
20643 3' -59.8 NC_004688.1 + 71905 0.67 0.614036
Target:  5'- --cGACGGC--CCCGGcaacCCCGGAGGu -3'
miRNA:   3'- cuuCUGCCGucGGGCUa---GGGCCUCCu -5'
20643 3' -59.8 NC_004688.1 + 41574 0.67 0.593736
Target:  5'- -cAGGCcGuCGGCCCGAUCCUGGAc-- -3'
miRNA:   3'- cuUCUGcC-GUCGGGCUAGGGCCUccu -5'
20643 3' -59.8 NC_004688.1 + 86640 0.67 0.593736
Target:  5'- --cGACGGC-GUCCGucgcgCCCGuGGGGAc -3'
miRNA:   3'- cuuCUGCCGuCGGGCua---GGGC-CUCCU- -5'
20643 3' -59.8 NC_004688.1 + 90825 0.68 0.572542
Target:  5'- uGGGGCGGCAGCUuccggaaCGAagCCGGcgGGGAu -3'
miRNA:   3'- cUUCUGCCGUCGG-------GCUagGGCC--UCCU- -5'
20643 3' -59.8 NC_004688.1 + 110589 0.68 0.563512
Target:  5'- gGggGGCGGCcccGcCCCGGUuUCCGG-GGAa -3'
miRNA:   3'- -CuuCUGCCGu--C-GGGCUA-GGGCCuCCU- -5'
20643 3' -59.8 NC_004688.1 + 40351 0.68 0.537654
Target:  5'- aGggGGCGGCcgaagucguccagcGCCCGGugauacUCCCacggGGAGGAg -3'
miRNA:   3'- -CuuCUGCCGu-------------CGGGCU------AGGG----CCUCCU- -5'
20643 3' -59.8 NC_004688.1 + 61059 0.7 0.457429
Target:  5'- uGGAGccAUGGCAGUCCGGUUCUGGAuuuugacugGGAu -3'
miRNA:   3'- -CUUC--UGCCGUCGGGCUAGGGCCU---------CCU- -5'
20643 3' -59.8 NC_004688.1 + 79936 0.72 0.332167
Target:  5'- -uGGACGGCAGgCCGGgcccgCCCGGAucgaccGGGg -3'
miRNA:   3'- cuUCUGCCGUCgGGCUa----GGGCCU------CCU- -5'
20643 3' -59.8 NC_004688.1 + 100101 0.72 0.324767
Target:  5'- cGAGACaGCGGCCUGAUCCaGGAgcuGGAu -3'
miRNA:   3'- cUUCUGcCGUCGGGCUAGGgCCU---CCU- -5'
20643 3' -59.8 NC_004688.1 + 74786 0.72 0.324767
Target:  5'- ---cACGGCGGCcaugCCGAUCUCGGGGGu -3'
miRNA:   3'- cuucUGCCGUCG----GGCUAGGGCCUCCu -5'
20643 3' -59.8 NC_004688.1 + 91142 0.73 0.296403
Target:  5'- cGAAGACGGCAGUgCGcguAUCUggUGGGGGAa -3'
miRNA:   3'- -CUUCUGCCGUCGgGC---UAGG--GCCUCCU- -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.