miRNA display CGI


Results 1 - 20 of 27 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
22358 3' -57.7 NC_005045.1 + 14909 0.66 0.535808
Target:  5'- uCGCGCCAgc-AUCC-GCCGCGacguugGGCa -3'
miRNA:   3'- cGCGCGGUgacUAGGaUGGCGCa-----CCG- -5'
22358 3' -57.7 NC_005045.1 + 739 0.66 0.532621
Target:  5'- -aGUGCCACgcgGGuuucagggugguggUCCUgGCUGgGUGGCu -3'
miRNA:   3'- cgCGCGGUGa--CU--------------AGGA-UGGCgCACCG- -5'
22358 3' -57.7 NC_005045.1 + 7754 0.66 0.514699
Target:  5'- aGCGCGCCca--AUCCagcCCGCGUcGGUa -3'
miRNA:   3'- -CGCGCGGugacUAGGau-GGCGCA-CCG- -5'
22358 3' -57.7 NC_005045.1 + 45 0.66 0.508431
Target:  5'- gGUGgGCCACUGccuagccuccugggaGcuUCCggcuucGCCGgGUGGCg -3'
miRNA:   3'- -CGCgCGGUGAC---------------U--AGGa-----UGGCgCACCG- -5'
22358 3' -57.7 NC_005045.1 + 42108 0.66 0.508431
Target:  5'- gGUGgGCCACUGccuagccuccugggaGcuUCCggcuucGCCGgGUGGCg -3'
miRNA:   3'- -CGCgCGGUGAC---------------U--AGGa-----UGGCgCACCG- -5'
22358 3' -57.7 NC_005045.1 + 26416 0.67 0.479631
Target:  5'- -gGCGUCACguaagugGCCGUGUGGCu -3'
miRNA:   3'- cgCGCGGUGacuaggaUGGCGCACCG- -5'
22358 3' -57.7 NC_005045.1 + 34510 0.67 0.463536
Target:  5'- -gGUGgCGCUGGUCagGCCGC-UGGCc -3'
miRNA:   3'- cgCGCgGUGACUAGgaUGGCGcACCG- -5'
22358 3' -57.7 NC_005045.1 + 13237 0.67 0.451652
Target:  5'- gGCGCcaguaccGCCGggGAUUCUggcaagcGCCGgGUGGCa -3'
miRNA:   3'- -CGCG-------CGGUgaCUAGGA-------UGGCgCACCG- -5'
22358 3' -57.7 NC_005045.1 + 3025 0.67 0.434145
Target:  5'- aCGUGCUGCUGGUCCagggcaguCCGCuguccgGGCa -3'
miRNA:   3'- cGCGCGGUGACUAGGau------GGCGca----CCG- -5'
22358 3' -57.7 NC_005045.1 + 31052 0.67 0.434145
Target:  5'- cCGUGCCGCUGA-CCUugaCGU-UGGCa -3'
miRNA:   3'- cGCGCGGUGACUaGGAug-GCGcACCG- -5'
22358 3' -57.7 NC_005045.1 + 10666 0.68 0.415162
Target:  5'- cGUGgGCCGCgucgUGGg-CUACCGUGUGGa -3'
miRNA:   3'- -CGCgCGGUG----ACUagGAUGGCGCACCg -5'
22358 3' -57.7 NC_005045.1 + 8261 0.68 0.415162
Target:  5'- uGCGCGa-ACUGAUCaaGCUGCGaGGUg -3'
miRNA:   3'- -CGCGCggUGACUAGgaUGGCGCaCCG- -5'
22358 3' -57.7 NC_005045.1 + 16884 0.68 0.415162
Target:  5'- gGCGCcCCGCUGGacgaccugcaCCUGCUG-GUGGCc -3'
miRNA:   3'- -CGCGcGGUGACUa---------GGAUGGCgCACCG- -5'
22358 3' -57.7 NC_005045.1 + 14978 0.69 0.361394
Target:  5'- aGCGUGCuCcCUGA-CgUGCCGCagGUGGCc -3'
miRNA:   3'- -CGCGCG-GuGACUaGgAUGGCG--CACCG- -5'
22358 3' -57.7 NC_005045.1 + 372 0.69 0.344581
Target:  5'- gGUG-GUCugUGGUCCUGUCGgGUGGUg -3'
miRNA:   3'- -CGCgCGGugACUAGGAUGGCgCACCG- -5'
22358 3' -57.7 NC_005045.1 + 42435 0.69 0.344581
Target:  5'- gGUG-GUCugUGGUCCUGUCGgGUGGUg -3'
miRNA:   3'- -CGCgCGGugACUAGGAUGGCgCACCG- -5'
22358 3' -57.7 NC_005045.1 + 14754 0.69 0.336388
Target:  5'- uCG-GCC-CUGcacAUCCUGCUGgGUGGCg -3'
miRNA:   3'- cGCgCGGuGAC---UAGGAUGGCgCACCG- -5'
22358 3' -57.7 NC_005045.1 + 27333 0.7 0.328338
Target:  5'- -gGUGCCGCccugguaucgaGGUCgUACUGCGUGGUg -3'
miRNA:   3'- cgCGCGGUGa----------CUAGgAUGGCGCACCG- -5'
22358 3' -57.7 NC_005045.1 + 40834 0.7 0.29757
Target:  5'- cCGCGCCACUGAgggCUGCCaaGcccUGGCc -3'
miRNA:   3'- cGCGCGGUGACUag-GAUGGcgC---ACCG- -5'
22358 3' -57.7 NC_005045.1 + 16635 0.7 0.29757
Target:  5'- gGCGCGCUgcacugGCUGggCCgcaagGCCGCugagGUGGUc -3'
miRNA:   3'- -CGCGCGG------UGACuaGGa----UGGCG----CACCG- -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.