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
2870 5' -53.8 NC_001493.1 + 1014 1.09 0.004399
Target:  5'- uGGACGACGACGGCGAUGAUGAUGGCUu -3'
miRNA:   3'- -CCUGCUGCUGCCGCUACUACUACCGA- -5'
2870 5' -53.8 NC_001493.1 + 116568 1.09 0.004399
Target:  5'- uGGACGACGACGGCGAUGAUGAUGGCUu -3'
miRNA:   3'- -CCUGCUGCUGCCGCUACUACUACCGA- -5'
2870 5' -53.8 NC_001493.1 + 24637 0.87 0.118179
Target:  5'- uGAUGAUGAUGGUGAUGAUGAUGGUg -3'
miRNA:   3'- cCUGCUGCUGCCGCUACUACUACCGa -5'
2870 5' -53.8 NC_001493.1 + 14120 0.8 0.306953
Target:  5'- gGGugGugG-UGGCGAUGggGGUGGCg -3'
miRNA:   3'- -CCugCugCuGCCGCUACuaCUACCGa -5'
2870 5' -53.8 NC_001493.1 + 129675 0.8 0.306953
Target:  5'- gGGugGugG-UGGCGAUGggGGUGGCg -3'
miRNA:   3'- -CCugCugCuGCCGCUACuaCUACCGa -5'
2870 5' -53.8 NC_001493.1 + 24661 0.76 0.494008
Target:  5'- uGAUGAUGAUGGUGGUGAUGAUGa-- -3'
miRNA:   3'- cCUGCUGCUGCCGCUACUACUACcga -5'
2870 5' -53.8 NC_001493.1 + 110441 0.76 0.513588
Target:  5'- -cGCGGCGAUGGCGAagauUGAgccccUGGUGGCa -3'
miRNA:   3'- ccUGCUGCUGCCGCU----ACU-----ACUACCGa -5'
2870 5' -53.8 NC_001493.1 + 3784 0.72 0.70787
Target:  5'- gGGGCGAgGcGCGGCGGUuucgaGGUGAUGuGCg -3'
miRNA:   3'- -CCUGCUgC-UGCCGCUA-----CUACUAC-CGa -5'
2870 5' -53.8 NC_001493.1 + 119338 0.72 0.70787
Target:  5'- gGGGCGAgGcGCGGCGGUuucgaGGUGAUGuGCg -3'
miRNA:   3'- -CCUGCUgC-UGCCGCUA-----CUACUAC-CGa -5'
2870 5' -53.8 NC_001493.1 + 45832 0.72 0.737898
Target:  5'- uGACGAUGuCGuaGGUGGUGGUGGUc -3'
miRNA:   3'- cCUGCUGCuGCcgCUACUACUACCGa -5'
2870 5' -53.8 NC_001493.1 + 24610 0.71 0.747732
Target:  5'- cGcCGAUGAUGGUGAUGAUGGUGa-- -3'
miRNA:   3'- cCuGCUGCUGCCGCUACUACUACcga -5'
2870 5' -53.8 NC_001493.1 + 38000 0.71 0.767078
Target:  5'- gGGuACGAUGGgGGCGAUGAUcggGGCc -3'
miRNA:   3'- -CC-UGCUGCUgCCGCUACUAcuaCCGa -5'
2870 5' -53.8 NC_001493.1 + 68462 0.7 0.821868
Target:  5'- -cACGACGGCGGCGGUcGAUGccuucacgGGUg -3'
miRNA:   3'- ccUGCUGCUGCCGCUA-CUACua------CCGa -5'
2870 5' -53.8 NC_001493.1 + 15028 0.69 0.854985
Target:  5'- --uCGACGAgagcacccaCGGUGAUGAUGAcGGCc -3'
miRNA:   3'- ccuGCUGCU---------GCCGCUACUACUaCCGa -5'
2870 5' -53.8 NC_001493.1 + 130582 0.69 0.854985
Target:  5'- --uCGACGAgagcacccaCGGUGAUGAUGAcGGCc -3'
miRNA:   3'- ccuGCUGCU---------GCCGCUACUACUaCCGa -5'
2870 5' -53.8 NC_001493.1 + 118576 0.69 0.862765
Target:  5'- uGGugGAUggGACGGcCGcgGG-GAUGGCa -3'
miRNA:   3'- -CCugCUG--CUGCC-GCuaCUaCUACCGa -5'
2870 5' -53.8 NC_001493.1 + 3021 0.69 0.862765
Target:  5'- uGGugGAUggGACGGcCGcgGG-GAUGGCa -3'
miRNA:   3'- -CCugCUG--CUGCC-GCuaCUaCUACCGa -5'
2870 5' -53.8 NC_001493.1 + 71626 0.69 0.870332
Target:  5'- cGACGAUgaGACGGUGGaggaguaucUGAUGA-GGCUc -3'
miRNA:   3'- cCUGCUG--CUGCCGCU---------ACUACUaCCGA- -5'
2870 5' -53.8 NC_001493.1 + 84946 0.68 0.884804
Target:  5'- cGGGCGAUGAC-GCGuUGAUcGAggGGCUc -3'
miRNA:   3'- -CCUGCUGCUGcCGCuACUA-CUa-CCGA- -5'
2870 5' -53.8 NC_001493.1 + 46098 0.68 0.89836
Target:  5'- -cACGAuguucuccaacUGACaGGCGcgGAUGAUGGCc -3'
miRNA:   3'- ccUGCU-----------GCUG-CCGCuaCUACUACCGa -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.