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
23344 3' -55.8 NC_005259.1 + 20139 0.66 0.762241
Target:  5'- cCGUCGCgaugacggCAGC-CGGuGCCCuGGCCa -3'
miRNA:   3'- -GCAGUGa-------GUCGuGCUcUGGGuUCGGc -5'
23344 3' -55.8 NC_005259.1 + 54675 0.66 0.762241
Target:  5'- gCGUaUGCUCGGCgaGCGAGACCguguCGAGgCGg -3'
miRNA:   3'- -GCA-GUGAGUCG--UGCUCUGG----GUUCgGC- -5'
23344 3' -55.8 NC_005259.1 + 52883 0.66 0.742005
Target:  5'- aGUCACUCGggcGCGCGAGuacgggcaccuGCUCAcgaccGCCGa -3'
miRNA:   3'- gCAGUGAGU---CGUGCUC-----------UGGGUu----CGGC- -5'
23344 3' -55.8 NC_005259.1 + 6555 0.66 0.731722
Target:  5'- gGUgaaGCUguGCGCGGcGugUCAGGCCGc -3'
miRNA:   3'- gCAg--UGAguCGUGCU-CugGGUUCGGC- -5'
23344 3' -55.8 NC_005259.1 + 47898 0.67 0.725506
Target:  5'- gCGUCgGCUCguugAGCGCcuugauggcgucgccGAGGCCCuggAAGCCGa -3'
miRNA:   3'- -GCAG-UGAG----UCGUG---------------CUCUGGG---UUCGGC- -5'
23344 3' -55.8 NC_005259.1 + 67594 0.67 0.689743
Target:  5'- gCGUCG---GGCGCGAGACguguUCGAGCCa -3'
miRNA:   3'- -GCAGUgagUCGUGCUCUG----GGUUCGGc -5'
23344 3' -55.8 NC_005259.1 + 63378 0.67 0.668393
Target:  5'- aCGUC-CUCGucGC-CGAuGGCCCAcGCCGa -3'
miRNA:   3'- -GCAGuGAGU--CGuGCU-CUGGGUuCGGC- -5'
23344 3' -55.8 NC_005259.1 + 63435 0.68 0.657664
Target:  5'- aGcCGCUCgGGCGagacauCGAGGCCCAuGGCCa -3'
miRNA:   3'- gCaGUGAG-UCGU------GCUCUGGGU-UCGGc -5'
23344 3' -55.8 NC_005259.1 + 39341 0.68 0.657664
Target:  5'- cCGUCaACUCGacCACGAcGugCCGGGCCu -3'
miRNA:   3'- -GCAG-UGAGUc-GUGCU-CugGGUUCGGc -5'
23344 3' -55.8 NC_005259.1 + 13514 0.68 0.636148
Target:  5'- gGUCugUCGGuCAcCGAGACUgcGGCCa -3'
miRNA:   3'- gCAGugAGUC-GU-GCUCUGGguUCGGc -5'
23344 3' -55.8 NC_005259.1 + 55022 0.68 0.614618
Target:  5'- gGUCGuCUCGGCACGGGcuGCCgAGGUg- -3'
miRNA:   3'- gCAGU-GAGUCGUGCUC--UGGgUUCGgc -5'
23344 3' -55.8 NC_005259.1 + 61086 0.69 0.597432
Target:  5'- gCGUCG-UCGGCcuCGGGcuuguugagccaguaGCCCGAGCCGa -3'
miRNA:   3'- -GCAGUgAGUCGu-GCUC---------------UGGGUUCGGC- -5'
23344 3' -55.8 NC_005259.1 + 56858 0.69 0.582453
Target:  5'- uGUUGgUCAGUGCGAGcacACCCucgauGAGCCGa -3'
miRNA:   3'- gCAGUgAGUCGUGCUC---UGGG-----UUCGGC- -5'
23344 3' -55.8 NC_005259.1 + 61936 0.69 0.561193
Target:  5'- gGUCuCUC-GCGCGGGugCCGGGgCCa -3'
miRNA:   3'- gCAGuGAGuCGUGCUCugGGUUC-GGc -5'
23344 3' -55.8 NC_005259.1 + 2749 0.69 0.561193
Target:  5'- gGUCGCcgucgugCAGUACGAccaccucCCCGAGCCGa -3'
miRNA:   3'- gCAGUGa------GUCGUGCUcu-----GGGUUCGGC- -5'
23344 3' -55.8 NC_005259.1 + 2941 0.7 0.509116
Target:  5'- gCGUCcaaggcGCGCGAGACCCuGGCCa -3'
miRNA:   3'- -GCAGugagu-CGUGCUCUGGGuUCGGc -5'
23344 3' -55.8 NC_005259.1 + 42921 0.7 0.498936
Target:  5'- gGUgGCcuUgAGCAUGAGGCCCucGCCGu -3'
miRNA:   3'- gCAgUG--AgUCGUGCUCUGGGuuCGGC- -5'
23344 3' -55.8 NC_005259.1 + 4175 0.71 0.449505
Target:  5'- gGUCACgcugCuGCGCGAGACCaaccgCAAGCuCGa -3'
miRNA:   3'- gCAGUGa---GuCGUGCUCUGG-----GUUCG-GC- -5'
23344 3' -55.8 NC_005259.1 + 39478 0.72 0.430499
Target:  5'- uCGUCGCggUAGCACGAGAUaUCGAGCUu -3'
miRNA:   3'- -GCAGUGa-GUCGUGCUCUG-GGUUCGGc -5'
23344 3' -55.8 NC_005259.1 + 62863 0.72 0.421174
Target:  5'- aGcCGCUCGGCGCGAGG--UAGGCCGc -3'
miRNA:   3'- gCaGUGAGUCGUGCUCUggGUUCGGC- -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.