miRNA display CGI


Results 1 - 20 of 84 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
23298 3' -63.4 NC_005259.1 + 58810 0.66 0.39355
Target:  5'- -cUCGGcgGGCuCGCgCUGCuCGGcacccucGCCGCCc -3'
miRNA:   3'- cuAGCUa-CCG-GCG-GACG-GCC-------CGGCGG- -5'
23298 3' -63.4 NC_005259.1 + 64425 0.66 0.38597
Target:  5'- uGAggGAUcGCCGacgagCUGCCGGGgCGCUg -3'
miRNA:   3'- -CUagCUAcCGGCg----GACGGCCCgGCGG- -5'
23298 3' -63.4 NC_005259.1 + 48600 0.66 0.38597
Target:  5'- uGUCGAgcgcgGGCgcuaccgccgugCGCaCUGCCucgccgagacGGGCUGCCa -3'
miRNA:   3'- cUAGCUa----CCG------------GCG-GACGG----------CCCGGCGG- -5'
23298 3' -63.4 NC_005259.1 + 36656 0.66 0.38597
Target:  5'- --gCGAgccGCCGCCcucGCCGccGCCGCCg -3'
miRNA:   3'- cuaGCUac-CGGCGGa--CGGCc-CGGCGG- -5'
23298 3' -63.4 NC_005259.1 + 5353 0.66 0.38597
Target:  5'- -uUCGcAUGaGCCGaCCUaucgcGCCGGGCaaguGCCc -3'
miRNA:   3'- cuAGC-UAC-CGGC-GGA-----CGGCCCGg---CGG- -5'
23298 3' -63.4 NC_005259.1 + 37215 0.66 0.37766
Target:  5'- --cCGcc-GCCGCC-GCCGGGgCGCUg -3'
miRNA:   3'- cuaGCuacCGGCGGaCGGCCCgGCGG- -5'
23298 3' -63.4 NC_005259.1 + 26110 0.66 0.376836
Target:  5'- cGAgcaGAccGCCGCC-GCCGGucgccgguccgacGCCGCCg -3'
miRNA:   3'- -CUag-CUacCGGCGGaCGGCC-------------CGGCGG- -5'
23298 3' -63.4 NC_005259.1 + 4413 0.66 0.372733
Target:  5'- --aCGAgGGCCGCCaccgcgcgcccgagGUCGaGCCGCCc -3'
miRNA:   3'- cuaGCUaCCGGCGGa-------------CGGCcCGGCGG- -5'
23298 3' -63.4 NC_005259.1 + 44228 0.66 0.369472
Target:  5'- -uUCGA--GCuCGCCcGCCGcGCCGCCc -3'
miRNA:   3'- cuAGCUacCG-GCGGaCGGCcCGGCGG- -5'
23298 3' -63.4 NC_005259.1 + 65856 0.66 0.369472
Target:  5'- --aUGGUGGCCuccGUCUGCCccggugGGGCgGUCa -3'
miRNA:   3'- cuaGCUACCGG---CGGACGG------CCCGgCGG- -5'
23298 3' -63.4 NC_005259.1 + 55894 0.66 0.369472
Target:  5'- -cUCGggGGUCGC--GCCGGGgUCGCUg -3'
miRNA:   3'- cuAGCuaCCGGCGgaCGGCCC-GGCGG- -5'
23298 3' -63.4 NC_005259.1 + 63638 0.66 0.369472
Target:  5'- cAUCG-UGGCgagcugcuCGCUgGCCGGGaCGCCg -3'
miRNA:   3'- cUAGCuACCG--------GCGGaCGGCCCgGCGG- -5'
23298 3' -63.4 NC_005259.1 + 62930 0.66 0.361407
Target:  5'- -cUCGGUuugcGGCuCGCgcugCUGCCGGGCacCGCUg -3'
miRNA:   3'- cuAGCUA----CCG-GCG----GACGGCCCG--GCGG- -5'
23298 3' -63.4 NC_005259.1 + 46920 0.66 0.361407
Target:  5'- --cCGcGUGcGCCGCCgagcuugcccGCCGcGCCGCCg -3'
miRNA:   3'- cuaGC-UAC-CGGCGGa---------CGGCcCGGCGG- -5'
23298 3' -63.4 NC_005259.1 + 39899 0.66 0.361407
Target:  5'- uGUCGcc-GCCGCCcGCCucgauccgucgaGGGCCGCg -3'
miRNA:   3'- cUAGCuacCGGCGGaCGG------------CCCGGCGg -5'
23298 3' -63.4 NC_005259.1 + 18698 0.66 0.361407
Target:  5'- -cUUGAgcacGGCgGUCUGaccucgaucaUCGGGCCGCCc -3'
miRNA:   3'- cuAGCUa---CCGgCGGAC----------GGCCCGGCGG- -5'
23298 3' -63.4 NC_005259.1 + 44978 0.66 0.353464
Target:  5'- --cCGAgGGCCGgugcgaCUGCCGaGGCacCGCCg -3'
miRNA:   3'- cuaGCUaCCGGCg-----GACGGC-CCG--GCGG- -5'
23298 3' -63.4 NC_005259.1 + 32357 0.67 0.345646
Target:  5'- aGGUUGAUGaCCGCCguguagGgCGGGCacugccCGCCg -3'
miRNA:   3'- -CUAGCUACcGGCGGa-----CgGCCCG------GCGG- -5'
23298 3' -63.4 NC_005259.1 + 35502 0.67 0.345646
Target:  5'- gGGUUGGccccguuGCCGCCgccGCCGGGCacacCGCCc -3'
miRNA:   3'- -CUAGCUac-----CGGCGGa--CGGCCCG----GCGG- -5'
23298 3' -63.4 NC_005259.1 + 780 0.67 0.337953
Target:  5'- --cCGAggcGGCUGCCcucgGuuGGGUgGCCa -3'
miRNA:   3'- cuaGCUa--CCGGCGGa---CggCCCGgCGG- -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.