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
19464 5' -59.5 NC_004685.1 + 34657 0.66 0.541692
Target:  5'- gCUCUGGCagcgcgccggCGAGUucGG-CGAGGACGUg -3'
miRNA:   3'- -GAGACCG----------GCUCGuaCCgGCUCCUGUA- -5'
19464 5' -59.5 NC_004685.1 + 67088 0.66 0.541692
Target:  5'- ---aGGCCGAGCGguaugccgcccUGGCggcgacguucggUGAGGACAa -3'
miRNA:   3'- gagaCCGGCUCGU-----------ACCG------------GCUCCUGUa -5'
19464 5' -59.5 NC_004685.1 + 16541 0.66 0.541692
Target:  5'- ---cGGCUGGGCGUGcucgacguggaGCCGAGcGACGa -3'
miRNA:   3'- gagaCCGGCUCGUAC-----------CGGCUC-CUGUa -5'
19464 5' -59.5 NC_004685.1 + 47282 0.66 0.531341
Target:  5'- aUgaGGCCGcggagcgguGGCguGUGGCCGAGGAg-- -3'
miRNA:   3'- gAgaCCGGC---------UCG--UACCGGCUCCUgua -5'
19464 5' -59.5 NC_004685.1 + 14874 0.66 0.510862
Target:  5'- aUCUGGCCGAGaaggcgaaGGCCcgcGAGGAg-- -3'
miRNA:   3'- gAGACCGGCUCgua-----CCGG---CUCCUgua -5'
19464 5' -59.5 NC_004685.1 + 39546 0.66 0.510862
Target:  5'- --aUGGCCGGggcuGCcgGGCCGAGuGCGg -3'
miRNA:   3'- gagACCGGCU----CGuaCCGGCUCcUGUa -5'
19464 5' -59.5 NC_004685.1 + 31444 0.66 0.500746
Target:  5'- -cCUcGCCGAugguGCcggGGCCGAGGACGc -3'
miRNA:   3'- gaGAcCGGCU----CGua-CCGGCUCCUGUa -5'
19464 5' -59.5 NC_004685.1 + 5417 0.66 0.500746
Target:  5'- -gCUGGCCGAGgAggacagccUGGCCaGGGugGa -3'
miRNA:   3'- gaGACCGGCUCgU--------ACCGGcUCCugUa -5'
19464 5' -59.5 NC_004685.1 + 19696 0.67 0.470953
Target:  5'- ---cGGCCGuGGCG-GGCCGAGG-CGUu -3'
miRNA:   3'- gagaCCGGC-UCGUaCCGGCUCCuGUA- -5'
19464 5' -59.5 NC_004685.1 + 13322 0.67 0.461222
Target:  5'- -gCUGGCUGAGCuggcccgcGUGGCCGaAGuGCAg -3'
miRNA:   3'- gaGACCGGCUCG--------UACCGGC-UCcUGUa -5'
19464 5' -59.5 NC_004685.1 + 65512 0.67 0.451599
Target:  5'- -aCUGGCCGAGC-UGGC---GGGCGUc -3'
miRNA:   3'- gaGACCGGCUCGuACCGgcuCCUGUA- -5'
19464 5' -59.5 NC_004685.1 + 8120 0.67 0.450643
Target:  5'- -gCUGGCCGAgGCcgGGuuccgcaucaucuCCGAGGAUg- -3'
miRNA:   3'- gaGACCGGCU-CGuaCC-------------GGCUCCUGua -5'
19464 5' -59.5 NC_004685.1 + 3092 0.68 0.423408
Target:  5'- uUCUGGaCCGucGCGUGGCgcaaccCGAGGGCc- -3'
miRNA:   3'- gAGACC-GGCu-CGUACCG------GCUCCUGua -5'
19464 5' -59.5 NC_004685.1 + 68505 0.68 0.40881
Target:  5'- aCUCUGcagagcuggacgacuGCCGcuGCAcgaUGGCCGAGGGCc- -3'
miRNA:   3'- -GAGAC---------------CGGCu-CGU---ACCGGCUCCUGua -5'
19464 5' -59.5 NC_004685.1 + 53962 0.68 0.40521
Target:  5'- -cCUGcGCCGAGCcccaacucgggGUGGCCcAGGACu- -3'
miRNA:   3'- gaGAC-CGGCUCG-----------UACCGGcUCCUGua -5'
19464 5' -59.5 NC_004685.1 + 49614 0.68 0.387514
Target:  5'- -gCUGGCCGAcgaacGCcagGUGGUCGAGGAa-- -3'
miRNA:   3'- gaGACCGGCU-----CG---UACCGGCUCCUgua -5'
19464 5' -59.5 NC_004685.1 + 46766 0.69 0.370332
Target:  5'- -gCUGGCCGu-CAUcGGCCGGGGAUu- -3'
miRNA:   3'- gaGACCGGCucGUA-CCGGCUCCUGua -5'
19464 5' -59.5 NC_004685.1 + 41797 0.69 0.370332
Target:  5'- uUCUGGUCGuugagcuugaccAGCuucgacguggGGCCGAGGGCGa -3'
miRNA:   3'- gAGACCGGC------------UCGua--------CCGGCUCCUGUa -5'
19464 5' -59.5 NC_004685.1 + 10045 0.69 0.35368
Target:  5'- aCUUggGGCCGuGCGUGGugcCCGAGGAgGc -3'
miRNA:   3'- -GAGa-CCGGCuCGUACC---GGCUCCUgUa -5'
19464 5' -59.5 NC_004685.1 + 37127 0.69 0.329707
Target:  5'- uUCUGcGCCGcgaucugcuccGGCGUGGCCGGGccGACGc -3'
miRNA:   3'- gAGAC-CGGC-----------UCGUACCGGCUC--CUGUa -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.