miRNA display CGI


Results 1 - 20 of 57 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
19513 3' -55.4 NC_004685.1 + 32739 0.66 0.809938
Target:  5'- aGCC-GAGCCGggUGGUGGaccggcCGCCAg- -3'
miRNA:   3'- -CGGcCUUGGCuaGCCACCa-----GUGGUag -5'
19513 3' -55.4 NC_004685.1 + 47065 0.66 0.800646
Target:  5'- aCCGGGAucaccCCGG-CGGUcGcCACCAUCa -3'
miRNA:   3'- cGGCCUU-----GGCUaGCCAcCaGUGGUAG- -5'
19513 3' -55.4 NC_004685.1 + 40746 0.66 0.800646
Target:  5'- gGCCGGggUgGAUgGGauucGGgcugaaCACCAUCc -3'
miRNA:   3'- -CGGCCuuGgCUAgCCa---CCa-----GUGGUAG- -5'
19513 3' -55.4 NC_004685.1 + 46828 0.66 0.791188
Target:  5'- aGCCGGGcGCCGAcaccUCGGUcuUCACCu-- -3'
miRNA:   3'- -CGGCCU-UGGCU----AGCCAccAGUGGuag -5'
19513 3' -55.4 NC_004685.1 + 55053 0.66 0.791188
Target:  5'- -gCGGucGCCG--CGGUGGUUuCCAUCg -3'
miRNA:   3'- cgGCCu-UGGCuaGCCACCAGuGGUAG- -5'
19513 3' -55.4 NC_004685.1 + 58313 0.66 0.791188
Target:  5'- cGCCaGccuCCGG-CGaGUGGUCACCAg- -3'
miRNA:   3'- -CGGcCuu-GGCUaGC-CACCAGUGGUag -5'
19513 3' -55.4 NC_004685.1 + 32873 0.66 0.791188
Target:  5'- cGuuGGGGCCGGUgcCGGUGaugacgCACCAg- -3'
miRNA:   3'- -CggCCUUGGCUA--GCCACca----GUGGUag -5'
19513 3' -55.4 NC_004685.1 + 17830 0.66 0.788319
Target:  5'- gGCCGGc-CUGAagUCGGUGaGcgggaugcuggugcUCACCGUCa -3'
miRNA:   3'- -CGGCCuuGGCU--AGCCAC-C--------------AGUGGUAG- -5'
19513 3' -55.4 NC_004685.1 + 61585 0.66 0.781571
Target:  5'- uCCaGGAAcacCCGGUCGGUcuuGGUCagACCGUUg -3'
miRNA:   3'- cGG-CCUU---GGCUAGCCA---CCAG--UGGUAG- -5'
19513 3' -55.4 NC_004685.1 + 93 0.66 0.781571
Target:  5'- uGCCgGGGGCCuGUUGGcgUGGaCGCCGUUg -3'
miRNA:   3'- -CGG-CCUUGGcUAGCC--ACCaGUGGUAG- -5'
19513 3' -55.4 NC_004685.1 + 63102 0.66 0.781571
Target:  5'- cGCUGGggUCGcgcucGUCGGUGGcgagCACgAUg -3'
miRNA:   3'- -CGGCCuuGGC-----UAGCCACCa---GUGgUAg -5'
19513 3' -55.4 NC_004685.1 + 66452 0.66 0.780601
Target:  5'- aGCCGGAcuccucgGCCGccUUGGUGGggacgUACCAc- -3'
miRNA:   3'- -CGGCCU-------UGGCu-AGCCACCa----GUGGUag -5'
19513 3' -55.4 NC_004685.1 + 35611 0.66 0.780601
Target:  5'- uGCCGGAucagcuuccacacGCCGAagGGcUGGcagcaCAUCAUCg -3'
miRNA:   3'- -CGGCCU-------------UGGCUagCC-ACCa----GUGGUAG- -5'
19513 3' -55.4 NC_004685.1 + 29321 0.66 0.771807
Target:  5'- gGCUGGGGCCGAugaUCGGcaaucUCACCAc- -3'
miRNA:   3'- -CGGCCUUGGCU---AGCCacc--AGUGGUag -5'
19513 3' -55.4 NC_004685.1 + 36786 0.66 0.771807
Target:  5'- uGUCGGGcACCGccaugccgcccAUCaGGUGGaaCACCAUCg -3'
miRNA:   3'- -CGGCCU-UGGC-----------UAG-CCACCa-GUGGUAG- -5'
19513 3' -55.4 NC_004685.1 + 62312 0.66 0.771807
Target:  5'- cGUCGGGACC-AUC-GUGGgCACCgAUCa -3'
miRNA:   3'- -CGGCCUUGGcUAGcCACCaGUGG-UAG- -5'
19513 3' -55.4 NC_004685.1 + 62401 0.66 0.771807
Target:  5'- uGCuCGuGAugCGAcaggugcCaGUGGUCGCCGUCg -3'
miRNA:   3'- -CG-GC-CUugGCUa------GcCACCAGUGGUAG- -5'
19513 3' -55.4 NC_004685.1 + 59408 0.67 0.751879
Target:  5'- cGCCGGAcagaaucucGCCGAUCuc--GUCACgGUCg -3'
miRNA:   3'- -CGGCCU---------UGGCUAGccacCAGUGgUAG- -5'
19513 3' -55.4 NC_004685.1 + 67386 0.67 0.741736
Target:  5'- cGCUGGAGCC--UCGGcccGGUCGaCAUCu -3'
miRNA:   3'- -CGGCCUUGGcuAGCCa--CCAGUgGUAG- -5'
19513 3' -55.4 NC_004685.1 + 55690 0.67 0.731488
Target:  5'- cGCCGGAACCGAg----GGUgACCuugCg -3'
miRNA:   3'- -CGGCCUUGGCUagccaCCAgUGGua-G- -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.