miRNA display CGI


Results 1 - 19 of 19 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
21990 5' -54.8 NC_004914.1 + 32518 0.66 0.792612
Target:  5'- aGCCaCUGuCCAGAGGuuuuuggucuguugAUgAUGGCAGGCa -3'
miRNA:   3'- -CGGcGGC-GGUCUCU--------------UA-UACUGUCCGg -5'
21990 5' -54.8 NC_004914.1 + 21226 0.66 0.78578
Target:  5'- gGCgCGuuGCCAcGGGcaa--GGCGGGCCu -3'
miRNA:   3'- -CG-GCggCGGU-CUCuuauaCUGUCCGG- -5'
21990 5' -54.8 NC_004914.1 + 56531 0.66 0.75567
Target:  5'- cGCUGUgauggauggUGCCAGAcGGAc--GACGGGCCc -3'
miRNA:   3'- -CGGCG---------GCGGUCU-CUUauaCUGUCCGG- -5'
21990 5' -54.8 NC_004914.1 + 21411 0.67 0.722325
Target:  5'- cGCCGCugguCGCCAGGGGGaaacacucgaggGUGACAuGGUUc -3'
miRNA:   3'- -CGGCG----GCGGUCUCUUa-----------UACUGU-CCGG- -5'
21990 5' -54.8 NC_004914.1 + 2949 0.67 0.703146
Target:  5'- gGCUGCCGCCucag---GUG-CAGGCUg -3'
miRNA:   3'- -CGGCGGCGGucucuuaUACuGUCCGG- -5'
21990 5' -54.8 NC_004914.1 + 13217 0.67 0.703146
Target:  5'- aUUGUCGCCGGAaaaGAcaGUGaagGCAGGCCu -3'
miRNA:   3'- cGGCGGCGGUCU---CUuaUAC---UGUCCGG- -5'
21990 5' -54.8 NC_004914.1 + 45017 0.67 0.703146
Target:  5'- uGgCGCaaaGCCGGAGuGAUAacccgccagcuUGACGGGCa -3'
miRNA:   3'- -CgGCGg--CGGUCUC-UUAU-----------ACUGUCCGg -5'
21990 5' -54.8 NC_004914.1 + 19905 0.68 0.675068
Target:  5'- uGCUGCCGCCAuugcacucugccccuGugcacuuacaguGGAAUggGUGAuCAGGCCc -3'
miRNA:   3'- -CGGCGGCGGU---------------C------------UCUUA--UACU-GUCCGG- -5'
21990 5' -54.8 NC_004914.1 + 56271 0.68 0.659825
Target:  5'- uGCUuCUGCCGGAgGAGUAUGGCccaGCCu -3'
miRNA:   3'- -CGGcGGCGGUCU-CUUAUACUGuc-CGG- -5'
21990 5' -54.8 NC_004914.1 + 17334 0.68 0.636875
Target:  5'- aGCCGaacaggaUCGCCAGAuGAAUAuucUGACGGGg- -3'
miRNA:   3'- -CGGC-------GGCGGUCU-CUUAU---ACUGUCCgg -5'
21990 5' -54.8 NC_004914.1 + 1806 0.69 0.60517
Target:  5'- cGUCGCCGCUGGAuGGAUAccGAUgAGGCa -3'
miRNA:   3'- -CGGCGGCGGUCU-CUUAUa-CUG-UCCGg -5'
21990 5' -54.8 NC_004914.1 + 22875 0.7 0.557499
Target:  5'- uGCCGCCGCCuuacccuuaccacGGGcaccaaAUGcCAGGCCa -3'
miRNA:   3'- -CGGCGGCGGu------------CUCuua---UACuGUCCGG- -5'
21990 5' -54.8 NC_004914.1 + 37561 0.7 0.550003
Target:  5'- aGCCGCUGUgcuuuCAGGGGAUuucUGAUaacagaaAGGCCg -3'
miRNA:   3'- -CGGCGGCG-----GUCUCUUAu--ACUG-------UCCGG- -5'
21990 5' -54.8 NC_004914.1 + 55306 0.7 0.540412
Target:  5'- cGCUGguugauaaauuCCGUgCAGAccuggcGGAUAUGGCAGGCCa -3'
miRNA:   3'- -CGGC-----------GGCG-GUCU------CUUAUACUGUCCGG- -5'
21990 5' -54.8 NC_004914.1 + 62070 0.71 0.498538
Target:  5'- -aCGCCGCCAGAGAuaaacuCAGaGCUg -3'
miRNA:   3'- cgGCGGCGGUCUCUuauacuGUC-CGG- -5'
21990 5' -54.8 NC_004914.1 + 44361 0.71 0.468106
Target:  5'- aGCCGaaGCCAGAGAGgcaagaAGGCUa -3'
miRNA:   3'- -CGGCggCGGUCUCUUauacugUCCGG- -5'
21990 5' -54.8 NC_004914.1 + 25114 0.72 0.448358
Target:  5'- cCCGUCGCCGuGAGcuUAUccGugAGGCCg -3'
miRNA:   3'- cGGCGGCGGU-CUCuuAUA--CugUCCGG- -5'
21990 5' -54.8 NC_004914.1 + 24028 0.74 0.324477
Target:  5'- -aCGCCGCguGAGGAUGgcGCGGGCg -3'
miRNA:   3'- cgGCGGCGguCUCUUAUacUGUCCGg -5'
21990 5' -54.8 NC_004914.1 + 11502 1.14 0.000636
Target:  5'- uGCCGCCGCCAGAGAAUAUGACAGGCCu -3'
miRNA:   3'- -CGGCGGCGGUCUCUUAUACUGUCCGG- -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.