miRNA display CGI


Results 1 - 20 of 42 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
23340 3' -57 NC_005259.1 + 45927 0.66 0.703032
Target:  5'- aCCGaGGCUcUGCCCGuGCAGAUC-CCu -3'
miRNA:   3'- aGGUaCUGGaGUGGGC-CGUCUAGcGG- -5'
23340 3' -57 NC_005259.1 + 40158 0.66 0.703032
Target:  5'- gUCgGUG-CC-CGcCCCGGCAGcUCGaCCg -3'
miRNA:   3'- -AGgUACuGGaGU-GGGCCGUCuAGC-GG- -5'
23340 3' -57 NC_005259.1 + 19438 0.66 0.692544
Target:  5'- ----cGACCUCGCCCcgaGGCugucaucgAGAcCGCCg -3'
miRNA:   3'- agguaCUGGAGUGGG---CCG--------UCUaGCGG- -5'
23340 3' -57 NC_005259.1 + 37265 0.66 0.682
Target:  5'- gCCA-GGCUUgaggcCGCCCGGCAGGacUUGCa -3'
miRNA:   3'- aGGUaCUGGA-----GUGGGCCGUCU--AGCGg -5'
23340 3' -57 NC_005259.1 + 22541 0.66 0.682
Target:  5'- uUCCAgcaguccGACCUCGCCgaGGUcauGGAagcCGCCa -3'
miRNA:   3'- -AGGUa------CUGGAGUGGg-CCG---UCUa--GCGG- -5'
23340 3' -57 NC_005259.1 + 19860 0.66 0.682
Target:  5'- --uGUGGCgCUCGCgCCcGCcgGGAUCGCCg -3'
miRNA:   3'- aggUACUG-GAGUG-GGcCG--UCUAGCGG- -5'
23340 3' -57 NC_005259.1 + 68758 0.66 0.671412
Target:  5'- cCCGgcGACCUCGCCaucgguguacuUGaGCAGGUCGUa -3'
miRNA:   3'- aGGUa-CUGGAGUGG-----------GC-CGUCUAGCGg -5'
23340 3' -57 NC_005259.1 + 23967 0.66 0.670351
Target:  5'- gCCGauUGACCUCguACCCGcGCGccaccacGGUgGCCa -3'
miRNA:   3'- aGGU--ACUGGAG--UGGGC-CGU-------CUAgCGG- -5'
23340 3' -57 NC_005259.1 + 55802 0.67 0.660789
Target:  5'- gUCCuccGACggCUCACCCucggGGUAGGcCGCCg -3'
miRNA:   3'- -AGGua-CUG--GAGUGGG----CCGUCUaGCGG- -5'
23340 3' -57 NC_005259.1 + 7604 0.67 0.660789
Target:  5'- gUCgGUGAcacCCUCACCCacgagGGCcGGAccuacaccgUCGCCg -3'
miRNA:   3'- -AGgUACU---GGAGUGGG-----CCG-UCU---------AGCGG- -5'
23340 3' -57 NC_005259.1 + 27890 0.67 0.639477
Target:  5'- aCCAcGAUC-CACCUGG--GGUCGCCg -3'
miRNA:   3'- aGGUaCUGGaGUGGGCCguCUAGCGG- -5'
23340 3' -57 NC_005259.1 + 26547 0.67 0.639477
Target:  5'- aCCAcGAUCUCACCgaGGCuGuagcCGCCg -3'
miRNA:   3'- aGGUaCUGGAGUGGg-CCGuCua--GCGG- -5'
23340 3' -57 NC_005259.1 + 58418 0.67 0.61814
Target:  5'- aUCAgaGAUC-CACCgGGCAGAUUGCg -3'
miRNA:   3'- aGGUa-CUGGaGUGGgCCGUCUAGCGg -5'
23340 3' -57 NC_005259.1 + 20162 0.67 0.61814
Target:  5'- gCCcUGGCCaccgCGCCCgccgccucGGCugacgAGAUCGCCg -3'
miRNA:   3'- aGGuACUGGa---GUGGG--------CCG-----UCUAGCGG- -5'
23340 3' -57 NC_005259.1 + 31539 0.67 0.607485
Target:  5'- gCCGUGAUagaUCGCCUuGUAGggUGCCg -3'
miRNA:   3'- aGGUACUGg--AGUGGGcCGUCuaGCGG- -5'
23340 3' -57 NC_005259.1 + 18967 0.68 0.596849
Target:  5'- --gGUGACCUCgccgcguacaucGCCCGGCAcgaGAUCGg- -3'
miRNA:   3'- aggUACUGGAG------------UGGGCCGU---CUAGCgg -5'
23340 3' -57 NC_005259.1 + 67830 0.68 0.596849
Target:  5'- gUCCucGACCggcaGCCCGGUgagcGGGUCGaCCa -3'
miRNA:   3'- -AGGuaCUGGag--UGGGCCG----UCUAGC-GG- -5'
23340 3' -57 NC_005259.1 + 44840 0.68 0.596849
Target:  5'- aUCCGacACCgCGCCCGaGCAG-UCGCUc -3'
miRNA:   3'- -AGGUacUGGaGUGGGC-CGUCuAGCGG- -5'
23340 3' -57 NC_005259.1 + 48620 0.68 0.586242
Target:  5'- gCCGUGcgcacuGCCUCGCCgagaCGGgcugcCAGAUCGUCg -3'
miRNA:   3'- aGGUAC------UGGAGUGG----GCC-----GUCUAGCGG- -5'
23340 3' -57 NC_005259.1 + 62546 0.68 0.57567
Target:  5'- gUCCGaGagauaGCCUCACCgGGCAGcg-GCCa -3'
miRNA:   3'- -AGGUaC-----UGGAGUGGgCCGUCuagCGG- -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.