miRNA display CGI


Results 1 - 20 of 94 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
33402 5' -56.5 NC_007605.1 + 108789 0.66 0.925094
Target:  5'- uCACCCGgGGuGAGCaguCUCUcccGGGCUUgCCa -3'
miRNA:   3'- -GUGGGUgCC-UUCGg--GAGA---CCUGAA-GG- -5'
33402 5' -56.5 NC_007605.1 + 93399 0.66 0.925094
Target:  5'- gCGCCUggcGCGGGuucuuuaaccaGGUccuCCUCUGGACUguggCCc -3'
miRNA:   3'- -GUGGG---UGCCU-----------UCG---GGAGACCUGAa---GG- -5'
33402 5' -56.5 NC_007605.1 + 153510 0.66 0.923487
Target:  5'- aGCCCACaGGuAGCCCUUguguaaaugacucuUGGAagggCCg -3'
miRNA:   3'- gUGGGUG-CCuUCGGGAG--------------ACCUgaa-GG- -5'
33402 5' -56.5 NC_007605.1 + 10970 0.66 0.919657
Target:  5'- gCACCCgGCGGAccCCCggagUCUGGACguggCUg -3'
miRNA:   3'- -GUGGG-UGCCUucGGG----AGACCUGaa--GG- -5'
33402 5' -56.5 NC_007605.1 + 12155 0.66 0.919657
Target:  5'- gGCCCGucCGGc-GCCCUCUcGGACgcgCUc -3'
miRNA:   3'- gUGGGU--GCCuuCGGGAGA-CCUGaa-GG- -5'
33402 5' -56.5 NC_007605.1 + 65884 0.66 0.919657
Target:  5'- uGCCCAgGGGgcucagauuuccAGCCCUaugucccGGGCUUUCc -3'
miRNA:   3'- gUGGGUgCCU------------UCGGGAga-----CCUGAAGG- -5'
33402 5' -56.5 NC_007605.1 + 158655 0.66 0.913988
Target:  5'- gACCCGgGGAGgcacccugagguGCCCcgaccUCUGGACU-CUg -3'
miRNA:   3'- gUGGGUgCCUU------------CGGG-----AGACCUGAaGG- -5'
33402 5' -56.5 NC_007605.1 + 109927 0.66 0.913988
Target:  5'- uCAUCCACGucGGCCaUCUGGACc--- -3'
miRNA:   3'- -GUGGGUGCcuUCGGgAGACCUGaagg -5'
33402 5' -56.5 NC_007605.1 + 97166 0.66 0.913988
Target:  5'- gGCCUcaaacacugacauuGCGGAGGCcauccucgaugccauCCUCUcgcggccugacgaGGGCUUCCg -3'
miRNA:   3'- gUGGG--------------UGCCUUCG---------------GGAGA-------------CCUGAAGG- -5'
33402 5' -56.5 NC_007605.1 + 56062 0.66 0.913408
Target:  5'- gACCgACGGGcaucuuaucagagAGgCCUCUGGGg-UCCa -3'
miRNA:   3'- gUGGgUGCCU-------------UCgGGAGACCUgaAGG- -5'
33402 5' -56.5 NC_007605.1 + 105353 0.66 0.913408
Target:  5'- -uCCCACGGggGCgCCcCUGGcagagagguggcaGCgggCCa -3'
miRNA:   3'- guGGGUGCCuuCG-GGaGACC-------------UGaa-GG- -5'
33402 5' -56.5 NC_007605.1 + 51271 0.66 0.908089
Target:  5'- cCACCUucucuaagaGGggGCUCUgUGGGCUgggagggCCa -3'
miRNA:   3'- -GUGGGug-------CCuuCGGGAgACCUGAa------GG- -5'
33402 5' -56.5 NC_007605.1 + 159514 0.66 0.901961
Target:  5'- aGCCgGCcGggGCaCCUCcGGGCUcUCCc -3'
miRNA:   3'- gUGGgUGcCuuCG-GGAGaCCUGA-AGG- -5'
33402 5' -56.5 NC_007605.1 + 169321 0.66 0.901961
Target:  5'- cCGgCCACcaGAagGGCCCUCUGGAag-CCc -3'
miRNA:   3'- -GUgGGUGc-CU--UCGGGAGACCUgaaGG- -5'
33402 5' -56.5 NC_007605.1 + 61636 0.66 0.901961
Target:  5'- uCGCCCACGGuuuGAGCacCCUCau--CUUCCa -3'
miRNA:   3'- -GUGGGUGCC---UUCG--GGAGaccuGAAGG- -5'
33402 5' -56.5 NC_007605.1 + 1122 0.66 0.895608
Target:  5'- -cCCCACGGggGUCUUucCUGGGgggCCu -3'
miRNA:   3'- guGGGUGCCuuCGGGA--GACCUgaaGG- -5'
33402 5' -56.5 NC_007605.1 + 9878 0.67 0.891688
Target:  5'- gGCCagCGCGGAggaguacucugaccuGGCCCUCUuuguggacggGGGCUcCCg -3'
miRNA:   3'- gUGG--GUGCCU---------------UCGGGAGA----------CCUGAaGG- -5'
33402 5' -56.5 NC_007605.1 + 68926 0.67 0.889031
Target:  5'- uGCCUaAUGGccGUCCUCUGGACg--- -3'
miRNA:   3'- gUGGG-UGCCuuCGGGAGACCUGaagg -5'
33402 5' -56.5 NC_007605.1 + 18566 0.67 0.889031
Target:  5'- gACCCAaagugaGGggGCCUgagaCUGGAC--CCu -3'
miRNA:   3'- gUGGGUg-----CCuuCGGGa---GACCUGaaGG- -5'
33402 5' -56.5 NC_007605.1 + 122564 0.67 0.889031
Target:  5'- gGCUCgucGCGGgcGUCCUCUGGAgCUUg- -3'
miRNA:   3'- gUGGG---UGCCuuCGGGAGACCU-GAAgg -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.