miRNA display CGI


Results 1 - 20 of 32 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
19564 3' -59.7 NC_004686.1 + 51085 0.77 0.089577
Target:  5'- aGCGGCGGCaUUCUCGucCGCCGCgAg -3'
miRNA:   3'- gCGCCGCCGaAGGAGCuuGCGGUGgU- -5'
19564 3' -59.7 NC_004686.1 + 5271 0.66 0.503427
Target:  5'- uGCGGCucugucggguucgccGGCgaagaUCCUCGA-CaCCACCAa -3'
miRNA:   3'- gCGCCG---------------CCGa----AGGAGCUuGcGGUGGU- -5'
19564 3' -59.7 NC_004686.1 + 38639 0.66 0.489424
Target:  5'- --aGGUGGCgUUCUUCGu-CGCCGCUg -3'
miRNA:   3'- gcgCCGCCG-AAGGAGCuuGCGGUGGu -5'
19564 3' -59.7 NC_004686.1 + 18831 0.66 0.469743
Target:  5'- gGCGGCGGUgcgCgaCGAGa-CCGCCAa -3'
miRNA:   3'- gCGCCGCCGaa-GgaGCUUgcGGUGGU- -5'
19564 3' -59.7 NC_004686.1 + 21847 0.66 0.469743
Target:  5'- gCGCgGGCGGCggCUcCGGACGgCGCUc -3'
miRNA:   3'- -GCG-CCGCCGaaGGaGCUUGCgGUGGu -5'
19564 3' -59.7 NC_004686.1 + 7009 0.66 0.469743
Target:  5'- uGUGGUGGCg--UUCGAGgaaGCCGCCGc -3'
miRNA:   3'- gCGCCGCCGaagGAGCUUg--CGGUGGU- -5'
19564 3' -59.7 NC_004686.1 + 47307 0.66 0.468769
Target:  5'- uGCGccgccuacgacccGUGGUUUCCgcagcCGAaccGCGCCACCGu -3'
miRNA:   3'- gCGC-------------CGCCGAAGGa----GCU---UGCGGUGGU- -5'
19564 3' -59.7 NC_004686.1 + 51528 0.67 0.460055
Target:  5'- uCGCGGCGugggacGCg--CUC-AACGCCGCCAc -3'
miRNA:   3'- -GCGCCGC------CGaagGAGcUUGCGGUGGU- -5'
19564 3' -59.7 NC_004686.1 + 37051 0.68 0.386674
Target:  5'- cCGUGGuUGGCgcgCCUgGAGCGUCagGCCAu -3'
miRNA:   3'- -GCGCC-GCCGaa-GGAgCUUGCGG--UGGU- -5'
19564 3' -59.7 NC_004686.1 + 44806 0.68 0.361215
Target:  5'- uGCGGCGGUgauguacacggUUUCUgGGACGUgGCCc -3'
miRNA:   3'- gCGCCGCCG-----------AAGGAgCUUGCGgUGGu -5'
19564 3' -59.7 NC_004686.1 + 12176 0.72 0.216511
Target:  5'- aGCGGCGGCgUUCgcaaUCGGguugggugcuaACGCCGCUAa -3'
miRNA:   3'- gCGCCGCCG-AAGg---AGCU-----------UGCGGUGGU- -5'
19564 3' -59.7 NC_004686.1 + 40107 0.72 0.216511
Target:  5'- -uCGGCGGCcugUCCgagcgUGAACGCCgACCAc -3'
miRNA:   3'- gcGCCGCCGa--AGGa----GCUUGCGG-UGGU- -5'
19564 3' -59.7 NC_004686.1 + 52476 0.72 0.222107
Target:  5'- aGCGGUGGCaccacaagugUCUUCaGAGCGCC-CCAa -3'
miRNA:   3'- gCGCCGCCGa---------AGGAG-CUUGCGGuGGU- -5'
19564 3' -59.7 NC_004686.1 + 8461 0.71 0.233668
Target:  5'- cCGCGGUGGgaCUUCCUCGAugAgGCCAguguCCGu -3'
miRNA:   3'- -GCGCCGCC--GAAGGAGCU--UgCGGU----GGU- -5'
19564 3' -59.7 NC_004686.1 + 24454 0.7 0.292042
Target:  5'- uGCGGCGGCggCCgccaccaugUCGAGa-CCACCGa -3'
miRNA:   3'- gCGCCGCCGaaGG---------AGCUUgcGGUGGU- -5'
19564 3' -59.7 NC_004686.1 + 22124 0.69 0.336946
Target:  5'- aGUGGCGcGCgcggCCUCG-GCGgCACCGc -3'
miRNA:   3'- gCGCCGC-CGaa--GGAGCuUGCgGUGGU- -5'
19564 3' -59.7 NC_004686.1 + 3803 0.66 0.509481
Target:  5'- cCGCcauGGCGGCUUCgCUCc-ACGUCuCCAa -3'
miRNA:   3'- -GCG---CCGCCGAAG-GAGcuUGCGGuGGU- -5'
19564 3' -59.7 NC_004686.1 + 1363 0.72 0.200443
Target:  5'- gCGCGGCGGCguaCCcauaaaGAACGCCAacCCGa -3'
miRNA:   3'- -GCGCCGCCGaa-GGag----CUUGCGGU--GGU- -5'
19564 3' -59.7 NC_004686.1 + 50685 0.72 0.200443
Target:  5'- cCGCGGCGGCUUCCUCuu-UGgC-CCGg -3'
miRNA:   3'- -GCGCCGCCGAAGGAGcuuGCgGuGGU- -5'
19564 3' -59.7 NC_004686.1 + 10659 0.72 0.222107
Target:  5'- gCGCGGCGGCUuucgUCUUCGcAGC-CCACg- -3'
miRNA:   3'- -GCGCCGCCGA----AGGAGC-UUGcGGUGgu -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.