miRNA display CGI


Results 1 - 20 of 36 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
16290 3' -57.5 NC_004084.1 + 51340 0.66 0.604227
Target:  5'- uCGCCCUGAUUGuccACGaaccgcuGGAUCGCGGCc -3'
miRNA:   3'- uGUGGGGCUAGC---UGCc------CCUAGUGCUG- -5'
16290 3' -57.5 NC_004084.1 + 49960 0.67 0.561798
Target:  5'- -aGCCCCGAUCcuauGAUGGGGAagcugaACGGg -3'
miRNA:   3'- ugUGGGGCUAG----CUGCCCCUag----UGCUg -5'
16290 3' -57.5 NC_004084.1 + 48680 0.69 0.470058
Target:  5'- gACACCuCCGuaguaCGACGGGGccucgaAUCcgGCGACg -3'
miRNA:   3'- -UGUGG-GGCua---GCUGCCCC------UAG--UGCUG- -5'
16290 3' -57.5 NC_004084.1 + 46556 0.68 0.489842
Target:  5'- gAUGCCCUGGUCGGacuCGGcaucGGcAUCGCGGCg -3'
miRNA:   3'- -UGUGGGGCUAGCU---GCC----CC-UAGUGCUG- -5'
16290 3' -57.5 NC_004084.1 + 45171 0.66 0.647014
Target:  5'- -gAUCCCGA-CGACGGuGAgUACGGCa -3'
miRNA:   3'- ugUGGGGCUaGCUGCCcCUaGUGCUG- -5'
16290 3' -57.5 NC_004084.1 + 44031 0.66 0.657701
Target:  5'- uCGCCCCGAucUCGcCGaguGGGAggugCGCGAa -3'
miRNA:   3'- uGUGGGGCU--AGCuGC---CCCUa---GUGCUg -5'
16290 3' -57.5 NC_004084.1 + 43573 0.67 0.571287
Target:  5'- uCAUCCCGAcgaGGCGcggauccuccaguGGGAUCGCGAg -3'
miRNA:   3'- uGUGGGGCUag-CUGC-------------CCCUAGUGCUg -5'
16290 3' -57.5 NC_004084.1 + 42295 0.73 0.2642
Target:  5'- uCACCCguucaCGAUCGGCGacGAUCGCGACg -3'
miRNA:   3'- uGUGGG-----GCUAGCUGCccCUAGUGCUG- -5'
16290 3' -57.5 NC_004084.1 + 38998 1.09 0.000811
Target:  5'- aACACCCCGAUCGACGGGGAUCACGACu -3'
miRNA:   3'- -UGUGGGGCUAGCUGCCCCUAGUGCUG- -5'
16290 3' -57.5 NC_004084.1 + 38368 0.66 0.614911
Target:  5'- cUACgCCgGAUCGAgCGcGGGAagGCGACc -3'
miRNA:   3'- uGUG-GGgCUAGCU-GC-CCCUagUGCUG- -5'
16290 3' -57.5 NC_004084.1 + 37462 0.66 0.62561
Target:  5'- cGCAUCCCGAcccCGACGu-GAUCACGGu -3'
miRNA:   3'- -UGUGGGGCUa--GCUGCccCUAGUGCUg -5'
16290 3' -57.5 NC_004084.1 + 36313 0.68 0.489842
Target:  5'- gACGCCCUGAUCGAUGcccGUgACGACu -3'
miRNA:   3'- -UGUGGGGCUAGCUGCcccUAgUGCUG- -5'
16290 3' -57.5 NC_004084.1 + 36057 0.68 0.498871
Target:  5'- cAUACCCUGGUggggauaCGACGaGGAcCGCGACg -3'
miRNA:   3'- -UGUGGGGCUA-------GCUGCcCCUaGUGCUG- -5'
16290 3' -57.5 NC_004084.1 + 34798 0.66 0.645944
Target:  5'- gACGCCUCGAcgggccugacgcuUCGAgcgcaguuccCGGcGGAgCACGACg -3'
miRNA:   3'- -UGUGGGGCU-------------AGCU----------GCC-CCUaGUGCUG- -5'
16290 3' -57.5 NC_004084.1 + 31135 0.66 0.62561
Target:  5'- gGCGCCgCGAUCGucaGCGGuucGGAcCGCGAg -3'
miRNA:   3'- -UGUGGgGCUAGC---UGCC---CCUaGUGCUg -5'
16290 3' -57.5 NC_004084.1 + 30323 0.68 0.520219
Target:  5'- cGCACCCCGAaccguugaccgUCGGCGaGGuGGcCgACGGCg -3'
miRNA:   3'- -UGUGGGGCU-----------AGCUGC-CC-CUaG-UGCUG- -5'
16290 3' -57.5 NC_004084.1 + 30024 0.7 0.403377
Target:  5'- uACGCgCCGAUCGaggucucGCGGGGGccgcUCGCGuCg -3'
miRNA:   3'- -UGUGgGGCUAGC-------UGCCCCU----AGUGCuG- -5'
16290 3' -57.5 NC_004084.1 + 29666 0.66 0.604227
Target:  5'- uCGCgCCGGUagcucCGGGGGUuCGCGACg -3'
miRNA:   3'- uGUGgGGCUAgcu--GCCCCUA-GUGCUG- -5'
16290 3' -57.5 NC_004084.1 + 29351 0.72 0.313468
Target:  5'- gACGcCCCCGA---GCGGGcGGUCGCGGCc -3'
miRNA:   3'- -UGU-GGGGCUagcUGCCC-CUAGUGCUG- -5'
16290 3' -57.5 NC_004084.1 + 23862 0.67 0.572344
Target:  5'- aGCGCCCucgCGAUgGACGcGGuGAUCGCuucaGACg -3'
miRNA:   3'- -UGUGGG---GCUAgCUGC-CC-CUAGUG----CUG- -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.