miRNA display CGI


Results 1 - 20 of 27 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
28353 5' -57.3 NC_005946.1 + 38750 0.66 0.80372
Target:  5'- cGGAGACCUCCUgGgugaAGCCacuCuGGCUu -3'
miRNA:   3'- -CCUCUGGAGGAgU----UCGGgcuGcUCGA- -5'
28353 5' -57.3 NC_005946.1 + 28654 0.66 0.785423
Target:  5'- gGGGGGCCg--UC-AGCCUGuCGAGCUu -3'
miRNA:   3'- -CCUCUGGaggAGuUCGGGCuGCUCGA- -5'
28353 5' -57.3 NC_005946.1 + 10285 0.66 0.785423
Target:  5'- gGGAGcGCCggggCAuAGUCCGACGGGCa -3'
miRNA:   3'- -CCUC-UGGaggaGU-UCGGGCUGCUCGa -5'
28353 5' -57.3 NC_005946.1 + 35162 0.66 0.785423
Target:  5'- cGGGGgcaugucauaGCCUCCagggcagcacUCAAGCCUGACGGa-- -3'
miRNA:   3'- -CCUC----------UGGAGG----------AGUUCGGGCUGCUcga -5'
28353 5' -57.3 NC_005946.1 + 74507 0.66 0.766562
Target:  5'- cGGcGGCCUCCUCcucGGCCuCGACcuGGUUg -3'
miRNA:   3'- -CCuCUGGAGGAGu--UCGG-GCUGc-UCGA- -5'
28353 5' -57.3 NC_005946.1 + 19674 0.67 0.756943
Target:  5'- gGGAGGCCgagagggCCUCGGGUCaguUGGGCa -3'
miRNA:   3'- -CCUCUGGa------GGAGUUCGGgcuGCUCGa -5'
28353 5' -57.3 NC_005946.1 + 61174 0.67 0.756943
Target:  5'- gGGGGACCgUCCUgGAcCCCGugGAc-- -3'
miRNA:   3'- -CCUCUGG-AGGAgUUcGGGCugCUcga -5'
28353 5' -57.3 NC_005946.1 + 59837 0.67 0.756943
Target:  5'- cGAGAgcgUCUCCUgGAGCuuGACG-GCc -3'
miRNA:   3'- cCUCU---GGAGGAgUUCGggCUGCuCGa -5'
28353 5' -57.3 NC_005946.1 + 36373 0.67 0.746232
Target:  5'- gGGAGACUUCCaCAgucucuugaggugGGCCgCGGCG-GCg -3'
miRNA:   3'- -CCUCUGGAGGaGU-------------UCGG-GCUGCuCGa -5'
28353 5' -57.3 NC_005946.1 + 95374 0.67 0.737376
Target:  5'- gGGGGACCg--UCAGGCCC-AgGGGCUu -3'
miRNA:   3'- -CCUCUGGaggAGUUCGGGcUgCUCGA- -5'
28353 5' -57.3 NC_005946.1 + 76586 0.67 0.727448
Target:  5'- cGGuGACaucggUCCggUCGGGCCCGugGgAGCg -3'
miRNA:   3'- -CCuCUGg----AGG--AGUUCGGGCugC-UCGa -5'
28353 5' -57.3 NC_005946.1 + 57857 0.68 0.694137
Target:  5'- gGGAGGCCUUCUUuuGCUaCGACGAcucuccauacaugaGCUa -3'
miRNA:   3'- -CCUCUGGAGGAGuuCGG-GCUGCU--------------CGA- -5'
28353 5' -57.3 NC_005946.1 + 62829 0.68 0.666438
Target:  5'- --cGACCggcUCCUCAcAGCCCGucAUGGGCUc -3'
miRNA:   3'- ccuCUGG---AGGAGU-UCGGGC--UGCUCGA- -5'
28353 5' -57.3 NC_005946.1 + 20708 0.68 0.663344
Target:  5'- --uGGCCggCCUCgAGGCCCuggucgcaaagaagGACGAGCUg -3'
miRNA:   3'- ccuCUGGa-GGAG-UUCGGG--------------CUGCUCGA- -5'
28353 5' -57.3 NC_005946.1 + 20624 0.68 0.645776
Target:  5'- uGGAGcuCCUCaacgUCAAGCCCGAUcgucucaaGAGCc -3'
miRNA:   3'- -CCUCu-GGAGg---AGUUCGGGCUG--------CUCGa -5'
28353 5' -57.3 NC_005946.1 + 34758 0.69 0.62507
Target:  5'- gGGGGACUUUCUCccaaacugccaGGGCUCGAUGAuGCg -3'
miRNA:   3'- -CCUCUGGAGGAG-----------UUCGGGCUGCU-CGa -5'
28353 5' -57.3 NC_005946.1 + 27830 0.7 0.563328
Target:  5'- cGGGGGcCCUCCUCGacAGCuuGuccuCGGGCc -3'
miRNA:   3'- -CCUCU-GGAGGAGU--UCGggCu---GCUCGa -5'
28353 5' -57.3 NC_005946.1 + 102164 0.7 0.55317
Target:  5'- aGGGACCUCCUCAugAGCUCGuagucgucCGAGgUg -3'
miRNA:   3'- cCUCUGGAGGAGU--UCGGGCu-------GCUCgA- -5'
28353 5' -57.3 NC_005946.1 + 104021 0.72 0.41912
Target:  5'- cGGAGGCCaCCUUAcccgccAGCUgGugGAGCUg -3'
miRNA:   3'- -CCUCUGGaGGAGU------UCGGgCugCUCGA- -5'
28353 5' -57.3 NC_005946.1 + 98076 0.73 0.38453
Target:  5'- gGGAGACCUCCcgCAaggucggaGGCCaCGAUGGGgCUg -3'
miRNA:   3'- -CCUCUGGAGGa-GU--------UCGG-GCUGCUC-GA- -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.