miRNA display CGI


Results 1 - 20 of 31 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
12331 3' -59.4 NC_003324.1 + 32560 0.74 0.156784
Target:  5'- cCGUUGCgCUCG---UGCCAuCCAGCCCGa -3'
miRNA:   3'- -GCAGCG-GAGCuugACGGU-GGUCGGGC- -5'
12331 3' -59.4 NC_003324.1 + 30288 0.66 0.535584
Target:  5'- gGUCGCCcaagccgcCGAACaUGCCugUAGCgacgCCGg -3'
miRNA:   3'- gCAGCGGa-------GCUUG-ACGGugGUCG----GGC- -5'
12331 3' -59.4 NC_003324.1 + 35491 0.66 0.535584
Target:  5'- gCGaUCGCCguacCG-GCUGCUuCCAGCgCCGa -3'
miRNA:   3'- -GC-AGCGGa---GCuUGACGGuGGUCG-GGC- -5'
12331 3' -59.4 NC_003324.1 + 31751 0.67 0.485076
Target:  5'- cCGaUGCCUUGAACUgggggcgccaacGCCuGCCGGCCUc -3'
miRNA:   3'- -GCaGCGGAGCUUGA------------CGG-UGGUCGGGc -5'
12331 3' -59.4 NC_003324.1 + 23708 0.68 0.42766
Target:  5'- uGUCgacuGCCUCGAugU-CCGCCGGCUg- -3'
miRNA:   3'- gCAG----CGGAGCUugAcGGUGGUCGGgc -5'
12331 3' -59.4 NC_003324.1 + 31157 0.68 0.409431
Target:  5'- --cUGCCUCgcgGAGCUGCCcgGCCugcgccaucaGGCCCGg -3'
miRNA:   3'- gcaGCGGAG---CUUGACGG--UGG----------UCGGGC- -5'
12331 3' -59.4 NC_003324.1 + 26844 0.68 0.409431
Target:  5'- aGU-GCCUCGucGAUcGCCGCCAuGCCCu -3'
miRNA:   3'- gCAgCGGAGC--UUGaCGGUGGU-CGGGc -5'
12331 3' -59.4 NC_003324.1 + 40586 0.69 0.374464
Target:  5'- uGUCGCC-CGAugUGgUugUGGUCCGg -3'
miRNA:   3'- gCAGCGGaGCUugACgGugGUCGGGC- -5'
12331 3' -59.4 NC_003324.1 + 5569 0.69 0.366044
Target:  5'- -uUCGCCgCGGGC-GUCAUCGGCCUGa -3'
miRNA:   3'- gcAGCGGaGCUUGaCGGUGGUCGGGC- -5'
12331 3' -59.4 NC_003324.1 + 56556 0.69 0.341577
Target:  5'- aGUUGCCcgCGAcccaUGCCGCC-GCCCa -3'
miRNA:   3'- gCAGCGGa-GCUug--ACGGUGGuCGGGc -5'
12331 3' -59.4 NC_003324.1 + 17609 0.7 0.318313
Target:  5'- cCGgcgCGCCgUUGAGCacgaUGCCGCCgAGCUCGg -3'
miRNA:   3'- -GCa--GCGG-AGCUUG----ACGGUGG-UCGGGC- -5'
12331 3' -59.4 NC_003324.1 + 32137 0.71 0.275414
Target:  5'- --cCGCCUCGGGCcggGCCGCCccgGGCuuGg -3'
miRNA:   3'- gcaGCGGAGCUUGa--CGGUGG---UCGggC- -5'
12331 3' -59.4 NC_003324.1 + 42846 0.71 0.255123
Target:  5'- --aCGCCguauugcugguauUCGAgGCUGCCgGCCGGCCCGc -3'
miRNA:   3'- gcaGCGG-------------AGCU-UGACGG-UGGUCGGGC- -5'
12331 3' -59.4 NC_003324.1 + 2570 0.66 0.509058
Target:  5'- uGUCGCCgcUCGGAgUGCCACUguuucaaugggcgcuAGgCCa -3'
miRNA:   3'- gCAGCGG--AGCUUgACGGUGG---------------UCgGGc -5'
12331 3' -59.4 NC_003324.1 + 48844 0.66 0.513104
Target:  5'- aGgggCGaCCUUGAGCgcuucgcugaugGCCugCAGCCUGc -3'
miRNA:   3'- gCa--GC-GGAGCUUGa-----------CGGugGUCGGGC- -5'
12331 3' -59.4 NC_003324.1 + 45416 0.66 0.526344
Target:  5'- aGUCGCCcccuaaaugguugagCGaAGCUGCUcgaucccagcGCCGGCUCGa -3'
miRNA:   3'- gCAGCGGa--------------GC-UUGACGG----------UGGUCGGGC- -5'
12331 3' -59.4 NC_003324.1 + 19735 0.66 0.529417
Target:  5'- aGUCGCggauccuugaggaucUUCGcggcaaacuGACUGaCCugCAGCCCGc -3'
miRNA:   3'- gCAGCG---------------GAGC---------UUGAC-GGugGUCGGGC- -5'
12331 3' -59.4 NC_003324.1 + 29645 0.66 0.535584
Target:  5'- aCGagGCCUUGAg--GCCGCUugAGCCCc -3'
miRNA:   3'- -GCagCGGAGCUugaCGGUGG--UCGGGc -5'
12331 3' -59.4 NC_003324.1 + 14618 0.66 0.535584
Target:  5'- aCGUCgGCCUUGAGC-GCCAgC-GCCUu -3'
miRNA:   3'- -GCAG-CGGAGCUUGaCGGUgGuCGGGc -5'
12331 3' -59.4 NC_003324.1 + 12604 1.08 0.000525
Target:  5'- cCGUCGCCUCGAACUGCCACCAGCCCGu -3'
miRNA:   3'- -GCAGCGGAGCUUGACGGUGGUCGGGC- -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.