miRNA display CGI


Results 1 - 20 of 41 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
16388 3' -54.9 NC_004084.1 + 21493 0.66 0.786369
Target:  5'- cGGCgauaucugGAACGCGauucucgaaaCGUUCGcCGCCGAGu -3'
miRNA:   3'- -CCGa-------CUUGCGUg---------GUAGGCuGUGGCUC- -5'
16388 3' -54.9 NC_004084.1 + 37328 0.66 0.786369
Target:  5'- cGCUGAACGCuucgGCgAUCCcgacGACGCCcAGc -3'
miRNA:   3'- cCGACUUGCG----UGgUAGG----CUGUGGcUC- -5'
16388 3' -54.9 NC_004084.1 + 12986 0.66 0.786369
Target:  5'- uGGUUGu-CGCACCGacaUCCGGC-UCGAu -3'
miRNA:   3'- -CCGACuuGCGUGGU---AGGCUGuGGCUc -5'
16388 3' -54.9 NC_004084.1 + 5461 0.66 0.776514
Target:  5'- uGCUGugGACGC-CCAggUUCGACGUCGAGa -3'
miRNA:   3'- cCGAC--UUGCGuGGU--AGGCUGUGGCUC- -5'
16388 3' -54.9 NC_004084.1 + 55427 0.66 0.776514
Target:  5'- uGCUGuuugGCGCgAUCuCGAUACUGAGa -3'
miRNA:   3'- cCGACuug-CGUGgUAG-GCUGUGGCUC- -5'
16388 3' -54.9 NC_004084.1 + 56488 0.66 0.776514
Target:  5'- uGCUGAACGgAUCGggagCCGAgCGucuCCGAGa -3'
miRNA:   3'- cCGACUUGCgUGGUa---GGCU-GU---GGCUC- -5'
16388 3' -54.9 NC_004084.1 + 43302 0.66 0.776514
Target:  5'- aGCUGGAcuCGCACCAggagaUCGGCgucucACCGGGc -3'
miRNA:   3'- cCGACUU--GCGUGGUa----GGCUG-----UGGCUC- -5'
16388 3' -54.9 NC_004084.1 + 41462 0.66 0.775521
Target:  5'- aGGCgcucGAagaccccgacgucGCGaCGCCcgCCGAUGCCGAa -3'
miRNA:   3'- -CCGa---CU-------------UGC-GUGGuaGGCUGUGGCUc -5'
16388 3' -54.9 NC_004084.1 + 54528 0.66 0.766513
Target:  5'- cGGCaccUGGACgGCgagAUCGUCCGGCgcuguaucACCGAGg -3'
miRNA:   3'- -CCG---ACUUG-CG---UGGUAGGCUG--------UGGCUC- -5'
16388 3' -54.9 NC_004084.1 + 7955 0.66 0.766513
Target:  5'- cGGC-GAACGaCACCG-CCGACcgcaggaCGAGg -3'
miRNA:   3'- -CCGaCUUGC-GUGGUaGGCUGug-----GCUC- -5'
16388 3' -54.9 NC_004084.1 + 15674 0.66 0.766513
Target:  5'- uGCgucggGAACGUGgCAUCUGACAUUGAu -3'
miRNA:   3'- cCGa----CUUGCGUgGUAGGCUGUGGCUc -5'
16388 3' -54.9 NC_004084.1 + 10743 0.66 0.756375
Target:  5'- cGGUUG-GCGCGauCCAUCauCGACGCCGc- -3'
miRNA:   3'- -CCGACuUGCGU--GGUAG--GCUGUGGCuc -5'
16388 3' -54.9 NC_004084.1 + 53128 0.66 0.756375
Target:  5'- aGUgGAugGCggACCAUCCG-CugCGGGa -3'
miRNA:   3'- cCGaCUugCG--UGGUAGGCuGugGCUC- -5'
16388 3' -54.9 NC_004084.1 + 28417 0.66 0.746113
Target:  5'- cGCUGAcguCGuCACCAgcgaccaggUCGACGCCGGu -3'
miRNA:   3'- cCGACUu--GC-GUGGUa--------GGCUGUGGCUc -5'
16388 3' -54.9 NC_004084.1 + 12827 0.66 0.745081
Target:  5'- aGGCUGAACGUgugcgcucucuggGCCAgUCgGGCAUCcAGa -3'
miRNA:   3'- -CCGACUUGCG-------------UGGU-AGgCUGUGGcUC- -5'
16388 3' -54.9 NC_004084.1 + 11796 0.66 0.743012
Target:  5'- uGCUcAGCGC-CCAucucuucgauggcuUCCGACGCCGuGu -3'
miRNA:   3'- cCGAcUUGCGuGGU--------------AGGCUGUGGCuC- -5'
16388 3' -54.9 NC_004084.1 + 25039 0.67 0.735738
Target:  5'- gGGCUGGGCGaaGCUGUCC-ACAgCUGAGa -3'
miRNA:   3'- -CCGACUUGCg-UGGUAGGcUGU-GGCUC- -5'
16388 3' -54.9 NC_004084.1 + 47987 0.67 0.72526
Target:  5'- uGCgGGAUGCACgAggacgUCGACugCGAGa -3'
miRNA:   3'- cCGaCUUGCGUGgUa----GGCUGugGCUC- -5'
16388 3' -54.9 NC_004084.1 + 47744 0.67 0.704042
Target:  5'- cGGCUcgccaguggGGGCGuCGCCGaccUCGACGCCGAa -3'
miRNA:   3'- -CCGA---------CUUGC-GUGGUa--GGCUGUGGCUc -5'
16388 3' -54.9 NC_004084.1 + 23933 0.67 0.693324
Target:  5'- cGCgaUGGACGCGgUaaguaGUCCGACACCGcGa -3'
miRNA:   3'- cCG--ACUUGCGUgG-----UAGGCUGUGGCuC- -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.