miRNA display CGI


Results 1 - 20 of 29 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
30442 5' -50.8 NC_006548.1 + 36530 0.77 0.257626
Target:  5'- gUCGAGGUGGGC-UCGGCC-GCGauGAUCg -3'
miRNA:   3'- -AGUUCCGCUUGuAGCCGGaCGU--UUAG- -5'
30442 5' -50.8 NC_006548.1 + 34067 0.77 0.250617
Target:  5'- aCGAGGUGAACuggcCGGCCgacagccgggUGCAGAUCa -3'
miRNA:   3'- aGUUCCGCUUGua--GCCGG----------ACGUUUAG- -5'
30442 5' -50.8 NC_006548.1 + 15814 0.66 0.807905
Target:  5'- aUCGgcuGGGCGGACGacgcucaggaccaguUCGGCgaGCAccguGUCg -3'
miRNA:   3'- -AGU---UCCGCUUGU---------------AGCCGgaCGUu---UAG- -5'
30442 5' -50.8 NC_006548.1 + 20437 0.66 0.803825
Target:  5'- aUCGAGGaGGACGcgCGGCgaGCAG-UCa -3'
miRNA:   3'- -AGUUCCgCUUGUa-GCCGgaCGUUuAG- -5'
30442 5' -50.8 NC_006548.1 + 24524 0.67 0.793483
Target:  5'- aUCGcuguGGCGAuc-UgGGCCUcGCAGAUCg -3'
miRNA:   3'- -AGUu---CCGCUuguAgCCGGA-CGUUUAG- -5'
30442 5' -50.8 NC_006548.1 + 22153 0.67 0.793483
Target:  5'- gCGcGGCuGAACAucgcUCGGCCgggGCAGAa- -3'
miRNA:   3'- aGUuCCG-CUUGU----AGCCGGa--CGUUUag -5'
30442 5' -50.8 NC_006548.1 + 36354 0.68 0.72785
Target:  5'- gCAu-GCGGcCGUcCGGCCUGCAGAUg -3'
miRNA:   3'- aGUucCGCUuGUA-GCCGGACGUUUAg -5'
30442 5' -50.8 NC_006548.1 + 15328 0.68 0.704945
Target:  5'- -gAGGGCGGcaauccgaagaAUAUCaGCCUGCAcacGGUCa -3'
miRNA:   3'- agUUCCGCU-----------UGUAGcCGGACGU---UUAG- -5'
30442 5' -50.8 NC_006548.1 + 22313 0.69 0.681713
Target:  5'- cCGAucCGAACAUCGGUCUGCGc--- -3'
miRNA:   3'- aGUUccGCUUGUAGCCGGACGUuuag -5'
30442 5' -50.8 NC_006548.1 + 7366 0.7 0.572461
Target:  5'- cCAGGGCGGccAUAUCGGCCcccacccagucgggUGCcuGGUCg -3'
miRNA:   3'- aGUUCCGCU--UGUAGCCGG--------------ACGu-UUAG- -5'
30442 5' -50.8 NC_006548.1 + 28068 0.71 0.564324
Target:  5'- cUCAcagcAGGCG-GCuggCGGCCUGCAGGc- -3'
miRNA:   3'- -AGU----UCCGCuUGua-GCCGGACGUUUag -5'
30442 5' -50.8 NC_006548.1 + 17063 0.71 0.518514
Target:  5'- cCAAGGuCGGGC-UCGGCCaggugGCGAGUa -3'
miRNA:   3'- aGUUCC-GCUUGuAGCCGGa----CGUUUAg -5'
30442 5' -50.8 NC_006548.1 + 9011 0.73 0.411657
Target:  5'- aCAGGGCGAGCG-CGGCaccCAGGUCu -3'
miRNA:   3'- aGUUCCGCUUGUaGCCGgacGUUUAG- -5'
30442 5' -50.8 NC_006548.1 + 34996 0.74 0.36358
Target:  5'- -gGAGGCGAGCAaugggCGGCCguaGCAAAg- -3'
miRNA:   3'- agUUCCGCUUGUa----GCCGGa--CGUUUag -5'
30442 5' -50.8 NC_006548.1 + 19283 0.66 0.843007
Target:  5'- cCAAGGCGugcCGUCaggcgauaccugGGCCUG-GAAUCg -3'
miRNA:   3'- aGUUCCGCuu-GUAG------------CCGGACgUUUAG- -5'
30442 5' -50.8 NC_006548.1 + 29009 0.66 0.833564
Target:  5'- cCGuGGCGAGCAgacGCuuCUGCAGGUCg -3'
miRNA:   3'- aGUuCCGCUUGUagcCG--GACGUUUAG- -5'
30442 5' -50.8 NC_006548.1 + 22297 0.66 0.813962
Target:  5'- cCGuuGCGggUGUCGGCCagGCG-AUCg -3'
miRNA:   3'- aGUucCGCuuGUAGCCGGa-CGUuUAG- -5'
30442 5' -50.8 NC_006548.1 + 29482 0.67 0.76135
Target:  5'- gCGcGGC-AACGUCGGCCaGCG-AUCg -3'
miRNA:   3'- aGUuCCGcUUGUAGCCGGaCGUuUAG- -5'
30442 5' -50.8 NC_006548.1 + 6845 0.67 0.76135
Target:  5'- -uGGGGCGAACAagaaggcuagCGGCCUaCAGGUg -3'
miRNA:   3'- agUUCCGCUUGUa---------GCCGGAcGUUUAg -5'
30442 5' -50.8 NC_006548.1 + 16656 0.69 0.681713
Target:  5'- cCAGGGUGAuguaGCGgucgucgCGGCC-GUAGAUCa -3'
miRNA:   3'- aGUUCCGCU----UGUa------GCCGGaCGUUUAG- -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.