miRNA display CGI


Results 1 - 20 of 69 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
23075 3' -54.7 NC_005178.1 + 17209 0.66 0.653365
Target:  5'- --cGCgacGCCCUGGUCGA---UAACCu -3'
miRNA:   3'- cguCGac-CGGGACCAGCUuugGUUGG- -5'
23075 3' -54.7 NC_005178.1 + 7659 0.66 0.653365
Target:  5'- cGCgAGCUGGCCCgucUgGAAACCGc-- -3'
miRNA:   3'- -CG-UCGACCGGGaccAgCUUUGGUugg -5'
23075 3' -54.7 NC_005178.1 + 14631 0.66 0.64656
Target:  5'- gGCAGCUGGUagcgggcgugcaGGUgGAGAUCGAUCu -3'
miRNA:   3'- -CGUCGACCGgga---------CCAgCUUUGGUUGG- -5'
23075 3' -54.7 NC_005178.1 + 22013 0.66 0.64656
Target:  5'- uCAGCcccuUGGCCgggUGGUUGGcgaacucuuuggccaGACCGGCCa -3'
miRNA:   3'- cGUCG----ACCGGg--ACCAGCU---------------UUGGUUGG- -5'
23075 3' -54.7 NC_005178.1 + 25485 0.66 0.642021
Target:  5'- -----aGGCgCUGGUCGcAACCAucACCa -3'
miRNA:   3'- cgucgaCCGgGACCAGCuUUGGU--UGG- -5'
23075 3' -54.7 NC_005178.1 + 5302 0.66 0.642021
Target:  5'- cGCgAGCUGGaaCUGGcCGAccuCCAGCg -3'
miRNA:   3'- -CG-UCGACCggGACCaGCUuu-GGUUGg -5'
23075 3' -54.7 NC_005178.1 + 3114 0.66 0.630668
Target:  5'- -aAGCUGGCUCggcgccagggaGGUCG-AGCCggUCu -3'
miRNA:   3'- cgUCGACCGGGa----------CCAGCuUUGGuuGG- -5'
23075 3' -54.7 NC_005178.1 + 28379 0.66 0.630668
Target:  5'- cGCGGgUGGCggCCaGGUCcaGGGACCAGgCa -3'
miRNA:   3'- -CGUCgACCG--GGaCCAG--CUUUGGUUgG- -5'
23075 3' -54.7 NC_005178.1 + 36061 0.66 0.630668
Target:  5'- --cGCuUGGCCCgcUGGUgggcaaCGGGugCGACCa -3'
miRNA:   3'- cguCG-ACCGGG--ACCA------GCUUugGUUGG- -5'
23075 3' -54.7 NC_005178.1 + 33572 0.66 0.619316
Target:  5'- aCGGCaucgaGGCCgacgugCUGGUCGcGACCGGCg -3'
miRNA:   3'- cGUCGa----CCGG------GACCAGCuUUGGUUGg -5'
23075 3' -54.7 NC_005178.1 + 734 0.66 0.607975
Target:  5'- -aAGCUGGgUCUcGUgGAuGCCGACCu -3'
miRNA:   3'- cgUCGACCgGGAcCAgCUuUGGUUGG- -5'
23075 3' -54.7 NC_005178.1 + 16896 0.66 0.607975
Target:  5'- -gAGCUGcucggcGCCCUGGcCGAGGCauuCCc -3'
miRNA:   3'- cgUCGAC------CGGGACCaGCUUUGguuGG- -5'
23075 3' -54.7 NC_005178.1 + 33546 0.67 0.601181
Target:  5'- cGCAGC-GGCggacggugcgcagcaCCUggGGUCGGAACagCGGCCg -3'
miRNA:   3'- -CGUCGaCCG---------------GGA--CCAGCUUUG--GUUGG- -5'
23075 3' -54.7 NC_005178.1 + 12576 0.67 0.596658
Target:  5'- gGCGGC-GGacgaaaaaaCCCUGGUUGGcugcccaccaGACCAGCa -3'
miRNA:   3'- -CGUCGaCC---------GGGACCAGCU----------UUGGUUGg -5'
23075 3' -54.7 NC_005178.1 + 16675 0.67 0.585372
Target:  5'- -aGGC-GGUCCUGGgCGAucaGGCCGGCg -3'
miRNA:   3'- cgUCGaCCGGGACCaGCU---UUGGUUGg -5'
23075 3' -54.7 NC_005178.1 + 12049 0.67 0.585372
Target:  5'- -uGGCccUGGCCCuguuccuggugaUGGUUGcGACCAGCg -3'
miRNA:   3'- cgUCG--ACCGGG------------ACCAGCuUUGGUUGg -5'
23075 3' -54.7 NC_005178.1 + 2456 0.67 0.585372
Target:  5'- gGCAGCUcGGCggcgaguaguCC-GGUCGGGcACCAgucGCCg -3'
miRNA:   3'- -CGUCGA-CCG----------GGaCCAGCUU-UGGU---UGG- -5'
23075 3' -54.7 NC_005178.1 + 11932 0.67 0.581994
Target:  5'- gGCAGCaacuaaaGGCCgcacuCUGGUUGGcgugauccugaucgAACCGGCCu -3'
miRNA:   3'- -CGUCGa------CCGG-----GACCAGCU--------------UUGGUUGG- -5'
23075 3' -54.7 NC_005178.1 + 22699 0.67 0.574127
Target:  5'- -gAGCUGGaucgCCgGGUCGcuGCCGaguGCCa -3'
miRNA:   3'- cgUCGACCg---GGaCCAGCuuUGGU---UGG- -5'
23075 3' -54.7 NC_005178.1 + 26231 0.67 0.574127
Target:  5'- --cGCUGGCUCcaguUGGUaGAGcCCGGCCa -3'
miRNA:   3'- cguCGACCGGG----ACCAgCUUuGGUUGG- -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.