miRNA display CGI


Results 1 - 20 of 26 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
17194 5' -61.5 NC_004333.2 + 10147 0.66 0.422453
Target:  5'- cCGCGaUCC-GAC-CGAGCUCG-GGCa -3'
miRNA:   3'- aGCGC-AGGcCUGaGCUCGGGCuCCGg -5'
17194 5' -61.5 NC_004333.2 + 25524 0.66 0.422453
Target:  5'- gCGCGUCuUGGuACgCGccGCUCGAGGUCa -3'
miRNA:   3'- aGCGCAG-GCC-UGaGCu-CGGGCUCCGG- -5'
17194 5' -61.5 NC_004333.2 + 27741 0.66 0.422453
Target:  5'- gCGCGaaUCUGGuCggccgcCGAGCCCGucAGGCg -3'
miRNA:   3'- aGCGC--AGGCCuGa-----GCUCGGGC--UCCGg -5'
17194 5' -61.5 NC_004333.2 + 13011 0.66 0.404553
Target:  5'- uUCGCG-CCGGGCaucaaCGccuGCgCGAGGUCc -3'
miRNA:   3'- -AGCGCaGGCCUGa----GCu--CGgGCUCCGG- -5'
17194 5' -61.5 NC_004333.2 + 45650 0.66 0.395785
Target:  5'- cUCGCGaCCGGGCUggucgagcgccaUGAGCaCCGAGuaUu -3'
miRNA:   3'- -AGCGCaGGCCUGA------------GCUCG-GGCUCcgG- -5'
17194 5' -61.5 NC_004333.2 + 41550 0.66 0.38714
Target:  5'- aCGCGcUCCGacuuCUCGAGCUcgccauggaucaCGAcGGCCg -3'
miRNA:   3'- aGCGC-AGGCcu--GAGCUCGG------------GCU-CCGG- -5'
17194 5' -61.5 NC_004333.2 + 44402 0.66 0.375248
Target:  5'- gCGCGguacaacggccugCCGGGCUCGcuGGCUggugcgugCGAGGCg -3'
miRNA:   3'- aGCGCa------------GGCCUGAGC--UCGG--------GCUCCGg -5'
17194 5' -61.5 NC_004333.2 + 10065 0.66 0.37357
Target:  5'- gCGUGUCgGGAUgccCGAGCUCGgucggaucgcgguacAGGUCg -3'
miRNA:   3'- aGCGCAGgCCUGa--GCUCGGGC---------------UCCGG- -5'
17194 5' -61.5 NC_004333.2 + 40384 0.67 0.365254
Target:  5'- gCGCGgCC-GACUCGAaCCCGguugaagacgggcaaAGGCCg -3'
miRNA:   3'- aGCGCaGGcCUGAGCUcGGGC---------------UCCGG- -5'
17194 5' -61.5 NC_004333.2 + 10112 0.67 0.361963
Target:  5'- aCGCGaUUCGGA-UCGAgGCCC-AGGUCg -3'
miRNA:   3'- aGCGC-AGGCCUgAGCU-CGGGcUCCGG- -5'
17194 5' -61.5 NC_004333.2 + 20693 0.67 0.361963
Target:  5'- cUCGCGUCgaauUGGcC-CGAcuGCgCGAGGCCg -3'
miRNA:   3'- -AGCGCAG----GCCuGaGCU--CGgGCUCCGG- -5'
17194 5' -61.5 NC_004333.2 + 28426 0.67 0.349009
Target:  5'- gUCGCG-CCGGugUCGcGCUgauucauguacuuguCG-GGCCg -3'
miRNA:   3'- -AGCGCaGGCCugAGCuCGG---------------GCuCCGG- -5'
17194 5' -61.5 NC_004333.2 + 2319 0.67 0.337167
Target:  5'- cCGCGUUgaacuggCGGAaugCGAGCaCCGugcGGCCg -3'
miRNA:   3'- aGCGCAG-------GCCUga-GCUCG-GGCu--CCGG- -5'
17194 5' -61.5 NC_004333.2 + 32389 0.67 0.322592
Target:  5'- cCGCGUCgggguucuCGGugUCG-GCCCGc-GCCu -3'
miRNA:   3'- aGCGCAG--------GCCugAGCuCGGGCucCGG- -5'
17194 5' -61.5 NC_004333.2 + 45010 0.67 0.322592
Target:  5'- gCGCuGUCCGGccGCUCGAccGCgCGuGGCg -3'
miRNA:   3'- aGCG-CAGGCC--UGAGCU--CGgGCuCCGg -5'
17194 5' -61.5 NC_004333.2 + 39000 0.68 0.293461
Target:  5'- gUCGCGUCgUGGuucguCUCGuGCuuGuuGGCCg -3'
miRNA:   3'- -AGCGCAG-GCCu----GAGCuCGggCu-CCGG- -5'
17194 5' -61.5 NC_004333.2 + 26851 0.68 0.286506
Target:  5'- gUCGCGUCgcgcuCGGcaaacACUgCGAGCCCGAuGUCa -3'
miRNA:   3'- -AGCGCAG-----GCC-----UGA-GCUCGGGCUcCGG- -5'
17194 5' -61.5 NC_004333.2 + 18503 0.69 0.272988
Target:  5'- aCGCGcUCgCGGugUCGAcGCCgccgaucgCGAGGCg -3'
miRNA:   3'- aGCGC-AG-GCCugAGCU-CGG--------GCUCCGg -5'
17194 5' -61.5 NC_004333.2 + 37938 0.69 0.247495
Target:  5'- -aGCGcucaCCGGcCUCGGGCUCGAGuCCg -3'
miRNA:   3'- agCGCa---GGCCuGAGCUCGGGCUCcGG- -5'
17194 5' -61.5 NC_004333.2 + 30466 0.69 0.241438
Target:  5'- gUCGaCGUCaCGGcuGCgccuaccuugUCGAGCCCGAgcgugcGGCCg -3'
miRNA:   3'- -AGC-GCAG-GCC--UG----------AGCUCGGGCU------CCGG- -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.