miRNA display CGI


Results 1 - 20 of 34 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
22960 3' -52.7 NC_005137.2 + 1662 0.69 0.893619
Target:  5'- uGAACAACGCGUCG---GCGCCGc-- -3'
miRNA:   3'- cCUUGUUGCGCGGCacaUGCGGUuca -5'
22960 3' -52.7 NC_005137.2 + 7141 0.68 0.935245
Target:  5'- cGGcGACcGCuCGuCCGUGUGCGCCAGc- -3'
miRNA:   3'- -CC-UUGuUGcGC-GGCACAUGCGGUUca -5'
22960 3' -52.7 NC_005137.2 + 12691 0.74 0.644967
Target:  5'- uGAGCAGCGCGUCGgaacgGcGCGCCAacAGUu -3'
miRNA:   3'- cCUUGUUGCGCGGCa----CaUGCGGU--UCA- -5'
22960 3' -52.7 NC_005137.2 + 14593 0.67 0.944878
Target:  5'- aGAGuCGGCGUuaaaGUCGguaggugGUGCGCCAAGUa -3'
miRNA:   3'- cCUU-GUUGCG----CGGCa------CAUGCGGUUCA- -5'
22960 3' -52.7 NC_005137.2 + 27435 0.69 0.900312
Target:  5'- uGGAGCAACGaagacaCUGaacuggaauUGUACGCCAAGg -3'
miRNA:   3'- -CCUUGUUGCgc----GGC---------ACAUGCGGUUCa -5'
22960 3' -52.7 NC_005137.2 + 28050 0.67 0.957478
Target:  5'- uGGcGCGacGCGCGCUGggaUGCGCCAGa- -3'
miRNA:   3'- -CCuUGU--UGCGCGGCac-AUGCGGUUca -5'
22960 3' -52.7 NC_005137.2 + 28961 0.68 0.912959
Target:  5'- uGGAgGACGUuucGauagaCGUGUGCGCCGAGg -3'
miRNA:   3'- cCUUgUUGCG---Cg----GCACAUGCGGUUCa -5'
22960 3' -52.7 NC_005137.2 + 31242 0.66 0.973825
Target:  5'- uGAACAuggcCGCGUCGUGcGCGCuCAAc- -3'
miRNA:   3'- cCUUGUu---GCGCGGCACaUGCG-GUUca -5'
22960 3' -52.7 NC_005137.2 + 31345 0.66 0.961199
Target:  5'- aGGGCGACGCggGCCGguUGCGCCGu-- -3'
miRNA:   3'- cCUUGUUGCG--CGGCacAUGCGGUuca -5'
22960 3' -52.7 NC_005137.2 + 34637 0.69 0.893619
Target:  5'- cGGuuu-GCGCGCCGUGUGCGagCGAu- -3'
miRNA:   3'- -CCuuguUGCGCGGCACAUGCg-GUUca -5'
22960 3' -52.7 NC_005137.2 + 39447 0.69 0.886684
Target:  5'- -cGACGcacuuuuuGCGCGCgaCGUGUACGCCAGc- -3'
miRNA:   3'- ccUUGU--------UGCGCG--GCACAUGCGGUUca -5'
22960 3' -52.7 NC_005137.2 + 41965 0.66 0.967951
Target:  5'- --cGCGugGCGCGCCGUGacaGCGUCAGa- -3'
miRNA:   3'- ccuUGU--UGCGCGGCACa--UGCGGUUca -5'
22960 3' -52.7 NC_005137.2 + 50821 0.66 0.970995
Target:  5'- cGGuaGACGGguuUGUGCgCGUGUuggucaGCGCCAGGUg -3'
miRNA:   3'- -CC--UUGUU---GCGCG-GCACA------UGCGGUUCA- -5'
22960 3' -52.7 NC_005137.2 + 55575 0.67 0.949321
Target:  5'- cGGACGcggGCgGCGCCGUGcGCGUgGAGc -3'
miRNA:   3'- cCUUGU---UG-CGCGGCACaUGCGgUUCa -5'
22960 3' -52.7 NC_005137.2 + 56100 0.69 0.886684
Target:  5'- ---cCAACGCGCgGUGUucagGCGCCAc-- -3'
miRNA:   3'- ccuuGUUGCGCGgCACA----UGCGGUuca -5'
22960 3' -52.7 NC_005137.2 + 56492 0.66 0.964688
Target:  5'- --uGCAACGCGUCGUGU-CGCg---- -3'
miRNA:   3'- ccuUGUUGCGCGGCACAuGCGguuca -5'
22960 3' -52.7 NC_005137.2 + 63435 0.66 0.961199
Target:  5'- cGAGCGACgGCGagaCCGUGUuggaguuugGCGCCGAa- -3'
miRNA:   3'- cCUUGUUG-CGC---GGCACA---------UGCGGUUca -5'
22960 3' -52.7 NC_005137.2 + 65645 0.68 0.930052
Target:  5'- aGAGuCAACGCccucacaCGUGUACGCCAAc- -3'
miRNA:   3'- cCUU-GUUGCGcg-----GCACAUGCGGUUca -5'
22960 3' -52.7 NC_005137.2 + 70995 0.7 0.831807
Target:  5'- --uGCAAUGCGCCGUGUgccGCGaCCAc-- -3'
miRNA:   3'- ccuUGUUGCGCGGCACA---UGC-GGUuca -5'
22960 3' -52.7 NC_005137.2 + 79864 0.7 0.872107
Target:  5'- cGGGCAGCG-GCauaaCGaGUGCGCCAAGUa -3'
miRNA:   3'- cCUUGUUGCgCG----GCaCAUGCGGUUCA- -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.