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
16462 3' -53.9 NC_004084.1 + 17250 0.66 0.818703
Target:  5'- aGGAUCUgCGGCCGGugcaGucGGCGAu -3'
miRNA:   3'- gCCUAGAaGCUGGUCuag-Cu-CCGCUu -5'
16462 3' -53.9 NC_004084.1 + 8470 0.66 0.818703
Target:  5'- aGGAUCggggcugUGGCCGGA-CGAcaaGGCGAu -3'
miRNA:   3'- gCCUAGaa-----GCUGGUCUaGCU---CCGCUu -5'
16462 3' -53.9 NC_004084.1 + 27861 0.66 0.818703
Target:  5'- aGGAaca-CGACCGauUCGAGGCGAc -3'
miRNA:   3'- gCCUagaaGCUGGUcuAGCUCCGCUu -5'
16462 3' -53.9 NC_004084.1 + 30763 0.66 0.818703
Target:  5'- cCGGAgUCgagCGACCuccUCGAGGCGu- -3'
miRNA:   3'- -GCCU-AGaa-GCUGGucuAGCUCCGCuu -5'
16462 3' -53.9 NC_004084.1 + 47458 0.66 0.80928
Target:  5'- cCGGAgauggUCgaugUCGACCGGGacuggcuguUCGAGGUGu- -3'
miRNA:   3'- -GCCU-----AGa---AGCUGGUCU---------AGCUCCGCuu -5'
16462 3' -53.9 NC_004084.1 + 22822 0.66 0.80928
Target:  5'- aCGGAUCgauccgUUCGAgCCGc--CGAGGCGAAc -3'
miRNA:   3'- -GCCUAG------AAGCU-GGUcuaGCUCCGCUU- -5'
16462 3' -53.9 NC_004084.1 + 1671 0.66 0.799669
Target:  5'- gGGcucGUCgggCGACCuGAUCGAcGCGAAg -3'
miRNA:   3'- gCC---UAGaa-GCUGGuCUAGCUcCGCUU- -5'
16462 3' -53.9 NC_004084.1 + 30580 0.66 0.779924
Target:  5'- aCGG-UCggCGaACCGGAgCGGGGUGAGg -3'
miRNA:   3'- -GCCuAGaaGC-UGGUCUaGCUCCGCUU- -5'
16462 3' -53.9 NC_004084.1 + 45676 0.67 0.759558
Target:  5'- aCGG-UCggcgUCGACgAGAUCGuGcGCGGAg -3'
miRNA:   3'- -GCCuAGa---AGCUGgUCUAGCuC-CGCUU- -5'
16462 3' -53.9 NC_004084.1 + 38492 0.67 0.759558
Target:  5'- aCGGAUCcUCGcCCucGAUCGucGCGAGc -3'
miRNA:   3'- -GCCUAGaAGCuGGu-CUAGCucCGCUU- -5'
16462 3' -53.9 NC_004084.1 + 22261 0.67 0.749171
Target:  5'- cCGGAcgUCgacgUCGAuCCAG-UCGAGGCa-- -3'
miRNA:   3'- -GCCU--AGa---AGCU-GGUCuAGCUCCGcuu -5'
16462 3' -53.9 NC_004084.1 + 7239 0.67 0.728047
Target:  5'- aGGAUUUccUCGACUGGGUCcAGGaCGAGa -3'
miRNA:   3'- gCCUAGA--AGCUGGUCUAGcUCC-GCUU- -5'
16462 3' -53.9 NC_004084.1 + 18206 0.67 0.728047
Target:  5'- cCGcGUCUccUCGuCCAGcUCGAGGUGAAc -3'
miRNA:   3'- -GCcUAGA--AGCuGGUCuAGCUCCGCUU- -5'
16462 3' -53.9 NC_004084.1 + 29059 0.67 0.717334
Target:  5'- gGGAUCccgggcgUCGACCAGcgCGAGuuCGAGa -3'
miRNA:   3'- gCCUAGa------AGCUGGUCuaGCUCc-GCUU- -5'
16462 3' -53.9 NC_004084.1 + 36160 0.68 0.694571
Target:  5'- uGGAUCgacgUCGAcguCCGGGUUGAguaacucGGCGAGa -3'
miRNA:   3'- gCCUAGa---AGCU---GGUCUAGCU-------CCGCUU- -5'
16462 3' -53.9 NC_004084.1 + 21624 0.68 0.662715
Target:  5'- -cGAUCUUCGACuUGGAccgccagCGGGGCGAAc -3'
miRNA:   3'- gcCUAGAAGCUG-GUCUa------GCUCCGCUU- -5'
16462 3' -53.9 NC_004084.1 + 8909 0.69 0.640588
Target:  5'- uGGAUgc-CGACCGGAUCGAGuCGAc -3'
miRNA:   3'- gCCUAgaaGCUGGUCUAGCUCcGCUu -5'
16462 3' -53.9 NC_004084.1 + 41594 0.69 0.629507
Target:  5'- gCGGAgaUCgUCGACUAcGUCGAGGaCGAAc -3'
miRNA:   3'- -GCCU--AGaAGCUGGUcUAGCUCC-GCUU- -5'
16462 3' -53.9 NC_004084.1 + 38464 0.69 0.618429
Target:  5'- aGGAUCgcgaGACCGuGAUCGGGGuUGAAc -3'
miRNA:   3'- gCCUAGaag-CUGGU-CUAGCUCC-GCUU- -5'
16462 3' -53.9 NC_004084.1 + 1222 0.7 0.585304
Target:  5'- uGGcUCggCGGCgGGAUCGAgGGCGAu -3'
miRNA:   3'- gCCuAGaaGCUGgUCUAGCU-CCGCUu -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.