miRNA display CGI


Results 1 - 20 of 30 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
12548 3' -51.1 NC_003345.1 + 18946 0.66 0.959998
Target:  5'- uUAGCUCCcucuCCGGGguu-CGAGGUcaugguguacGCCu -3'
miRNA:   3'- -GUCGAGGu---GGCUCaauuGCUUCA----------CGG- -5'
12548 3' -51.1 NC_003345.1 + 61067 0.66 0.959998
Target:  5'- -cGCUCgggugUGCCGAGUU--UGGAGUGCg -3'
miRNA:   3'- guCGAG-----GUGGCUCAAuuGCUUCACGg -5'
12548 3' -51.1 NC_003345.1 + 32904 0.66 0.955998
Target:  5'- cCAGCUCCAuCUGAGc-GGCGuuaucGAGUGaCCc -3'
miRNA:   3'- -GUCGAGGU-GGCUCaaUUGC-----UUCAC-GG- -5'
12548 3' -51.1 NC_003345.1 + 18893 0.66 0.951735
Target:  5'- aAGCUCCACCGuGUUGugcuUGAcAG-GCg -3'
miRNA:   3'- gUCGAGGUGGCuCAAUu---GCU-UCaCGg -5'
12548 3' -51.1 NC_003345.1 + 61435 0.66 0.947203
Target:  5'- gCGGCaagUCCAUCGAGauuGCGGAgcguGUGCUg -3'
miRNA:   3'- -GUCG---AGGUGGCUCaauUGCUU----CACGG- -5'
12548 3' -51.1 NC_003345.1 + 8147 0.66 0.9424
Target:  5'- gGGCUUCAgUCGGGUUGuucCGAuGUGCUu -3'
miRNA:   3'- gUCGAGGU-GGCUCAAUu--GCUuCACGG- -5'
12548 3' -51.1 NC_003345.1 + 20322 0.66 0.9424
Target:  5'- gCGGCcCCACCgGAGggAGCGucGUcGUCg -3'
miRNA:   3'- -GUCGaGGUGG-CUCaaUUGCuuCA-CGG- -5'
12548 3' -51.1 NC_003345.1 + 67856 0.67 0.937321
Target:  5'- uCGGUcgaUGCCGAGUgaacagAACGucGUGCCa -3'
miRNA:   3'- -GUCGag-GUGGCUCAa-----UUGCuuCACGG- -5'
12548 3' -51.1 NC_003345.1 + 33174 0.67 0.926329
Target:  5'- --cCUCCGgCGGGUUGGCGGucgGCCc -3'
miRNA:   3'- gucGAGGUgGCUCAAUUGCUucaCGG- -5'
12548 3' -51.1 NC_003345.1 + 28422 0.67 0.920415
Target:  5'- gAGCgUCCugagacguauGCCGAGUUGAUGGg--GCCg -3'
miRNA:   3'- gUCG-AGG----------UGGCUCAAUUGCUucaCGG- -5'
12548 3' -51.1 NC_003345.1 + 6204 0.67 0.914223
Target:  5'- aGGgUCaCAUCGAGgggaUGGCGAAGUauGCCu -3'
miRNA:   3'- gUCgAG-GUGGCUCa---AUUGCUUCA--CGG- -5'
12548 3' -51.1 NC_003345.1 + 29237 0.68 0.908413
Target:  5'- uCAGCcccgaCCACCacgacggagagacguGGgcGACGAAGUGCCa -3'
miRNA:   3'- -GUCGa----GGUGGc--------------UCaaUUGCUUCACGG- -5'
12548 3' -51.1 NC_003345.1 + 33049 0.68 0.886711
Target:  5'- aAGCUCCacACCGAGggcuACGccGgGCCg -3'
miRNA:   3'- gUCGAGG--UGGCUCaau-UGCuuCaCGG- -5'
12548 3' -51.1 NC_003345.1 + 48732 0.68 0.879166
Target:  5'- -cGUUCCACCGAGau-ACGA--UGCUg -3'
miRNA:   3'- guCGAGGUGGCUCaauUGCUucACGG- -5'
12548 3' -51.1 NC_003345.1 + 73418 0.69 0.863312
Target:  5'- uCAGCcaccgCCGCCGGGUUcugccgacucGAUGGAGUGauaCCg -3'
miRNA:   3'- -GUCGa----GGUGGCUCAA----------UUGCUUCAC---GG- -5'
12548 3' -51.1 NC_003345.1 + 14496 0.69 0.855016
Target:  5'- gUAGCUCaggauaGCCGAG--AACGAgAGUGUCu -3'
miRNA:   3'- -GUCGAGg-----UGGCUCaaUUGCU-UCACGG- -5'
12548 3' -51.1 NC_003345.1 + 14748 0.69 0.855016
Target:  5'- gGGCUUCAUCGAgcgGUUGuACGAGGaUGCUc -3'
miRNA:   3'- gUCGAGGUGGCU---CAAU-UGCUUC-ACGG- -5'
12548 3' -51.1 NC_003345.1 + 75721 0.7 0.819567
Target:  5'- aCAGCU-CGCCGcAGUUGcgGCGGAG-GCUg -3'
miRNA:   3'- -GUCGAgGUGGC-UCAAU--UGCUUCaCGG- -5'
12548 3' -51.1 NC_003345.1 + 14246 0.7 0.798676
Target:  5'- -cGUUCCACCGGGgguuguccaugAACGucGUGUCg -3'
miRNA:   3'- guCGAGGUGGCUCaa---------UUGCuuCACGG- -5'
12548 3' -51.1 NC_003345.1 + 8669 0.7 0.790862
Target:  5'- aCGGUcacaUCUGCCGAGUgauUGACGAGGaGCUg -3'
miRNA:   3'- -GUCG----AGGUGGCUCA---AUUGCUUCaCGG- -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.