miRNA display CGI


Results 1 - 20 of 29 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
1422 3' -52.5 NC_001335.1 + 42532 0.66 0.865895
Target:  5'- -aCAGCcUGCGUCCuACGgaugCACCGcgcuggauacaAGGGu -3'
miRNA:   3'- ugGUUG-AUGCAGG-UGCa---GUGGU-----------UCCC- -5'
1422 3' -52.5 NC_001335.1 + 15981 0.66 0.865895
Target:  5'- uGCCAAggGCGUUCACGUC-CCGGu-- -3'
miRNA:   3'- -UGGUUgaUGCAGGUGCAGuGGUUccc -5'
1422 3' -52.5 NC_001335.1 + 5138 0.66 0.860946
Target:  5'- --gGACUGCGUCCAgG-UACCAaaagucauggaacagAGGGu -3'
miRNA:   3'- uggUUGAUGCAGGUgCaGUGGU---------------UCCC- -5'
1422 3' -52.5 NC_001335.1 + 5642 0.66 0.840281
Target:  5'- uAUCGACacgACGcCCGCaaugauGUCACCGAGGu -3'
miRNA:   3'- -UGGUUGa--UGCaGGUG------CAGUGGUUCCc -5'
1422 3' -52.5 NC_001335.1 + 32016 0.66 0.840281
Target:  5'- cACCGAcCUGCuggCCucgauguagaACGUCGCCGAGGc -3'
miRNA:   3'- -UGGUU-GAUGca-GG----------UGCAGUGGUUCCc -5'
1422 3' -52.5 NC_001335.1 + 45584 0.67 0.831282
Target:  5'- uGCuCGAgacCUACGUCUuCGcCACCGAGGa -3'
miRNA:   3'- -UG-GUU---GAUGCAGGuGCaGUGGUUCCc -5'
1422 3' -52.5 NC_001335.1 + 52070 0.67 0.831282
Target:  5'- gGCCGGCUcucgcauCGUCgCAUGUCAgCGcGGGu -3'
miRNA:   3'- -UGGUUGAu------GCAG-GUGCAGUgGUuCCC- -5'
1422 3' -52.5 NC_001335.1 + 33820 0.67 0.831282
Target:  5'- uGCCGGCcgGCGUCacgaACGcCGCCAGGu- -3'
miRNA:   3'- -UGGUUGa-UGCAGg---UGCaGUGGUUCcc -5'
1422 3' -52.5 NC_001335.1 + 3333 0.67 0.822066
Target:  5'- aACaCAacgcGCUGCaucagGUCUAUGUCACCGGGGc -3'
miRNA:   3'- -UG-GU----UGAUG-----CAGGUGCAGUGGUUCCc -5'
1422 3' -52.5 NC_001335.1 + 38163 0.67 0.80303
Target:  5'- -gCAGCUAcCGUCCAgUGaCGCCAGGGc -3'
miRNA:   3'- ugGUUGAU-GCAGGU-GCaGUGGUUCCc -5'
1422 3' -52.5 NC_001335.1 + 47236 0.67 0.793231
Target:  5'- gUCGGCUGCaUCCACGUCgACCAGa-- -3'
miRNA:   3'- uGGUUGAUGcAGGUGCAG-UGGUUccc -5'
1422 3' -52.5 NC_001335.1 + 33231 0.68 0.75242
Target:  5'- cGCCAACguccauccagACGcCUACGagGCCGAGGa -3'
miRNA:   3'- -UGGUUGa---------UGCaGGUGCagUGGUUCCc -5'
1422 3' -52.5 NC_001335.1 + 42032 0.68 0.75242
Target:  5'- uGCCGACgaccgaGUcCCACGccuUCGCCAGGGu -3'
miRNA:   3'- -UGGUUGaug---CA-GGUGC---AGUGGUUCCc -5'
1422 3' -52.5 NC_001335.1 + 16672 0.68 0.731212
Target:  5'- aACCGAgUcACGUCCaacgGCGUguUCGAGGGu -3'
miRNA:   3'- -UGGUUgA-UGCAGG----UGCAguGGUUCCC- -5'
1422 3' -52.5 NC_001335.1 + 17702 0.69 0.709595
Target:  5'- cACCGAgUACGgCCA-GUucacCGCCGAGGGa -3'
miRNA:   3'- -UGGUUgAUGCaGGUgCA----GUGGUUCCC- -5'
1422 3' -52.5 NC_001335.1 + 25519 0.69 0.695371
Target:  5'- aACUAGCUACGcggguucgauUCC-CGUCGCCcgcuccgcuggucaGAGGGu -3'
miRNA:   3'- -UGGUUGAUGC----------AGGuGCAGUGG--------------UUCCC- -5'
1422 3' -52.5 NC_001335.1 + 27357 0.69 0.687666
Target:  5'- gGCCAACcucccgagGCGUaCCugGaaaACCAAGGGc -3'
miRNA:   3'- -UGGUUGa-------UGCA-GGugCag-UGGUUCCC- -5'
1422 3' -52.5 NC_001335.1 + 49615 0.69 0.687666
Target:  5'- gACCGAgaccUUugGUCUugGUUACCAAGa- -3'
miRNA:   3'- -UGGUU----GAugCAGGugCAGUGGUUCcc -5'
1422 3' -52.5 NC_001335.1 + 13034 0.7 0.654389
Target:  5'- uGCCGG-UGCGUCCACGacuggcgCAUCGAGuGGg -3'
miRNA:   3'- -UGGUUgAUGCAGGUGCa------GUGGUUC-CC- -5'
1422 3' -52.5 NC_001335.1 + 48403 0.7 0.654389
Target:  5'- cACC-GCaGCGgCCACGUCcugcuggcccacGCCAAGGGu -3'
miRNA:   3'- -UGGuUGaUGCaGGUGCAG------------UGGUUCCC- -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.