miRNA display CGI


Results 1 - 20 of 28 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
22660 3' -53 NC_005091.1 + 29305 0.66 0.859039
Target:  5'- cGGGCCgucCGUCGAucaggucuuccGGACuGUCGCGGAc -3'
miRNA:   3'- -UCCGGgu-GUAGCU-----------UCUG-UAGCGCUUc -5'
22660 3' -53 NC_005091.1 + 30245 0.66 0.850547
Target:  5'- aAGGCCgggGCGUCGAAGcCG--GCGAAGc -3'
miRNA:   3'- -UCCGGg--UGUAGCUUCuGUagCGCUUC- -5'
22660 3' -53 NC_005091.1 + 33717 0.66 0.847953
Target:  5'- cGGCgCACAucuucuugcgcccuUCGAGGAagcgccgcguCAUCGCGAu- -3'
miRNA:   3'- uCCGgGUGU--------------AGCUUCU----------GUAGCGCUuc -5'
22660 3' -53 NC_005091.1 + 4482 0.66 0.845339
Target:  5'- cGGCCCAUGaacugcgccguuucuUCGucGuGCAUCGgGAAGg -3'
miRNA:   3'- uCCGGGUGU---------------AGCuuC-UGUAGCgCUUC- -5'
22660 3' -53 NC_005091.1 + 39193 0.66 0.841821
Target:  5'- aAGGCCCGauaGUCGGAG-CGagCGCGuuGu -3'
miRNA:   3'- -UCCGGGUg--UAGCUUCuGUa-GCGCuuC- -5'
22660 3' -53 NC_005091.1 + 33625 0.66 0.832868
Target:  5'- cAGGuCCCGCGUCuggcccGgcGGCAUCGgGAc- -3'
miRNA:   3'- -UCC-GGGUGUAG------CuuCUGUAGCgCUuc -5'
22660 3' -53 NC_005091.1 + 620 0.66 0.829226
Target:  5'- gGGGCCaucugccgcucauCGCGcugaacgcggagaaUCGAccGGGCAUCGCGGAa -3'
miRNA:   3'- -UCCGG-------------GUGU--------------AGCU--UCUGUAGCGCUUc -5'
22660 3' -53 NC_005091.1 + 58013 0.66 0.829226
Target:  5'- gGGGCCaucugccgcucauCGCGcugaacgcggagaaUCGAccGGGCAUCGCGGAa -3'
miRNA:   3'- -UCCGG-------------GUGU--------------AGCU--UCUGUAGCGCUUc -5'
22660 3' -53 NC_005091.1 + 49715 0.66 0.814322
Target:  5'- cGG-CCGCAUCGAucggauuGGCAUCGCu--- -3'
miRNA:   3'- uCCgGGUGUAGCUu------CUGUAGCGcuuc -5'
22660 3' -53 NC_005091.1 + 50441 0.67 0.794006
Target:  5'- cGGCCCGCGcguUCGAaagcaAGACGggaaaaucgacccUCGUGAAu -3'
miRNA:   3'- uCCGGGUGU---AGCU-----UCUGU-------------AGCGCUUc -5'
22660 3' -53 NC_005091.1 + 49551 0.67 0.79203
Target:  5'- cGG-CCGCGUCGggGGCGUcuucguaccgccugCGCGGu- -3'
miRNA:   3'- uCCgGGUGUAGCuuCUGUA--------------GCGCUuc -5'
22660 3' -53 NC_005091.1 + 42183 0.67 0.774964
Target:  5'- cGGCCgagacggaaCGCG-CGAAGGguUAUCGCGAAGu -3'
miRNA:   3'- uCCGG---------GUGUaGCUUCU--GUAGCGCUUC- -5'
22660 3' -53 NC_005091.1 + 1073 0.67 0.774964
Target:  5'- -cGCCCGCGUCGAgcagguccugcgGGACGgagaucagCGCGGGu -3'
miRNA:   3'- ucCGGGUGUAGCU------------UCUGUa-------GCGCUUc -5'
22660 3' -53 NC_005091.1 + 33505 0.67 0.774964
Target:  5'- gAGGCCgGCAUCGAuccGCAUCaCGGc- -3'
miRNA:   3'- -UCCGGgUGUAGCUuc-UGUAGcGCUuc -5'
22660 3' -53 NC_005091.1 + 26663 0.67 0.774964
Target:  5'- cGGCCCgGCGUUGAGcGCAUcacgCGCGAAc -3'
miRNA:   3'- uCCGGG-UGUAGCUUcUGUA----GCGCUUc -5'
22660 3' -53 NC_005091.1 + 26673 0.67 0.764716
Target:  5'- cGGCCgGCGgcggccgggacuUCGAAcGACucacccagcgcGUCGCGAAGg -3'
miRNA:   3'- uCCGGgUGU------------AGCUU-CUG-----------UAGCGCUUC- -5'
22660 3' -53 NC_005091.1 + 32827 0.68 0.75433
Target:  5'- cGGGCa-GCAUCGggGuaGUCGCGAu- -3'
miRNA:   3'- -UCCGggUGUAGCuuCugUAGCGCUuc -5'
22660 3' -53 NC_005091.1 + 22533 0.68 0.743815
Target:  5'- gAGGCCCugAUCGAGcGugAUagucguaGCGGu- -3'
miRNA:   3'- -UCCGGGugUAGCUU-CugUAg------CGCUuc -5'
22660 3' -53 NC_005091.1 + 5714 0.68 0.733184
Target:  5'- gGGGUCCGUAUUGucGACAUUGCGccGg -3'
miRNA:   3'- -UCCGGGUGUAGCuuCUGUAGCGCuuC- -5'
22660 3' -53 NC_005091.1 + 20326 0.68 0.726754
Target:  5'- cGGCCgauucgauCACGcUCGAcugcgcggcuucacuGGACAUCGUGAAGc -3'
miRNA:   3'- uCCGG--------GUGU-AGCU---------------UCUGUAGCGCUUC- -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.