miRNA display CGI


Results 1 - 20 of 22 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
23915 5' -59 NC_005262.1 + 14301 0.66 0.547898
Target:  5'- uUGCGuGGAcggGAGGgCGGCGGAAccGC-CGAg -3'
miRNA:   3'- -ACGC-CCU---CUCCgGUCGUCUU--CGaGCU- -5'
23915 5' -59 NC_005262.1 + 994 0.66 0.527057
Target:  5'- cUGCGGGGcGGGGCgGuGUAG-AGCUUGu -3'
miRNA:   3'- -ACGCCCU-CUCCGgU-CGUCuUCGAGCu -5'
23915 5' -59 NC_005262.1 + 13758 0.66 0.496379
Target:  5'- -uCGGGAGcaGCCGGCGccGGCUCGGg -3'
miRNA:   3'- acGCCCUCucCGGUCGUcuUCGAGCU- -5'
23915 5' -59 NC_005262.1 + 17288 0.67 0.486332
Target:  5'- cGCGGGcAGGGGCgucgCGGuCGGAGuGCUCa- -3'
miRNA:   3'- aCGCCC-UCUCCG----GUC-GUCUU-CGAGcu -5'
23915 5' -59 NC_005262.1 + 1506 0.67 0.476381
Target:  5'- cUGCGGaGGGAGGCUgcGGCGGAAcguauuGCgUGAa -3'
miRNA:   3'- -ACGCC-CUCUCCGG--UCGUCUU------CGaGCU- -5'
23915 5' -59 NC_005262.1 + 17252 0.67 0.466533
Target:  5'- cGCGGGAGcggcGGCCGGCGccgcGCUgGGc -3'
miRNA:   3'- aCGCCCUCu---CCGGUCGUcuu-CGAgCU- -5'
23915 5' -59 NC_005262.1 + 8720 0.67 0.456792
Target:  5'- uUGuuGGAGAGGcCCAGCcGgcGCUCc- -3'
miRNA:   3'- -ACgcCCUCUCC-GGUCGuCuuCGAGcu -5'
23915 5' -59 NC_005262.1 + 38533 0.68 0.400774
Target:  5'- uUGCGGuGccAGAGGCgGcGCAGGAGC-CGGc -3'
miRNA:   3'- -ACGCC-C--UCUCCGgU-CGUCUUCGaGCU- -5'
23915 5' -59 NC_005262.1 + 13817 0.68 0.390988
Target:  5'- gGCGGGAGcGGGCgccgcugucucguCGGC-GAucGGCUCGAa -3'
miRNA:   3'- aCGCCCUC-UCCG-------------GUCGuCU--UCGAGCU- -5'
23915 5' -59 NC_005262.1 + 43850 0.68 0.383098
Target:  5'- cGCGGcGGuGcGCCGGCAGGAcCUCGGc -3'
miRNA:   3'- aCGCCcUCuC-CGGUCGUCUUcGAGCU- -5'
23915 5' -59 NC_005262.1 + 5678 0.69 0.357572
Target:  5'- aUGCcuuGGGAGAgGGCCggAGCGGAGGCa--- -3'
miRNA:   3'- -ACG---CCCUCU-CCGG--UCGUCUUCGagcu -5'
23915 5' -59 NC_005262.1 + 31054 0.7 0.295491
Target:  5'- cGCGucgcucacGGAGuggucGGCCGGCAGcacgccGAGCUCGAu -3'
miRNA:   3'- aCGC--------CCUCu----CCGGUCGUC------UUCGAGCU- -5'
23915 5' -59 NC_005262.1 + 4721 0.71 0.267737
Target:  5'- gUGCGGGuu-GGUgAGCAGGcgguGCUCGAg -3'
miRNA:   3'- -ACGCCCucuCCGgUCGUCUu---CGAGCU- -5'
23915 5' -59 NC_005262.1 + 59053 0.71 0.267737
Target:  5'- cGUGGc----GCCGGCAGGAGCUCGAg -3'
miRNA:   3'- aCGCCcucucCGGUCGUCUUCGAGCU- -5'
23915 5' -59 NC_005262.1 + 33163 0.71 0.267737
Target:  5'- cGCGGGcaccuugccGAGcGUCGGCGGcGGCUCGAu -3'
miRNA:   3'- aCGCCCu--------CUC-CGGUCGUCuUCGAGCU- -5'
23915 5' -59 NC_005262.1 + 5751 0.71 0.261136
Target:  5'- gGCGGG---GGCCAGUAGAAGgaCGGu -3'
miRNA:   3'- aCGCCCucuCCGGUCGUCUUCgaGCU- -5'
23915 5' -59 NC_005262.1 + 8222 0.72 0.248332
Target:  5'- cGCGGGccauGAGcuGUCGGC-GAAGCUCGAa -3'
miRNA:   3'- aCGCCCu---CUC--CGGUCGuCUUCGAGCU- -5'
23915 5' -59 NC_005262.1 + 4817 0.73 0.20436
Target:  5'- cGCGGGAGGcgugaggccgccggcGGCCGGCu--GGUUCGAc -3'
miRNA:   3'- aCGCCCUCU---------------CCGGUCGucuUCGAGCU- -5'
23915 5' -59 NC_005262.1 + 17610 0.73 0.197036
Target:  5'- cGCGGaGcuGGAGcGCCAGCAGcgcGAGCUCGc -3'
miRNA:   3'- aCGCC-C--UCUC-CGGUCGUC---UUCGAGCu -5'
23915 5' -59 NC_005262.1 + 5312 0.73 0.18697
Target:  5'- gGCGgucGGAGcuGGCCGGCAGGAGCUUc- -3'
miRNA:   3'- aCGC---CCUCu-CCGGUCGUCUUCGAGcu -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.