miRNA display CGI


Results 1 - 19 of 19 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
16290 5' -57.9 NC_004084.1 + 19648 0.66 0.627497
Target:  5'- -cGCCCgaAGGUCGucGUGCGucAUC-GGACGu -3'
miRNA:   3'- gaCGGG--UCCAGC--UACGC--UAGcCCUGC- -5'
16290 5' -57.9 NC_004084.1 + 1016 0.66 0.627497
Target:  5'- -cGCCgGcgacGUCGAcGCGAUCgGGGGCGc -3'
miRNA:   3'- gaCGGgUc---CAGCUaCGCUAG-CCCUGC- -5'
16290 5' -57.9 NC_004084.1 + 15677 0.66 0.621081
Target:  5'- --cUCCGGGcCGAUguccuucgccugcucGCGAUCGGuGACGg -3'
miRNA:   3'- gacGGGUCCaGCUA---------------CGCUAGCC-CUGC- -5'
16290 5' -57.9 NC_004084.1 + 18402 0.66 0.595467
Target:  5'- -cGUCCAGGcgggCGAUGUGaAUUuGGACGg -3'
miRNA:   3'- gaCGGGUCCa---GCUACGC-UAGcCCUGC- -5'
16290 5' -57.9 NC_004084.1 + 11561 0.67 0.560544
Target:  5'- -cGCCCAcaggagacguucacGGaCGcgGCGAUCGuGGGCa -3'
miRNA:   3'- gaCGGGU--------------CCaGCuaCGCUAGC-CCUGc -5'
16290 5' -57.9 NC_004084.1 + 57077 0.67 0.532398
Target:  5'- -cGCCCGuGGUCuuUGaCcAUCGGGACGc -3'
miRNA:   3'- gaCGGGU-CCAGcuAC-GcUAGCCCUGC- -5'
16290 5' -57.9 NC_004084.1 + 7882 0.67 0.5221
Target:  5'- -cGCCC-GG-CGAagcugcucGCGAUCGGGGCu -3'
miRNA:   3'- gaCGGGuCCaGCUa-------CGCUAGCCCUGc -5'
16290 5' -57.9 NC_004084.1 + 18066 0.68 0.51188
Target:  5'- aUGCCgC-GGUCGAUGUGccgcccuUCGaGGACGa -3'
miRNA:   3'- gACGG-GuCCAGCUACGCu------AGC-CCUGC- -5'
16290 5' -57.9 NC_004084.1 + 47454 0.68 0.462137
Target:  5'- -cGaCCCGgagauGGUCGAUGuCGAcCGGGACu -3'
miRNA:   3'- gaC-GGGU-----CCAGCUAC-GCUaGCCCUGc -5'
16290 5' -57.9 NC_004084.1 + 6448 0.69 0.452493
Target:  5'- -cGCCCAcuGGUCGccGUGGagCGGGAUGu -3'
miRNA:   3'- gaCGGGU--CCAGCuaCGCUa-GCCCUGC- -5'
16290 5' -57.9 NC_004084.1 + 8078 0.69 0.433539
Target:  5'- -cGCCCGGGUUcuUGCcguUCGGGugGc -3'
miRNA:   3'- gaCGGGUCCAGcuACGcu-AGCCCugC- -5'
16290 5' -57.9 NC_004084.1 + 22899 0.69 0.424237
Target:  5'- --aCCCAGGaccaagaGGUcGCGAUCGGGugGg -3'
miRNA:   3'- gacGGGUCCag-----CUA-CGCUAGCCCugC- -5'
16290 5' -57.9 NC_004084.1 + 40776 0.69 0.414145
Target:  5'- -cGCCCAGGccUCGAacgaugcUGUGAUCGGuuCGg -3'
miRNA:   3'- gaCGGGUCC--AGCU-------ACGCUAGCCcuGC- -5'
16290 5' -57.9 NC_004084.1 + 29676 0.7 0.379582
Target:  5'- -aGCuCCGGGgguucgCGAcGCGGUCGcGGACGc -3'
miRNA:   3'- gaCG-GGUCCa-----GCUaCGCUAGC-CCUGC- -5'
16290 5' -57.9 NC_004084.1 + 5723 0.71 0.322571
Target:  5'- -cGCUCGGGcCGAgguccuCGAUCGGGAUGa -3'
miRNA:   3'- gaCGGGUCCaGCUac----GCUAGCCCUGC- -5'
16290 5' -57.9 NC_004084.1 + 793 0.72 0.300171
Target:  5'- -cGCCCuuguguuGGUCGAgGCGAUCGuGGAgGu -3'
miRNA:   3'- gaCGGGu------CCAGCUaCGCUAGC-CCUgC- -5'
16290 5' -57.9 NC_004084.1 + 6123 0.72 0.290844
Target:  5'- -cGUUCAGGUCGAUGCGAUuccgcgaccagcgcCGGGGu- -3'
miRNA:   3'- gaCGGGUCCAGCUACGCUA--------------GCCCUgc -5'
16290 5' -57.9 NC_004084.1 + 46383 0.72 0.285916
Target:  5'- -cGCCCuucAGGUCGAaucGaCGAUCGGcGACGg -3'
miRNA:   3'- gaCGGG---UCCAGCUa--C-GCUAGCC-CUGC- -5'
16290 5' -57.9 NC_004084.1 + 39038 1.08 0.000773
Target:  5'- cCUGCCCAGGUCGAUGCGAUCGGGACGu -3'
miRNA:   3'- -GACGGGUCCAGCUACGCUAGCCCUGC- -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.