miRNA display CGI


Results 1 - 20 of 23 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
11689 3' -50.3 NC_003102.1 + 3544 0.66 0.993189
Target:  5'- -uCAGGAuacAGACGCGUCGUguUACauuccgauauuguGGCc -3'
miRNA:   3'- uuGUCCU---UUUGUGCAGCGguAUG-------------CCG- -5'
11689 3' -50.3 NC_003102.1 + 15405 0.66 0.994037
Target:  5'- cGGCAGGAucguugucaACGUCGCUGgucUugGGUg -3'
miRNA:   3'- -UUGUCCUuuug-----UGCAGCGGU---AugCCG- -5'
11689 3' -50.3 NC_003102.1 + 21326 0.69 0.963966
Target:  5'- uGCcGGcu-GCGCGUaCGCC-UGCGGCg -3'
miRNA:   3'- uUGuCCuuuUGUGCA-GCGGuAUGCCG- -5'
11689 3' -50.3 NC_003102.1 + 21544 0.7 0.927942
Target:  5'- uGugAGGAAAGCgACGgCGCCAU-CGGg -3'
miRNA:   3'- -UugUCCUUUUG-UGCaGCGGUAuGCCg -5'
11689 3' -50.3 NC_003102.1 + 23980 0.72 0.867586
Target:  5'- uACAuGAugauGCGCGUCGCCAU-CGGUa -3'
miRNA:   3'- uUGUcCUuu--UGUGCAGCGGUAuGCCG- -5'
11689 3' -50.3 NC_003102.1 + 29463 1.11 0.006358
Target:  5'- gAACAGGAAAACACGUCGCCAUACGGCa -3'
miRNA:   3'- -UUGUCCUUUUGUGCAGCGGUAUGCCG- -5'
11689 3' -50.3 NC_003102.1 + 33137 0.67 0.984802
Target:  5'- uGACGGGAAcguuucGGCGCGUUGCUgauucuuGUGCuGCu -3'
miRNA:   3'- -UUGUCCUU------UUGUGCAGCGG-------UAUGcCG- -5'
11689 3' -50.3 NC_003102.1 + 41471 0.69 0.956081
Target:  5'- cGGCGGcGAGGACaagauucGCGUCGUCGacUACGGUu -3'
miRNA:   3'- -UUGUC-CUUUUG-------UGCAGCGGU--AUGCCG- -5'
11689 3' -50.3 NC_003102.1 + 61979 0.66 0.994214
Target:  5'- -cCAGGGAAugucCAUGaUCGUCGgucgagGCGGCg -3'
miRNA:   3'- uuGUCCUUUu---GUGC-AGCGGUa-----UGCCG- -5'
11689 3' -50.3 NC_003102.1 + 62994 0.67 0.988341
Target:  5'- cGAgAGGAuuucGCAUGUCGCgCGUggccaaaacgACGGCc -3'
miRNA:   3'- -UUgUCCUuu--UGUGCAGCG-GUA----------UGCCG- -5'
11689 3' -50.3 NC_003102.1 + 70554 0.67 0.986746
Target:  5'- -uCAGcuuGGACACGUCGUCG-ACGGUc -3'
miRNA:   3'- uuGUCcu-UUUGUGCAGCGGUaUGCCG- -5'
11689 3' -50.3 NC_003102.1 + 71808 0.68 0.978881
Target:  5'- cAACGGuuucuuaccuccGCGCGUCGCCAgauCGGCc -3'
miRNA:   3'- -UUGUCcuuu--------UGUGCAGCGGUau-GCCG- -5'
11689 3' -50.3 NC_003102.1 + 78008 0.66 0.993672
Target:  5'- cAACAGGAAAAUuuuaggagcgACGUCGUCGaaaacgugaccagcAUGGCg -3'
miRNA:   3'- -UUGUCCUUUUG----------UGCAGCGGUa-------------UGCCG- -5'
11689 3' -50.3 NC_003102.1 + 84597 0.66 0.994214
Target:  5'- cAACAuGGAGGAaGCGcUCGCUuccauggACGGCg -3'
miRNA:   3'- -UUGU-CCUUUUgUGC-AGCGGua-----UGCCG- -5'
11689 3' -50.3 NC_003102.1 + 88111 0.73 0.825685
Target:  5'- cGGCAGGAG---GCGUCGCaguucggGCGGCa -3'
miRNA:   3'- -UUGUCCUUuugUGCAGCGgua----UGCCG- -5'
11689 3' -50.3 NC_003102.1 + 103328 0.66 0.995034
Target:  5'- aAACcGGAAAgacGCGCGUCGUCAaGCGu- -3'
miRNA:   3'- -UUGuCCUUU---UGUGCAGCGGUaUGCcg -5'
11689 3' -50.3 NC_003102.1 + 106838 0.66 0.991082
Target:  5'- uGGCGGGuuAAACGCGccgcuaccguuUCGUCAaACGGUa -3'
miRNA:   3'- -UUGUCCu-UUUGUGC-----------AGCGGUaUGCCG- -5'
11689 3' -50.3 NC_003102.1 + 117632 0.7 0.92227
Target:  5'- uACAcGGA--ACACGUCGCCA---GGCg -3'
miRNA:   3'- uUGU-CCUuuUGUGCAGCGGUaugCCG- -5'
11689 3' -50.3 NC_003102.1 + 120459 0.66 0.994214
Target:  5'- -uUAGGAuccgAAGCGCGcuuucagcgcUCGUguUACGGCg -3'
miRNA:   3'- uuGUCCU----UUUGUGC----------AGCGguAUGCCG- -5'
11689 3' -50.3 NC_003102.1 + 120609 0.74 0.777968
Target:  5'- ---cGGGAAGCACGuUCGCCAcaauguccgcgucUGCGGUg -3'
miRNA:   3'- uuguCCUUUUGUGC-AGCGGU-------------AUGCCG- -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.