miRNA display CGI


Results 1 - 20 of 86 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
16405 3' -55.6 NC_004084.1 + 50265 0.66 0.77647
Target:  5'- gUUGGCGGCGAgguccUCGACGucugccgaccaGGCGuCgGUCa -3'
miRNA:   3'- -AGCUGCUGCU-----AGCUGC-----------CCGCuGaCAG- -5'
16405 3' -55.6 NC_004084.1 + 213 0.68 0.608515
Target:  5'- cCGcACGGCcAUCGGCGGGgGAgUcGUCg -3'
miRNA:   3'- aGC-UGCUGcUAGCUGCCCgCUgA-CAG- -5'
16405 3' -55.6 NC_004084.1 + 49079 0.69 0.587066
Target:  5'- aCGuGCGACGGUCGGgagaggucuCGcGUGACUGUCu -3'
miRNA:   3'- aGC-UGCUGCUAGCU---------GCcCGCUGACAG- -5'
16405 3' -55.6 NC_004084.1 + 33450 0.76 0.252273
Target:  5'- -aGGCGAUGAUgGGCuGGGCGaaGCUGUCc -3'
miRNA:   3'- agCUGCUGCUAgCUG-CCCGC--UGACAG- -5'
16405 3' -55.6 NC_004084.1 + 10533 0.66 0.756586
Target:  5'- gUCGACGuugccgagccaGCGGaCGAguagcucgGGGUGGCUGUCg -3'
miRNA:   3'- -AGCUGC-----------UGCUaGCUg-------CCCGCUGACAG- -5'
16405 3' -55.6 NC_004084.1 + 39585 0.66 0.746457
Target:  5'- gUCGACGA-GGUCc-CGGGCGcGCUuGUCu -3'
miRNA:   3'- -AGCUGCUgCUAGcuGCCCGC-UGA-CAG- -5'
16405 3' -55.6 NC_004084.1 + 29723 0.66 0.736216
Target:  5'- uUCGAgGA-GAUCGucCGGGCGACcGg- -3'
miRNA:   3'- -AGCUgCUgCUAGCu-GCCCGCUGaCag -5'
16405 3' -55.6 NC_004084.1 + 16920 0.66 0.735186
Target:  5'- aUCGugGcCGGgugcgguucggcaUCGGCGGGCGucGCgacGUCg -3'
miRNA:   3'- -AGCugCuGCU-------------AGCUGCCCGC--UGa--CAG- -5'
16405 3' -55.6 NC_004084.1 + 7082 0.67 0.673041
Target:  5'- gUCGACGAaGAUCucGCGGGCGcACUcgaucgccucgGUCg -3'
miRNA:   3'- -AGCUGCUgCUAGc-UGCCCGC-UGA-----------CAG- -5'
16405 3' -55.6 NC_004084.1 + 16122 0.68 0.608515
Target:  5'- aUCGuCGcCGAUCGugaACGGGUGACcgcggugGUCg -3'
miRNA:   3'- -AGCuGCuGCUAGC---UGCCCGCUGa------CAG- -5'
16405 3' -55.6 NC_004084.1 + 11047 0.67 0.662322
Target:  5'- gUCGACGACGcggaCGAagGGGCGGCcGcCg -3'
miRNA:   3'- -AGCUGCUGCua--GCUg-CCCGCUGaCaG- -5'
16405 3' -55.6 NC_004084.1 + 37861 0.67 0.683723
Target:  5'- uUCGaACGG-GAUgGcCGGGCGGgUGUCg -3'
miRNA:   3'- -AGC-UGCUgCUAgCuGCCCGCUgACAG- -5'
16405 3' -55.6 NC_004084.1 + 23070 0.66 0.77647
Target:  5'- gUCGcCGGCGAcgCGACGaGGUGGacGUCg -3'
miRNA:   3'- -AGCuGCUGCUa-GCUGC-CCGCUgaCAG- -5'
16405 3' -55.6 NC_004084.1 + 18020 0.67 0.662322
Target:  5'- gUCGACGGCGAgugUGAUGuGGUccgaGACcaUGUCg -3'
miRNA:   3'- -AGCUGCUGCUa--GCUGC-CCG----CUG--ACAG- -5'
16405 3' -55.6 NC_004084.1 + 21773 0.66 0.77647
Target:  5'- aUCGGCGGC-AUCGACGucGG-GGCcGUCa -3'
miRNA:   3'- -AGCUGCUGcUAGCUGC--CCgCUGaCAG- -5'
16405 3' -55.6 NC_004084.1 + 41369 0.67 0.694358
Target:  5'- gCGACGucagucacCGcAUCGACGGGCgcaGACgcucgGUCg -3'
miRNA:   3'- aGCUGCu-------GC-UAGCUGCCCG---CUGa----CAG- -5'
16405 3' -55.6 NC_004084.1 + 1026 0.68 0.6505
Target:  5'- gUCGACG-CGAUCGG-GGGCGcGCUcgaguucgccgagGUCg -3'
miRNA:   3'- -AGCUGCuGCUAGCUgCCCGC-UGA-------------CAG- -5'
16405 3' -55.6 NC_004084.1 + 49333 0.69 0.597777
Target:  5'- cUCGAuauCGGCGAUCGuguCGaGGUGAUcGUCg -3'
miRNA:   3'- -AGCU---GCUGCUAGCu--GC-CCGCUGaCAG- -5'
16405 3' -55.6 NC_004084.1 + 48364 0.66 0.766594
Target:  5'- aCGACGuACGAUCGACc-GUGAUagGUCa -3'
miRNA:   3'- aGCUGC-UGCUAGCUGccCGCUGa-CAG- -5'
16405 3' -55.6 NC_004084.1 + 4818 0.66 0.746457
Target:  5'- -aGGCGGgccgGAUCGGCGGG-GAgaGUCa -3'
miRNA:   3'- agCUGCUg---CUAGCUGCCCgCUgaCAG- -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.