miRNA display CGI


Results 1 - 20 of 35 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
23432 5' -57.3 NC_005259.1 + 30456 0.66 0.662009
Target:  5'- uCAGCuacgugcucgaucaAGCAGCcUCGAGGUa-GGCCa -3'
miRNA:   3'- uGUCG--------------UUGUCGuAGCUCCAgcCCGGc -5'
23432 5' -57.3 NC_005259.1 + 55766 0.66 0.654511
Target:  5'- cGCAGCcGCGuacGCGUCGAGcUCGGcCCGc -3'
miRNA:   3'- -UGUCGuUGU---CGUAGCUCcAGCCcGGC- -5'
23432 5' -57.3 NC_005259.1 + 50435 0.66 0.643786
Target:  5'- -gGGCAGCGGUGcgggcUCGGGGUCGccGGUCu -3'
miRNA:   3'- ugUCGUUGUCGU-----AGCUCCAGC--CCGGc -5'
23432 5' -57.3 NC_005259.1 + 67409 0.66 0.63305
Target:  5'- cACGGgcCGACAcCAUCGGGGUgcCGGGCUc -3'
miRNA:   3'- -UGUC--GUUGUcGUAGCUCCA--GCCCGGc -5'
23432 5' -57.3 NC_005259.1 + 54505 0.66 0.63305
Target:  5'- -gGGCAugGCGGCGaugUGGGGUggCGGGUCGa -3'
miRNA:   3'- ugUCGU--UGUCGUa--GCUCCA--GCCCGGC- -5'
23432 5' -57.3 NC_005259.1 + 47160 0.67 0.621239
Target:  5'- cGCAGCAGaucaccgUAGCggCGaAGGUCGGcgguGCCGu -3'
miRNA:   3'- -UGUCGUU-------GUCGuaGC-UCCAGCC----CGGC- -5'
23432 5' -57.3 NC_005259.1 + 57657 0.67 0.611584
Target:  5'- uACAGCAGCA-CGUCGAccGuGUCcGGCCa -3'
miRNA:   3'- -UGUCGUUGUcGUAGCU--C-CAGcCCGGc -5'
23432 5' -57.3 NC_005259.1 + 42519 0.67 0.605154
Target:  5'- cCAGCAGCcguccggccccgaugGGCAcCGAGGUggCGGGCa- -3'
miRNA:   3'- uGUCGUUG---------------UCGUaGCUCCA--GCCCGgc -5'
23432 5' -57.3 NC_005259.1 + 34545 0.67 0.600872
Target:  5'- gGCAGCcuCAGC-UUGccGUCGgGGCCGa -3'
miRNA:   3'- -UGUCGuuGUCGuAGCucCAGC-CCGGC- -5'
23432 5' -57.3 NC_005259.1 + 59113 0.67 0.573161
Target:  5'- uCAGCAcgcGCGGCAUCGAGcagagcgucgagcucGgcagCGGuGCCGg -3'
miRNA:   3'- uGUCGU---UGUCGUAGCUC---------------Ca---GCC-CGGC- -5'
23432 5' -57.3 NC_005259.1 + 52382 0.67 0.568922
Target:  5'- aGCGGCugcGCAGCcugccucgggccAUCGAGGUgUGGGCg- -3'
miRNA:   3'- -UGUCGu--UGUCG------------UAGCUCCA-GCCCGgc -5'
23432 5' -57.3 NC_005259.1 + 8372 0.67 0.568922
Target:  5'- gGCGGCGGCcucGGCAUCGGcgagagccucGGcgagcCGGGCCa -3'
miRNA:   3'- -UGUCGUUG---UCGUAGCU----------CCa----GCCCGGc -5'
23432 5' -57.3 NC_005259.1 + 57072 0.68 0.547853
Target:  5'- -gGGUcgAAC-GCGUCGAGGaugUCGGGUCGa -3'
miRNA:   3'- ugUCG--UUGuCGUAGCUCC---AGCCCGGC- -5'
23432 5' -57.3 NC_005259.1 + 35613 0.68 0.53741
Target:  5'- -uGGCcacGCuGCGUCGAGuaguUCGGGCCGc -3'
miRNA:   3'- ugUCGu--UGuCGUAGCUCc---AGCCCGGC- -5'
23432 5' -57.3 NC_005259.1 + 26674 0.68 0.527037
Target:  5'- cCGGCGGCAGCccgcccAUCGAGG-CGGGgaacUCGg -3'
miRNA:   3'- uGUCGUUGUCG------UAGCUCCaGCCC----GGC- -5'
23432 5' -57.3 NC_005259.1 + 62860 0.68 0.527037
Target:  5'- aGCAGCcgcuCGGCG-CGAGGUa-GGCCGc -3'
miRNA:   3'- -UGUCGuu--GUCGUaGCUCCAgcCCGGC- -5'
23432 5' -57.3 NC_005259.1 + 17824 0.68 0.516739
Target:  5'- uCAGCGAgGcCAUCGAcGGgUGGGCCGa -3'
miRNA:   3'- uGUCGUUgUcGUAGCU-CCaGCCCGGC- -5'
23432 5' -57.3 NC_005259.1 + 10757 0.68 0.503475
Target:  5'- -gGGCGAUcaucaugucgggcgGGuCAUCGAGGU-GGGCCGc -3'
miRNA:   3'- ugUCGUUG--------------UC-GUAGCUCCAgCCCGGC- -5'
23432 5' -57.3 NC_005259.1 + 46401 0.69 0.466581
Target:  5'- cGCGGUGAgGGCAUCGAaacCGGGCUGu -3'
miRNA:   3'- -UGUCGUUgUCGUAGCUccaGCCCGGC- -5'
23432 5' -57.3 NC_005259.1 + 23290 0.69 0.45685
Target:  5'- cGCGGUggUugGGUAUCGGGGUCcGGCgCGg -3'
miRNA:   3'- -UGUCGuuG--UCGUAGCUCCAGcCCG-GC- -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.