miRNA display CGI


Results 1 - 20 of 96 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
14611 5' -52.4 NC_003521.1 + 238771 0.66 0.989889
Target:  5'- cGACAGaGGugGGGACACggcaCAGGuAGCAGCGg -3'
miRNA:   3'- uUUGUC-CC--UCUUGUG----GUCC-UUGUCGU- -5'
14611 5' -52.4 NC_003521.1 + 238546 0.68 0.971657
Target:  5'- cAGCGGGuaGAGGugGCCguccuGGGGGCAGUAg -3'
miRNA:   3'- uUUGUCC--CUCUugUGG-----UCCUUGUCGU- -5'
14611 5' -52.4 NC_003521.1 + 238471 0.68 0.974406
Target:  5'- cGGGCGGGGcGGAgacGCGgcCCAGGGuCAGCAg -3'
miRNA:   3'- -UUUGUCCC-UCU---UGU--GGUCCUuGUCGU- -5'
14611 5' -52.4 NC_003521.1 + 236339 0.67 0.981488
Target:  5'- cGGACgGGGGAGGACGauaaaagaUCGGGGGCcGCAg -3'
miRNA:   3'- -UUUG-UCCCUCUUGU--------GGUCCUUGuCGU- -5'
14611 5' -52.4 NC_003521.1 + 236139 0.68 0.974406
Target:  5'- gGGACGGGGGGGACcgcgcgacgucGCCGgcGGGACcuAGCGg -3'
miRNA:   3'- -UUUGUCCCUCUUG-----------UGGU--CCUUG--UCGU- -5'
14611 5' -52.4 NC_003521.1 + 222048 0.68 0.962146
Target:  5'- --uCGGcGGGGGGCACCAGccgucGCAGCAg -3'
miRNA:   3'- uuuGUC-CCUCUUGUGGUCcu---UGUCGU- -5'
14611 5' -52.4 NC_003521.1 + 221233 0.68 0.97545
Target:  5'- gAAACAGGuguuccagcuugugaGGGAACACCAGc--CAGCAg -3'
miRNA:   3'- -UUUGUCC---------------CUCUUGUGGUCcuuGUCGU- -5'
14611 5' -52.4 NC_003521.1 + 220915 1.07 0.01087
Target:  5'- gAAACAGGGAGAACACCAGGAACAGCAg -3'
miRNA:   3'- -UUUGUCCCUCUUGUGGUCCUUGUCGU- -5'
14611 5' -52.4 NC_003521.1 + 220050 0.67 0.979314
Target:  5'- cGACAGcGccAACGCCAGGAaggACAGCAc -3'
miRNA:   3'- uUUGUCcCucUUGUGGUCCU---UGUCGU- -5'
14611 5' -52.4 NC_003521.1 + 219850 0.71 0.903021
Target:  5'- -uGCGGGcccGAGAGCAUgAGGAuCAGCAu -3'
miRNA:   3'- uuUGUCC---CUCUUGUGgUCCUuGUCGU- -5'
14611 5' -52.4 NC_003521.1 + 215638 0.7 0.936955
Target:  5'- aGGACGGGGcuccgcauGGucGCGgCGGGAGCAGCGa -3'
miRNA:   3'- -UUUGUCCC--------UCu-UGUgGUCCUUGUCGU- -5'
14611 5' -52.4 NC_003521.1 + 215468 0.68 0.974406
Target:  5'- ---gAGGGAgccacgaaggcGAAgGCCAGGAGCAGgGa -3'
miRNA:   3'- uuugUCCCU-----------CUUgUGGUCCUUGUCgU- -5'
14611 5' -52.4 NC_003521.1 + 215446 0.66 0.993263
Target:  5'- gGAGCAGGGuGuccgGCGCCgAGGAACcaAGUc -3'
miRNA:   3'- -UUUGUCCCuCu---UGUGG-UCCUUG--UCGu -5'
14611 5' -52.4 NC_003521.1 + 215380 0.68 0.968702
Target:  5'- ---gAGGcaGAGGACgGCCAGGAAgGGCAc -3'
miRNA:   3'- uuugUCC--CUCUUG-UGGUCCUUgUCGU- -5'
14611 5' -52.4 NC_003521.1 + 213500 0.66 0.992973
Target:  5'- -cACAGGGuGAugACCAGcacauagucggugaGGAUGGCGg -3'
miRNA:   3'- uuUGUCCCuCUugUGGUC--------------CUUGUCGU- -5'
14611 5' -52.4 NC_003521.1 + 207436 0.7 0.931913
Target:  5'- --cCAGGGAGAGCGgCGGcuGGCGGCGu -3'
miRNA:   3'- uuuGUCCCUCUUGUgGUCc-UUGUCGU- -5'
14611 5' -52.4 NC_003521.1 + 198947 0.7 0.921092
Target:  5'- gAGGCAGuGGAGGuuggGCACCAGGcgcGAgAGCGu -3'
miRNA:   3'- -UUUGUC-CCUCU----UGUGGUCC---UUgUCGU- -5'
14611 5' -52.4 NC_003521.1 + 197288 0.68 0.962146
Target:  5'- gGAGC-GGGAGGGCGgCucgacgggagaGGGGGCGGCAg -3'
miRNA:   3'- -UUUGuCCCUCUUGUgG-----------UCCUUGUCGU- -5'
14611 5' -52.4 NC_003521.1 + 187057 0.66 0.993263
Target:  5'- cGGGCGGGaAGggUGCCAGcGAGCGGa- -3'
miRNA:   3'- -UUUGUCCcUCuuGUGGUC-CUUGUCgu -5'
14611 5' -52.4 NC_003521.1 + 186919 0.67 0.979314
Target:  5'- ---aAGGG-GGGCGCCgguggcGGGGGCGGCGg -3'
miRNA:   3'- uuugUCCCuCUUGUGG------UCCUUGUCGU- -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.