Results 1 - 20 of 36 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 | |||||||
12968 | 3' | -57.9 | NC_003387.1 | + | 52057 | 0.66 | 0.576834 |
Target: 5'- uGCCGGGGCuGggGGaGCAcaucgUGCaGGcccuacUCGAc -3' miRNA: 3'- -CGGUCCCG-CuuCC-CGU-----ACG-CCa-----AGCU- -5' |
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12968 | 3' | -57.9 | NC_003387.1 | + | 22657 | 0.66 | 0.566117 |
Target: 5'- cGCCccGGCGGccgucAGGGCGcgcucguggGCGGUgUCGAc -3' miRNA: 3'- -CGGucCCGCU-----UCCCGUa--------CGCCA-AGCU- -5' |
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12968 | 3' | -57.9 | NC_003387.1 | + | 5544 | 0.66 | 0.566117 |
Target: 5'- aGCCccgAGGGCGAccaccAGGGCcaccGCGGUg--- -3' miRNA: 3'- -CGG---UCCCGCU-----UCCCGua--CGCCAagcu -5' |
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12968 | 3' | -57.9 | NC_003387.1 | + | 14178 | 0.66 | 0.554389 |
Target: 5'- gGCCGcGGGCGuGAGGGCGUcgugaugGCGcg-CGAg -3' miRNA: 3'- -CGGU-CCCGC-UUCCCGUA-------CGCcaaGCU- -5' |
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12968 | 3' | -57.9 | NC_003387.1 | + | 19439 | 0.66 | 0.544846 |
Target: 5'- -aCAGGGCGuuAAGGcCGUGCGGgcgCGu -3' miRNA: 3'- cgGUCCCGC--UUCCcGUACGCCaa-GCu -5' |
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12968 | 3' | -57.9 | NC_003387.1 | + | 28702 | 0.66 | 0.544846 |
Target: 5'- aCCAGuGGCGcaAAGGGCAggcccucaaGUGGUggagCGAg -3' miRNA: 3'- cGGUC-CCGC--UUCCCGUa--------CGCCAa---GCU- -5' |
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12968 | 3' | -57.9 | NC_003387.1 | + | 22711 | 0.66 | 0.542733 |
Target: 5'- gGCCuGGGCGAuaccgaccagucGGGCGUacucGCGGUcgcUCGc -3' miRNA: 3'- -CGGuCCCGCUu-----------CCCGUA----CGCCA---AGCu -5' |
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12968 | 3' | -57.9 | NC_003387.1 | + | 50894 | 0.66 | 0.534307 |
Target: 5'- cGUCGGGGCGucgacgucGAGGGCAuggucacgaucaUGCGGa---- -3' miRNA: 3'- -CGGUCCCGC--------UUCCCGU------------ACGCCaagcu -5' |
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12968 | 3' | -57.9 | NC_003387.1 | + | 23436 | 0.66 | 0.534307 |
Target: 5'- cGCCGGGGaacAGGGCGucgaUGCGGgUUGc -3' miRNA: 3'- -CGGUCCCgcuUCCCGU----ACGCCaAGCu -5' |
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12968 | 3' | -57.9 | NC_003387.1 | + | 22174 | 0.67 | 0.523842 |
Target: 5'- gGCCcaGGCG-GGGGCG-GCGGUaUCGGg -3' miRNA: 3'- -CGGucCCGCuUCCCGUaCGCCA-AGCU- -5' |
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12968 | 3' | -57.9 | NC_003387.1 | + | 43090 | 0.67 | 0.513455 |
Target: 5'- aCCAGGGUGAcGGGCGccgGGUaCGAg -3' miRNA: 3'- cGGUCCCGCUuCCCGUacgCCAaGCU- -5' |
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12968 | 3' | -57.9 | NC_003387.1 | + | 19622 | 0.67 | 0.513455 |
Target: 5'- cGCC---GCGAAGGGCGcgacggGCGGcUCGAu -3' miRNA: 3'- -CGGuccCGCUUCCCGUa-----CGCCaAGCU- -5' |
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12968 | 3' | -57.9 | NC_003387.1 | + | 623 | 0.67 | 0.503154 |
Target: 5'- -gCAGGGCG-AGGGCAgcgucgccgccGCGGcagCGAc -3' miRNA: 3'- cgGUCCCGCuUCCCGUa----------CGCCaa-GCU- -5' |
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12968 | 3' | -57.9 | NC_003387.1 | + | 26611 | 0.67 | 0.503154 |
Target: 5'- cGCCucGGcGGCGAAGcuggacGGCAUGCGGgg-GAu -3' miRNA: 3'- -CGG--UC-CCGCUUC------CCGUACGCCaagCU- -5' |
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12968 | 3' | -57.9 | NC_003387.1 | + | 17154 | 0.67 | 0.492943 |
Target: 5'- gGCCAGGGCGccGaGGUAguccaucGCGGcgUCGu -3' miRNA: 3'- -CGGUCCCGCuuC-CCGUa------CGCCa-AGCu -5' |
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12968 | 3' | -57.9 | NC_003387.1 | + | 629 | 0.67 | 0.492943 |
Target: 5'- --aGGGGCcaguGGGGCAgGCGGU-CGAg -3' miRNA: 3'- cggUCCCGcu--UCCCGUaCGCCAaGCU- -5' |
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12968 | 3' | -57.9 | NC_003387.1 | + | 48968 | 0.68 | 0.462909 |
Target: 5'- aGCU--GGCGAucgugcacgcGGGCAUGCGGccgUCGAu -3' miRNA: 3'- -CGGucCCGCUu---------CCCGUACGCCa--AGCU- -5' |
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12968 | 3' | -57.9 | NC_003387.1 | + | 25741 | 0.68 | 0.462909 |
Target: 5'- -gCAGGGCGAcauucucGGCAUGauGUUCGGc -3' miRNA: 3'- cgGUCCCGCUuc-----CCGUACgcCAAGCU- -5' |
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12968 | 3' | -57.9 | NC_003387.1 | + | 24532 | 0.68 | 0.452138 |
Target: 5'- cGCCAccuuGGCGAGGGGCcgaGCgaaacugucgccgGGUUCGGg -3' miRNA: 3'- -CGGUc---CCGCUUCCCGua-CG-------------CCAAGCU- -5' |
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12968 | 3' | -57.9 | NC_003387.1 | + | 24579 | 0.68 | 0.443429 |
Target: 5'- gGCCGGGcuCGAucguGGGGCGcuUGCGGgccUCGGc -3' miRNA: 3'- -CGGUCCc-GCU----UCCCGU--ACGCCa--AGCU- -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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