Origin IGS: taggggagtttttgggtgtgtctgcccttgcgttttttgcggttaaaaagacatagaccgcaaagagagggaaagtgtcctgtgtgattttaacatttttctcctcataaataggtagtattataggtaaaaatacttacttttagggattgtgggctgtgttcgtttattataattttgtaactaaaaaaatgtataaaat .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 attttatacatttttttagttacaaaattataataaacgaacacagcccacaatccctaaaagtaagtatttttacctataatactacctatttatgaggagaaaaatgttaaaatcacacaggacactttccctctctttgcggtctatgtctttttaaccgcaaaaaacgcaagggcagacacacccaaaaactccccta Mask Tandem Repeat Region ================================================ taggggagtttttgggtgtgtctgcccttgcgttttttgcggttaaaaagacatagaccgcaaagagagggaaagtgtcctgtgtgattttaacatttttctcctcataaataggtagtattataggtaaaaatacttacttttagggattgtgggctgtgttcgtttattataattttgtaactaaaaaaatgtataaaat Find is-nt database================================================ Query_seq: TF2613:TF2614|TF2613:TF2614:conserved hypothetical protein:conserved hypothetical protein:->->:2789859..2790060 202 taggggagtttttgggtgtgtctgcccttgcgttttttgcggttaaaaagacatagaccgcaaagagagggaaagtgtcctgtgtgattttaacatttttctcctcataaataggtagtattataggtaaaaatacttacttttagggattgtgggctgtgttcgtttattataattttgtaactaaaaaaatgtataaaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2613:TF2614|TF2613:TF2614:conserved hypothetical protein:conserved hypothetical protein:->->:2789859..2790060 202 taggggagtttttgggtgtgtctgcccttgcgttttttgcggttaaaaagacatagaccgcaaagagagggaaagtgtcctgtgtgattttaacatttttctcctcataaataggtagtattataggtaaaaatacttacttttagggattgtgggctgtgttcgtttattataattttgtaactaaaaaaatgtataaaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2613:TF2614|TF2613:TF2614:conserved hypothetical protein:conserved hypothetical protein:->->:2789859..2790060 202 taggggagtttttgggtgtgtctgcccttgcgttttttgcggttaaaaagacatagaccgcaaagagagggaaagtgtcctgtgtgattttaacatttttctcctcataaataggtagtattataggtaaaaatacttacttttagggattgtgggctgtgttcgtttattataattttgtaactaaaaaaatgtataaaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taggggagtttttgggtgtgtctgcccttgcgttttttgcggttaaaaagacatagaccgcaaagagagggaaagtgtcctgtgtgattttaacatttttctcctcataaataggtagtattataggtaaaaatacttacttttagggattgtgggctgtgttcgtttattataattttgtaactaaaaaaatgtataaaat Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: - Start: 108 End: 197 ........................................................................................................... L Y T T N Y T F I S V K L S Q P S H E N I I I K Y S F F H M ..... Protein_Len: 41 Strand: - Start: 2 End: 124 . P S N K P T D A R A N K A T L F V Y V A F L P F T D Q T I K V N K E E Y I P L I M .............................................................................. taggggagtttttgggtgtgtctgcccttgcgttttttgcggttaaaaagacatagaccgcaaagagagggaaagtgtcctgtgtgattttaacatttttctcctcataaataggtagtattataggtaaaaatacttacttttagggattgtgggctgtgttcgtttattataattttgtaactaaaaaaatgtataaaat Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ taggggagtttttgggtgtgtctgcccttgcgttttttgcggttaaaaagacatagaccgcaaagagagggaaagtgtcctgtgtgattttaacatttttctcctcataaataggtagtattataggtaaaaatacttacttttagggattgtgggctgtgttcgtttattataattttgtaactaaaaaaatgtataaaat Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF2613:TF2614|TF2613:TF2614:conserved hypothetical protein:conserved hypothetical protein:->->:2789859..2790060 202 taggggagtttttgggtgtgtctgcccttgcgttttttgcggttaaaaagacatagaccgcaaagagagggaaagtgtcctgtgtgattttaacatttttctcctcataaataggtagtattataggtaaaaatacttacttttagggattgtgggctgtgttcgtttattataattttgtaactaaaaaaatgtataaaat Intra-Species Hit: Count: 1 Min: 1 Max: 185 Len: 185 Subject: tfor_TF2613_TF2614|conserved hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[2789859,2790060]|202 HSP 1 e-value: 1.0E-100 bit: 367.0 Len: 185 Query Start:1 Query End:185 Subject Strand: POSITIVE Subject Start: 1 Subject End: 185 taggggagtttttgggtgtgtctgcccttgcgttttttgcggttaaaaagacatagaccgcaaagagagggaaagtgtcctgtgtgattttaacatttttctcctcataaataggtagtattataggtaaaaatacttacttttagggattgtgggctgtgttcgtttattataattttgtaact................. taggggagtttttgggtgtgtctgcccttgcgttttttgcggttaaaaagacatagaccgcaaagagagggaaagtgtcctgtgtgattttaacatttttctcctcataaataggtagtattataggtaaaaatacttacttttagggattgtgggctgtgttcgtttattataattttgtaact................. Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGGGGAGUUUUUGGGUGUGUCUGCCCUUGCGUUUUUUGCGGUUAAAAAGACAUAGACCGCAAAGAGAGGGAAAGUGUCCUGUGUGAUUUUAACAUUUUUCUCCUCAUAAAUAGGUAGUAUUAUAGGUAAAAAUACUUACUUUUAGGGAUUGUGGGCUGUGUUCGUUUAUUAUAAUUUUGUAACU .((((.((.............)).)))).(((.....)))...((((..(((((((.((((((.(((..(((((((((..............)))))))))..)))......((((((((((.........))))).))))).......)))))).)))))))..))))................ (-42.46) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGUUACAAAAUUAUAAUAAACGAACACAGCCCACAAUCCCUAAAAGUAAGUAUUUUUACCUAUAAUACUACCUAUUUAUGAGGAGAAAAAUGUUAAAAUCACACAGGACACUUUCCCUCUCUUUGCGGUCUAUGUCUUUUUAACCGCAAAAAACGCAAGGGCAGACACACCCAAAAACUCCCCUA ............................((((............((..((((((.........))))))..))......((((.((((..((((............)))).))))))))..((((((((.((........))))))))))........))))....................... (-29.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 446 70 21 75 26 tfor:TF0230|5end_hydrolase,_haloacid_dehalogenase-like_family_256982..257212_POSITIVE 390 42 2 187 142 tfor:TF1352|5end_polysaccharide_deacetylase-like_protein_1432006..1432236_POSITIVE 371 42 4 161 119 tfor:TF2158|5end_conserved_hypothetical_protein_2333857..2334087_POSITIVE 358 60 11 68 22 tfor:TF0947|5end_extracellular_protease_990627..990857_POSITIVE 344 70 28 143 101 tfor:TF1850|5end_Na+/H+-exchanging_protein_1998542..1998772_POSITIVE 340 44 3 208 166 tfor:TF2654|5end_arginyl-tRNA_synthetase_2822692..2822922_POSITIVE 340 42 2 188 134 tfor:TF1775|5end_oxidoreductase,_Gfo/Idh/MocA_family_1913135..1913365_POSITIVE 333 70 21 218 179 tfor:TF2777|5end_hypothetical_protein_2961595..2961825_POSITIVE 333 70 21 93 54 tfor:TF2776|5end_hypothetical_protein_2961470..2961700_POSITIVE 320 42 15 72 45 tfor:TF1465|5end_modulator_of_DNA_gyrase_1554148..1554378_POSITIVE 313 41 3 42 4 tfor:TF2324|5end_conserved_hypothetical_protein;_possible_cobalamin_adenosyltransferase_2483714..2483944_POSITIVE 312 60 11 90 31 tfor:TF2980|5end_possible_alpha-amylase_3193179..3193409_POSITIVE 308 42 2 70 23 tfor:TF2826|5end_possible_Fe-S_oxidoreductase,_family_2_3017816..3018046_POSITIVE 305 45 3 194 148 tfor:TF1048|5end_permease_1109241..1109471_POSITIVE 304 50 3 50 2 tfor:TF2753|5end_zinc_protease_2937543..2937773_POSITIVE 302 43 13 203 175 tfor:TF0745|5end_conserved_hypothetical_protein_790653..790883_POSITIVE 301 42 3 83 39 tfor:TF1842|5end_hypothetical_protein_1992571..1992801_POSITIVE 293 69 22 154 111 tfor:TF2271|5end_conserved_hypothetical_protein_2435802..2436032_POSITIVE 292 44 3 72 29 tfor:TF1340|5end_pantoate--beta-alanine_ligase_1421280..1421510_POSITIVE 291 45 4 169 115 tfor:TF1815|5end_conserved_hypothetical_protein_1956604..1956834_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 390 42 2 151 106 tfor:TF1351|3end_conserved_hypothetical_protein_1432050..1432200_POSITIVE 371 42 4 148 106 tfor:TF2157|3end_conserved_hypothetical_protein_2333924..2334074_POSITIVE 358 60 11 59 13 tfor:TF0946|3end_iron(III)_ABC_transporter,_periplasmic_iron-binding_protein_990698..990848_POSITIVE 328 43 2 79 26 tfor:TF0624|3end_Xaa-Pro_dipeptidase_(aminopeptidase_P)_661015..661165_POSITIVE 292 44 3 47 4 tfor:TF1339|3end_aspartate_1-decarboxylase_1421335..1421485_POSITIVE 291 32 2 67 33 tfor:TF1680|3end_peptide_chain_release_factor_3_1794969..1795119_POSITIVE 290 42 1 71 17 tfor:TF1568|3end_H+-transporting_ATP_synthase,_subunit_D_1677038..1677188_POSITIVE 288 60 16 143 98 tfor:TF2169|3end_hypothetical_protein_2345354..2345504_POSITIVE 287 70 26 73 33 tfor:TF2609|3end_dipeptidase,_pathogenicity_island-encoded_protein_D_2786264..2786414_POSITIVE 286 45 2 90 43 tfor:TF0537|3end_conserved_hypothetical_protein_566836..566986_POSITIVE 284 42 2 46 1 tfor:TF0593|3end_membrane-associated_phospholipid_phosphatase_627051..627201_POSITIVE 281 66 23 141 94 tfor:TF0337|3end_hypothetical_protein_360711..360861_POSITIVE 281 70 25 97 44 tfor:TF0203|3end_PhoH-like_protein_230660..230810_POSITIVE 278 42 2 122 76 tfor:TF1846|3end_hypothetical_protein_1997015..1997165_POSITIVE 278 42 2 112 66 tfor:TF1845|3end_hypothetical_protein_1997005..1997155_POSITIVE 277 45 1 126 86 tfor:TF2346|3end_hypothetical_protein_2509973..2510123_POSITIVE 276 44 2 82 42 tfor:TF0541|3end_conserved_hypothetical_protein_571858..572008_POSITIVE 275 70 21 68 6 tfor:TF2266|3end_transfer_region-related_protein,_TraQ_2434949..2435099_POSITIVE 274 67 28 109 56 tfor:TF2106|3end_hypothetical_protein_2277634..2277784_POSITIVE 274 67 21 49 2 tfor:TF1237|3end_possible_L-fuculose_kinase_1323599..1323749_POSITIVE