Origin IGS: taaaatttaaatatttctaccacttttactatcatacaagcagaaaacaaagctttatacgtacaactcgaatcagagaagaacctcatccccaaaaacttttttttatttttccttggacacatttgaaaaataatctataactttgaagccaatcggtcgataagcaataacaaataaaaaaattgacaaccaaaatcaattttgagcaataaaacatctattctacgtc .........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 gacgtagaatagatgttttattgctcaaaattgattttggttgtcaatttttttatttgttattgcttatcgaccgattggcttcaaagttatagattatttttcaaatgtgtccaaggaaaaataaaaaaaagtttttggggatgaggttcttctctgattcgagttgtacgtataaagctttgttttctgcttgtatgatagtaaaagtggtagaaatatttaaatttta Mask Tandem Repeat Region ================================================ taaaatttaaatatttctaccacttttactatcatacaagcagaaaacaaagctttatacgtacaactcgaatcagagaagaacctcatccccaaaaacttttttttatttttccttggacacatttgaaaaataatctataactttgaagccaatcggtcgataagcaataacaaataaaaaaattgacaaccaaaatcaattttgagcaataaaacatctattctacgtc Find is-nt database================================================ Query_seq: TF1512:TF1513|TF1512:TF1513:hypothetical protein:hypothetical protein:->->:1624802..1625033 232 taaaatttaaatatttctaccacttttactatcatacaagcagaaaacaaagctttatacgtacaactcgaatcagagaagaacctcatccccaaaaacttttttttatttttccttggacacatttgaaaaataatctataactttgaagccaatcggtcgataagcaataacaaataaaaaaattgacaaccaaaatcaattttgagcaataaaacatctattctacgtc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1512:TF1513|TF1512:TF1513:hypothetical protein:hypothetical protein:->->:1624802..1625033 232 taaaatttaaatatttctaccacttttactatcatacaagcagaaaacaaagctttatacgtacaactcgaatcagagaagaacctcatccccaaaaacttttttttatttttccttggacacatttgaaaaataatctataactttgaagccaatcggtcgataagcaataacaaataaaaaaattgacaaccaaaatcaattttgagcaataaaacatctattctacgtc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1512:TF1513|TF1512:TF1513:hypothetical protein:hypothetical protein:->->:1624802..1625033 232 taaaatttaaatatttctaccacttttactatcatacaagcagaaaacaaagctttatacgtacaactcgaatcagagaagaacctcatccccaaaaacttttttttatttttccttggacacatttgaaaaataatctataactttgaagccaatcggtcgataagcaataacaaataaaaaaattgacaaccaaaatcaattttgagcaataaaacatctattctacgtc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaaatttaaatatttctaccacttttactatcatacaagcagaaaacaaagctttatacgtacaactcgaatcagagaagaacctcatccccaaaaacttttttttatttttccttggacacatttgaaaaataatctataactttgaagccaatcggtcgataagcaataacaaataaaaaaattgacaaccaaaatcaattttgagcaataaaacatctattctacgtc Predict ORF larger than 30AA ================================================ Protein_Len: 38 Strand: + Start: 13 End: 126 ............ M S T T F T I I Q A E N K A L Y V Q L E S E K N L I P K N F F L F F L G H I .......................................................................................................... Protein_Len: 41 Strand: + Start: 11 End: 133 .......... M F L P L L L S Y K Q K T K L Y T Y N S N Q R R T S S P K T F F Y F S L D T F E K ................................................................................................... Protein_Len: 44 Strand: - Start: 89 End: 220 ........................................................................................ G W F S K K I K G Q V C K F F L R Y S Q L W D T S L C Y C I F F N V V L I L K S C Y F M ............ Protein_Len: 45 Strand: - Start: 3 End: 137 .. F K F I E V V K V I M C A S F L A K Y T C S S D S F F R M G L F K K K N K R P C M Q F I M ............................................................................................... taaaatttaaatatttctaccacttttactatcatacaagcagaaaacaaagctttatacgtacaactcgaatcagagaagaacctcatccccaaaaacttttttttatttttccttggacacatttgaaaaataatctataactttgaagccaatcggtcgataagcaataacaaataaaaaaattgacaaccaaaatcaattttgagcaataaaacatctattctacgtc 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================================================ taaaatttaaatatttctaccacttttactatcatacaagcagaaaacaaagctttatacgtacaactcgaatcagagaagaacctcatccccaaaaacttttttttatttttccttggacacatttgaaaaataatctataactttgaagccaatcggtcgataagcaataacaaataaaaaaattgacaaccaaaatcaattttgagcaataaaacatctattctacgtc Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF1512:TF1513|TF1512:TF1513:hypothetical protein:hypothetical protein:->->:1624802..1625033 232 taaaatttaaatatttctaccacttttactatcatacaagcagaaaacaaagctttatacgtacaactcgaatcagagaagaacctcatccccaaaaacttttttttatttttccttggacacatttgaaaaataatctataactttgaagccaatcggtcgataagcaataacaaataaaaaaattgacaaccaaaatcaattttgagcaataaaacatctattctacgtc Intra-Species Hit: Count: 1 Min: 1 Max: 232 Len: 232 Subject: tfor_TF1512_TF1513|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[1624802,1625033]|232 HSP 1 e-value: 2.0E-49 bit: 196.0 Len: 99 Query Start:1 Query End:99 Subject Strand: POSITIVE Subject Start: 1 Subject End: 99 taaaatttaaatatttctaccacttttactatcatacaagcagaaaacaaagctttatacgtacaactcgaatcagagaagaacctcatccccaaaaac..................................................................................................................................... taaaatttaaatatttctaccacttttactatcatacaagcagaaaacaaagctttatacgtacaactcgaatcagagaagaacctcatccccaaaaac..................................................................................................................................... HSP 2 e-value: 9.0E-49 bit: 194.0 Len: 119 Query Start:114 Query End:232 Subject Strand: POSITIVE Subject Start: 114 Subject End: 232 .................................................................................................................ccttggacacatttgaaaaataatctataactttgaagccaatcggtcgataagcaataacaaatnnnnnnnttgacaaccaaaatcaattttgagcaataaaacatctattctacgtc .................................................................................................................ccttggacacatttgaaaaataatctataactttgaagccaatcggtcgataagcaataacaaataaaaaaattgacaaccaaaatcaattttgagcaataaaacatctattctacgtc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAAUUUAAAUAUUUCUACCACUUUUACUAUCAUACAAGCAGAAAACAAAGCUUUAUACGUACAACUCGAAUCAGAGAAGAACCUCAUCCCCAAAAACUUUUUUUUAUUUUUCCUUGGACACAUUUGAAAAAUAAUCUAUAACUUUGAAGCCAAUCGGUCGAUAAGCAAUAACAAAUAAAAAAAUUGACAACCAAAAUCAAUUUUGAGCAAUAAAACAUCUAUUCUACGUC .....................................((((..........))))...(((((...(((......)))......(((.....((((.........(((((((((..((....))...)))))))))........))))..((..(((....)))..)).............((((((((.........))))))))))).................))))). (-22.43) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GACGUAGAAUAGAUGUUUUAUUGCUCAAAAUUGAUUUUGGUUGUCAAUUUUUUUAUUUGUUAUUGCUUAUCGACCGAUUGGCUUCAAAGUUAUAGAUUAUUUUUCAAAUGUGUCCAAGGAAAAAUAAAAAAAAGUUUUUGGGGAUGAGGUUCUUCUCUGAUUCGAGUUGUACGUAUAAAGCUUUGUUUUCUGCUUGUAUGAUAGUAAAAGUGGUAGAAAUAUUUAAAUUUUA .........((((((((((((..((.(((((((((.......)))))))))...........(((((...(((((((....((((((((.......(((((((((...((....))..)))))))))........))))))))..((((....))))....))).))))..(((((((.((..........)))))))))..))))).))..)).))))))))))....... (-42.76) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 348 168 137 73 36 tfor:TF0143|5end_aspartate--ammonia_ligase_151390..151620_POSITIVE 301 92 60 185 144 tfor:TF1799|5end_quinolinate_synthetase_1940276..1940506_POSITIVE 269 91 59 75 32 tfor:TF2811|5end_glucosamine-6-phosphate_isomerase_3001892..3002122_POSITIVE 265 105 63 214 170 tfor:TF2880|5end_phenylalanyl-tRNA_synthetase,_beta_subunit_3069052..3069282_POSITIVE 259 160 117 122 77 tfor:TF1435|5end_acetate_coenzyme_A_transferase_1519574..1519804_POSITIVE 253 169 136 174 137 tfor:TF1586|5end_hypothetical_protein_1690971..1691201_POSITIVE 245 95 52 64 16 tfor:TF3162|5end_hypothetical_protein_3397624..3397854_POSITIVE 245 99 57 64 23 tfor:TF2012|5end_conserved_hypothetical_protein_2165380..2165610_POSITIVE 244 91 60 206 168 tfor:TF2718|5end_hypothetical_protein_2892324..2892554_POSITIVE 243 92 52 109 58 tfor:TF1137|5end_asparaginyl-tRNA_synthetase_(asparagine--tRNA_ligase)_1212443..1212673_POSITIVE 242 97 62 46 11 tfor:TF2547|5end_hypothetical_protein_2730664..2730894_POSITIVE 231 118 75 209 163 tfor:TF0909|5end_Tn5520-like_integrase_(transfer_factor)_951217..951447_POSITIVE 230 93 52 84 38 tfor:TF2884|5end_conserved_hypothetical_protein_3075057..3075287_POSITIVE 230 93 60 97 58 tfor:TF2453|5end_glutamate_racemase_2630422..2630652_POSITIVE 230 93 61 130 86 tfor:TF2241|5end_ATP-dependent_DNA_helicase_2415401..2415631_POSITIVE 228 79 39 169 125 tfor:TF2299|5end_hypothetical_protein_2449994..2450224_POSITIVE 228 160 118 217 172 tfor:TF1087|5end_ISPg4_transposase_1157186..1157416_POSITIVE 226 78 39 179 141 tfor:TF0538|5end_hypothetical_protein_566891..567121_POSITIVE 226 78 39 172 134 tfor:TF0539|5end_hypothetical_protein_566884..567114_POSITIVE 224 99 53 68 20 tfor:TF3026|5end_conserved_hypothetical_protein_3249137..3249367_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 348 168 137 86 49 tfor:TF0144|3end_hypothetical_protein_151483..151633_POSITIVE 265 105 63 90 46 tfor:TF2879|3end_tRNA_(guanine-N-1)-methyltransferase_3069008..3069158_POSITIVE 259 160 117 63 18 tfor:TF1434|3end_transketolase_1519595..1519745_POSITIVE 248 173 141 149 120 tfor:TF1151|3end_conserved_hypothetical_protein_1233262..1233412_POSITIVE 245 95 52 51 3 tfor:TF3161|3end_transposase_3397691..3397841_POSITIVE 244 91 60 132 94 tfor:TF2717|3end_glycosyltransferase_2892330..2892480_POSITIVE 239 160 116 123 73 tfor:TF1049|3end_cobyrinic_acid_a,c-diamide_synthase_1111539..1111689_POSITIVE 230 93 52 76 30 tfor:TF2883|3end_peptidyl-prolyl_cis-trans_isomerase_3075129..3075279_POSITIVE 230 93 61 66 22 tfor:TF2240|3end__tetracycline_resistance_element_mobilization_regulatory_protein_2415417..2415567_POSITIVE 228 160 118 111 66 tfor:TF1086|3end_hypothetical_protein_1157160..1157310_POSITIVE 226 78 39 44 6 tfor:TF0537|3end_conserved_hypothetical_protein_566836..566986_POSITIVE 225 123 84 149 113 tfor:TF1090|3end_hypothetical_protein_1159360..1159510_POSITIVE 224 94 52 71 27 tfor:TF1760|3end_guanosine-3',5'-bis(diphosphate)_3'-pyrophosphohydrolase_1899413..1899563_POSITIVE 221 94 52 140 98 tfor:TF0813|3end_glycosyl_hydrolase,_secreted_872181..872331_POSITIVE 216 168 137 138 101 tfor:TF2214|3end_peptidyl-prolyl_cis-trans_isomerase_2387564..2387714_POSITIVE 216 102 73 37 8 tfor:TF0930|3end_conserved_hypothetical_protein;_possible_prophage_protein_969965..970115_POSITIVE 216 99 52 50 7 tfor:TF0288|3end_conserved_hypothetical_protein_318099..318249_POSITIVE 210 88 41 119 62 tfor:TF0531|3end_hypothetical_protein_557469..557619_POSITIVE 209 179 150 68 38 tfor:TF2208|3end_conserved_hypothetical_protein_2383988..2384138_POSITIVE 209 173 136 48 12 tfor:TF0054|3end_possible_flavodoxin_58460..58610_POSITIVE