Origin IGS: tagtttagtagtattgaaacgagatatcatatgataataaaagatatacaaggatgtgtagaaagtcagacgtttgactgcaagagcattcaaatagccccgaaggtattggctattcccatcgttgcatttgcaaaaatcatttcttaacttctgataatatgcacttataagaaccagagaaaat .........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 attttctctggttcttataagtgcatattatcagaagttaagaaatgatttttgcaaatgcaacgatgggaatagccaataccttcggggctatttgaatgctcttgcagtcaaacgtctgactttctacacatccttgtatatcttttattatcatatgatatctcgtttcaatactactaaacta Mask Tandem Repeat Region ================================================ tagtttagtagtattgaaacgagatatcatatgataataaaagatatacaaggatgtgtagaaagtcagacgtttgactgcaagagcattcaaatagccccgaaggtattggctattcccatcgttgcatttgcaaaaatcatttcttaacttctgataatatgcacttataagaaccagagaaaat Find is-nt database================================================ Query_seq: TF2956:TF2958|TF2956:TF2958:conserved hypothetical protein:type I restriction-modification system R subunit:->->:3166526..3166712 187 tagtttagtagtattgaaacgagatatcatatgataataaaagatatacaaggatgtgtagaaagtcagacgtttgactgcaagagcattcaaatagccccgaaggtattggctattcccatcgttgcatttgcaaaaatcatttcttaacttctgataatatgcacttataagaaccagagaaaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2956:TF2958|TF2956:TF2958:conserved hypothetical protein:type I restriction-modification system R subunit:->->:3166526..3166712 187 tagtttagtagtattgaaacgagatatcatatgataataaaagatatacaaggatgtgtagaaagtcagacgtttgactgcaagagcattcaaatagccccgaaggtattggctattcccatcgttgcatttgcaaaaatcatttcttaacttctgataatatgcacttataagaaccagagaaaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2956:TF2958|TF2956:TF2958:conserved hypothetical protein:type I restriction-modification system R subunit:->->:3166526..3166712 187 tagtttagtagtattgaaacgagatatcatatgataataaaagatatacaaggatgtgtagaaagtcagacgtttgactgcaagagcattcaaatagccccgaaggtattggctattcccatcgttgcatttgcaaaaatcatttcttaacttctgataatatgcacttataagaaccagagaaaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tagtttagtagtattgaaacgagatatcatatgataataaaagatatacaaggatgtgtagaaagtcagacgtttgactgcaagagcattcaaatagccccgaaggtattggctattcccatcgttgcatttgcaaaaatcatttcttaacttctgataatatgcacttataagaaccagagaaaat Predict ORF larger than 30AA ================================================ Protein_Len: 45 Strand: + Start: 13 End: 147 ............ M E T R Y H M I I K D I Q G C V E S Q T F D C K S I Q I A P K V L A I P I V A F A K I I S ........................................ Protein_Len: 31 Strand: + Start: 78 End: 170 ............................................................................. M Q E H S N S P E G I G Y S H R C I C K N H F L T S D N M H L ................. Protein_Len: 34 Strand: - Start: 8 End: 109 ....... Y Y Q F S I D Y S L L L Y V L I H L F D S T Q S C S C E F L G S P M .............................................................................. Protein_Len: 60 Strand: - Start: 1 End: 180 L K T T N F R S I M H Y Y F I Y L S T Y F T L R K V A L A N L Y G R L Y Q S N G D N C K C F D N R L K Q Y Y A S I L V M ....... tagtttagtagtattgaaacgagatatcatatgataataaaagatatacaaggatgtgtagaaagtcagacgtttgactgcaagagcattcaaatagccccgaaggtattggctattcccatcgttgcatttgcaaaaatcatttcttaacttctgataatatgcacttataagaaccagagaaaat Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: - Score: 82 Start: 34 End: 63 .................................TTCTACACATCCTTGTATATCTTTTATTAT............................................................................................................................ Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ tagtttagtagtattgaaacgagatatcatatgataataaaagatatacaaggatgtgtagaaagtcagacgtttgactgcaagagcattcaaatagccccgaaggtattggctattcccatcgttgcatttgcaaaaatcatttcttaacttctgataatatgcacttataagaaccagagaaaat Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF2956:TF2958|TF2956:TF2958:conserved hypothetical protein:type I restriction-modification system R subunit:->->:3166526..3166712 187 tagtttagtagtattgaaacgagatatcatatgataataaaagatatacaaggatgtgtagaaagtcagacgtttgactgcaagagcattcaaatagccccgaaggtattggctattcccatcgttgcatttgcaaaaatcatttcttaacttctgataatatgcacttataagaaccagagaaaat Intra-Species Hit: Count: 1 Min: 1 Max: 187 Len: 187 Subject: tfor_TF2956_TF2958|conserved hypothetical protein:type I restriction-modification system R subunit|POSITIVE:POSITIVE|[3166526,3166712]|187 HSP 1 e-value: 1.0E-102 bit: 371.0 Len: 187 Query Start:1 Query End:187 Subject Strand: POSITIVE Subject Start: 1 Subject End: 187 tagtttagtagtattgaaacgagatatcatatgataataaaagatatacaaggatgtgtagaaagtcagacgtttgactgcaagagcattcaaatagccccgaaggtattggctattcccatcgttgcatttgcaaaaatcatttcttaacttctgataatatgcacttataagaaccagagaaaat tagtttagtagtattgaaacgagatatcatatgataataaaagatatacaaggatgtgtagaaagtcagacgtttgactgcaagagcattcaaatagccccgaaggtattggctattcccatcgttgcatttgcaaaaatcatttcttaacttctgataatatgcacttataagaaccagagaaaat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGUUUAGUAGUAUUGAAACGAGAUAUCAUAUGAUAAUAAAAGAUAUACAAGGAUGUGUAGAAAGUCAGACGUUUGACUGCAAGAGCAUUCAAAUAGCCCCGAAGGUAUUGGCUAUUCCCAUCGUUGCAUUUGCAAAAAUCAUUUCUUAACUUCUGAUAAUAUGCACUUAUAAGAACCAGAGAAAAU .......((((...((.(((((..((((....))))...............((((((......((((((....))))))......)))))).(((((((.(....)....)))))))....))))).)).))))........((((((...((((.((((.......)))).))))...)))))).. (-35.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUUUCUCUGGUUCUUAUAAGUGCAUAUUAUCAGAAGUUAAGAAAUGAUUUUUGCAAAUGCAACGAUGGGAAUAGCCAAUACCUUCGGGGCUAUUUGAAUGCUCUUGCAGUCAAACGUCUGACUUUCUACACAUCCUUGUAUAUCUUUUAUUAUCAUAUGAUAUCUCGUUUCAAUACUACUAAACUA ......((((((...(((......)))..))))))......(((((((.........((((((.((((.((((((((.....(....)))))))))...(((....)))((((......))))........)))).)))))).........((((....))))..)))))))............... (-36.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 400 128 85 222 164 tfor:TF1191|5end_possible_transcriptional_regulator_1273615..1273845_POSITIVE 398 130 86 50 6 tfor:TF2704|5end_ribonuclease_HII_2876242..2876472_POSITIVE 357 119 72 133 82 tfor:TF2218|5end_two-component_system_response_regulator_2390162..2390392_POSITIVE 333 120 79 95 52 tfor:TF0255|5end_conserved_hypothetical_protein_285807..286037_POSITIVE 326 105 61 106 52 tfor:TF2966|5end_hypothetical_protein_3176948..3177178_POSITIVE 316 135 97 49 7 tfor:TF1788|5end_conserved_hypothetical_protein_1927415..1927645_POSITIVE 313 115 71 151 102 tfor:TF2189|5end_conserved_hypothetical_protein_2363455..2363685_POSITIVE 313 127 84 152 110 tfor:TF0754|5end_GDP-4-keto-6-deoxy-D-mannose-3,5-epimerase-4-redu_ctase_(GDP-L-fucose_synthetase)_801631..801861_POSITIVE 308 135 94 85 30 tfor:TF0679|5end_hypothetical_protein_721155..721385_POSITIVE 305 134 94 91 41 tfor:TF2191|5end_hypothetical_protein_2365934..2366164_POSITIVE 305 130 82 210 158 tfor:TF1327|5end_L-fucose_permease_1405790..1406020_POSITIVE 305 134 94 226 176 tfor:TF0823|5end_conserved_hypothetical_protein_880660..880890_POSITIVE 305 134 94 53 3 tfor:TF0822|5end_hypothetical_protein_880487..880717_POSITIVE 299 128 84 181 126 tfor:TF2908|5end_transcriptional_regulator,_AraC_family_3103696..3103926_POSITIVE 298 128 82 212 161 tfor:TF2649|5end_fumarate_reductase/succinate_dehydrogenase,_flavoprotein_subunit_2819002..2819232_POSITIVE 297 145 102 75 34 tfor:TF0331|5end_hypothetical_protein_359074..359304_POSITIVE 296 100 51 177 132 tfor:TF1850|5end_Na+/H+-exchanging_protein_1998542..1998772_POSITIVE 296 124 87 195 165 tfor:TF1808|5end_DNA_processing_protein_subunit_A_1949356..1949586_POSITIVE 296 99 51 166 118 tfor:TF0298|5end_dipeptidase_323127..323357_POSITIVE 295 120 71 198 135 tfor:TF1446|5end_hypothetical_protein_1530649..1530879_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 398 130 86 45 1 tfor:TF2703|3end_conserved_hypothetical_protein_2876317..2876467_POSITIVE 357 119 72 56 5 tfor:TF2217|3end_hypothetical_protein_2390165..2390315_POSITIVE 320 169 124 50 8 tfor:TF0790|3end_conserved_hypothetical_protein_844794..844944_POSITIVE 313 115 71 151 102 tfor:TF2188|3end_conserved_hypothetical_protein_2363535..2363685_POSITIVE 308 120 72 52 3 tfor:TF2965|3end_conserved_hypothetical_protein_3176962..3177112_POSITIVE 299 128 84 86 31 tfor:TF2907|3end_CDP-diacylglycerol-serine-O-phosphatidyltransfera_se_3103681..3103831_POSITIVE 297 145 102 67 26 tfor:TF0330|3end_excinuclease_ABC,_subunit_A_359146..359296_POSITIVE 295 134 105 89 58 tfor:TF0783|3end_periplasmic_TonB_membrane-linking_protein_837465..837615_POSITIVE 292 114 72 122 68 tfor:TF2392|3end_alpha-galactosidase_2565506..2565656_POSITIVE 288 133 97 86 46 tfor:TF2848|3end_cobalamin_biosynthesis_protein_3037389..3037539_POSITIVE 287 128 92 62 20 tfor:TF2342|3end_glutathione_peroxidase_2506639..2506789_POSITIVE 287 87 49 63 23 tfor:TF2171|3end_hypothetical_protein_2345792..2345942_POSITIVE 285 129 82 78 25 tfor:TF0405|3end_conserved_hypothetical_protein_424308..424458_POSITIVE 284 138 97 80 24 tfor:TF1771|3end_prolipoprotein_diacylglyceryl_transferase_1910607..1910757_POSITIVE 276 129 83 125 80 tfor:TF1312|3end_hypothetical_protein_1388781..1388931_POSITIVE 274 123 84 148 112 tfor:TF0752|3end_nucleotide-binding_protein;_MAF-like_protein_801713..801863_POSITIVE 273 128 85 138 90 tfor:TF1182|3end_hypothetical_protein_1268938..1269088_POSITIVE 272 113 73 150 111 tfor:TF3157|3end_sodium/solute_symporter_3393787..3393937_POSITIVE 271 126 81 131 78 tfor:TF0047|3end_hypothetical_protein_54109..54259_POSITIVE 268 106 65 67 23 tfor:TF1588|3end_hypothetical_protein_1702560..1702710_POSITIVE