Origin IGS: cttccgtcatagcatatacagacaacaaatgaccaacggaggtgaagttgatttctgtttttgcaaaaaatctttatcacaaaattcggaatgaatcaatttccattatcggggaaacccgaaaggaaaaattaaacagatttgcctatcgggaaaaccccgaaaggtaaaatcaaacggatttacccgtcgggaaaagcccgaaaggcaaaatcaaacggattgggccatcgggaaaaccccgaatatggaattgaaataaaggtataggtcaggagaggtaacacgataccattta .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaatggtatcgtgttacctctcctgacctatacctttatttcaattccatattcggggttttcccgatggcccaatccgtttgattttgcctttcgggcttttcccgacgggtaaatccgtttgattttacctttcggggttttcccgataggcaaatctgtttaatttttcctttcgggtttccccgataatggaaattgattcattccgaattttgtgataaagattttttgcaaaaacagaaatcaacttcacctccgttggtcatttgttgtctgtatatgctatgacggaag Mask Tandem Repeat Region ================================================ cttccgtcatagcatatacagacaacaaatgaccaacggaggtgaagttgatttctgtttttgcaaaaaatctttatcacaaaattcggaatgaatcaatttccatnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntatggaattgaaataaaggtataggtcaggagaggtaacacgataccattta Find is-nt database================================================ Query_seq: TF1195:TF1196|TF1195:TF1196:hypothetical protein:acetyl-coenzyme A synthetase:->->:1278906..1279203 298 cttccgtcatagcatatacagacaacaaatgaccaacggaggtgaagttgatttctgtttttgcaaaaaatctttatcacaaaattcggaatgaatcaatttccattatcggggaaacccgaaaggaaaaattaaacagatttgcctatcgggaaaaccccgaaaggtaaaatcaaacggatttacccgtcgggaaaagcccgaaaggcaaaatcaaacggattgggccatcgggaaaaccccgaatatggaattgaaataaaggtataggtcaggagaggtaacacgataccattta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1195:TF1196|TF1195:TF1196:hypothetical protein:acetyl-coenzyme A synthetase:->->:1278906..1279203 298 cttccgtcatagcatatacagacaacaaatgaccaacggaggtgaagttgatttctgtttttgcaaaaaatctttatcacaaaattcggaatgaatcaatttccattatcggggaaacccgaaaggaaaaattaaacagatttgcctatcgggaaaaccccgaaaggtaaaatcaaacggatttacccgtcgggaaaagcccgaaaggcaaaatcaaacggattgggccatcgggaaaaccccgaatatggaattgaaataaaggtataggtcaggagaggtaacacgataccattta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1195:TF1196|TF1195:TF1196:hypothetical protein:acetyl-coenzyme A synthetase:->->:1278906..1279203 298 cttccgtcatagcatatacagacaacaaatgaccaacggaggtgaagttgatttctgtttttgcaaaaaatctttatcacaaaattcggaatgaatcaatttccattatcggggaaacccgaaaggaaaaattaaacagatttgcctatcgggaaaaccccgaaaggtaaaatcaaacggatttacccgtcgggaaaagcccgaaaggcaaaatcaaacggattgggccatcgggaaaaccccgaatatggaattgaaataaaggtataggtcaggagaggtaacacgataccattta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 cttccgtcatagcatatacagacaacaaatgaccaacggaggtgaagttgatttctgtttttgcaaaaaatctttatcacaaaattcggaatgaatcaatttccattatcggggaaacccgaaaggaaaaattaaacagatttgcctatcgggaaaaccccgaaaggtaaaatcaaacggatttacccgtcgggaaaagcccgaaaggcaaaatcaaacggattgggccatcgggaaaaccccgaatatggaattgaaataaaggtataggtcaggagaggtaacacgataccattta Predict ORF larger than 30AA ================================================ Protein_Len: 42 Strand: + Start: 42 End: 167 ......................................... M K L I S V F A K N L Y H K I R N E S I S I I G E T R K E K L N R F A Y R E N P E R ................................................................................................................................... Protein_Len: 55 Strand: + Start: 95 End: 259 .............................................................................................. M N F H Y R G N P K G K I K Q I C L S G K P R K V K S N G F T R R E K P E R Q N Q T D W A I G K T P N M E L K ....................................... Protein_Len: 42 Strand: + Start: 142 End: 267 ............................................................................................................................................. M P I G K T P K G K I K R I Y P S G K A R K A K S N G L G H R E N P E Y G I E I K V ............................... Protein_Len: 35 Strand: - Start: 186 End: 290 ......................................................................................................................................................................................... G D P F A R F A F D F P N P W R S F G S Y P I S I F T Y T L L P L V M ........ Protein_Len: 31 Strand: - Start: 176 End: 268 ............................................................................................................................................................................... V S K G T P F L G F P L I L R I P G D P F G R I H F Q F L P M .............................. Protein_Len: 30 Strand: - Start: 10 End: 99 ......... L M Y L C C I V L P P S T S K Q K Q L F D K D C F E S H I M ....................................................................................................................................................................................................... Protein_Len: 30 Strand: - Start: 3 End: 92 .. G D Y C I C V V F S W R L H L Q N R N K C F I K I V F N P M .............................................................................................................................................................................................................. cttccgtcatagcatatacagacaacaaatgaccaacggaggtgaagttgatttctgtttttgcaaaaaatctttatcacaaaattcggaatgaatcaatttccattatcggggaaacccgaaaggaaaaattaaacagatttgcctatcgggaaaaccccgaaaggtaaaatcaaacggatttacccgtcgggaaaagcccgaaaggcaaaatcaaacggattgggccatcgggaaaaccccgaatatggaattgaaataaaggtataggtcaggagaggtaacacgataccattta 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================================================ cttccgtcatagcatatacagacaacaaatgaccaacggaggtgaagttgatttctgtttttgcaaaaaatctttatcacaaaattcggaatgaatcaatttccattatcggggaaacccgaaaggaaaaattaaacagatttgcctatcgggaaaaccccgaaaggtaaaatcaaacggatttacccgtcgggaaaagcccgaaaggcaaaatcaaacggattgggccatcgggaaaaccccgaatatggaattgaaataaaggtataggtcaggagaggtaacacgataccattta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 50 HP_score: -3.3 Tail_Score: -3.56092 Start: 118 End: 153 Full_Region: acctttcggggtttt cccgataggcaaa tctgtttaat ttttcctttcggg tttccccgataatgg .....................................................................................................................cccgataggcaaatctgtttaatttttcctttcggg................................................................................................................................................. TransTerm Strand: - Conf: 72 HP_score: -9.0 Tail_Score: -3.44205 Start: 141 End: 171 Full_Region: gtaaatccgtttgat tttacctttcgggg ttt tcccgataggcaaa tctgtttaatttttc ............................................................................................................................................tttacctttcggggttttcccgataggcaaa............................................................................................................................... TransTerm Strand: - Conf: 69 HP_score: -6.4 Tail_Score: -4.11216 Start: 158 End: 195 Full_Region: tgcctttcgggcttt tcccgacgggtaaatc cgttt gattttacctttcgggg ttttcccgataggca .............................................................................................................................................................tcccgacgggtaaatccgtttgattttacctttcgggg....................................................................................................... TransTerm Strand: - Conf: 63 HP_score: -7.7 Tail_Score: -3.06515 Start: 159 End: 194 Full_Region: gcctttcgggctttt cccgacgggtaaatc cgttt gattttacctttcggg gttttcccgataggc ..............................................................................................................................................................cccgacgggtaaatccgtttgattttacctttcggg........................................................................................................ TransTerm Strand: - Conf: 43 HP_score: -2.5 Tail_Score: -3.04517 Start: 200 End: 235 Full_Region: catattcggggtttt cccgatggcccaatc cgttt gattttgcctttcggg cttttcccgacgggt .......................................................................................................................................................................................................cccgatggcccaatccgtttgattttgcctttcggg............................................................... Find igs database================================================ Query_seq: TF1195:TF1196|TF1195:TF1196:hypothetical protein:acetyl-coenzyme A synthetase:->->:1278906..1279203 298 cttccgtcatagcatatacagacaacaaatgaccaacggaggtgaagttgatttctgtttttgcaaaaaatctttatcacaaaattcggaatgaatcaatttccattatcggggaaacccgaaaggaaaaattaaacagatttgcctatcgggaaaaccccgaaaggtaaaatcaaacggatttacccgtcgggaaaagcccgaaaggcaaaatcaaacggattgggccatcgggaaaaccccgaatatggaattgaaataaaggtataggtcaggagaggtaacacgataccattta Intra-Species Hit: Count: 1 Min: 1 Max: 298 Len: 298 Subject: tfor_TF1195_TF1196|hypothetical protein:acetyl-coenzyme A synthetase|POSITIVE:POSITIVE|[1278906,1279203]|298 HSP 1 e-value: 1.0E-168 bit: 591.0 Len: 298 Query Start:1 Query End:298 Subject Strand: POSITIVE Subject Start: 1 Subject End: 298 cttccgtcatagcatatacagacaacaaatgaccaacggaggtgaagttgatttctgtttttgcaaaaaatctttatcacaaaattcggaatgaatcaatttccattatcggggaaacccgaaaggaaaaattaaacagatttgcctatcgggaaaaccccgaaaggtaaaatcaaacggatttacccgtcgggaaaagcccgaaaggcaaaatcaaacggattgggccatcgggaaaaccccgaatatggaattgaaataaaggtataggtcaggagaggtaacacgataccattta cttccgtcatagcatatacagacaacaaatgaccaacggaggtgaagttgatttctgtttttgcaaaaaatctttatcacaaaattcggaatgaatcaatttccattatcggggaaacccgaaaggaaaaattaaacagatttgcctatcgggaaaaccccgaaaggtaaaatcaaacggatttacccgtcgggaaaagcccgaaaggcaaaatcaaacggattgggccatcgggaaaaccccgaatatggaattgaaataaaggtataggtcaggagaggtaacacgataccattta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUUCCGUCAUAGCAUAUACAGACAACAAAUGACCAACGGAGGUGAAGUUGAUUUCUGUUUUUGCAAAAAAUCUUUAUCACAAAAUUCGGAAUGAAUCAAUUUCCAUUAUCGGGGAAACCCGAAAGGAAAAAUUAAACAGAUUUGCCUAUCGGGAAAACCCCGAAAGGUAAAAUCAAACGGAUUUACCCGUCGGGAAAAGCCCGAAAGGCAAAAUCAAACGGAUUGGGCCAUCGGGAAAACCCCGAAUAUGGAAUUGAAAUAAAGGUAUAGGUCAGGAGAGGUAACACGAUACCAUUUA .((((......(((...(((((((((...(.(((......))).).))))...)))))...))).....((((((((..(((((((((...(((.....(((((.((.(((((....))))))))))))...........(((((((.(((((.....(((((..((((((.((....)).))))))..))))).....))))).))))))).)))..))))))...((((((((.....)))))...)))..)))..))))))))........)))).((((......))))..... (-95.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAUGGUAUCGUGUUACCUCUCCUGACCUAUACCUUUAUUUCAAUUCCAUAUUCGGGGUUUUCCCGAUGGCCCAAUCCGUUUGAUUUUGCCUUUCGGGCUUUUCCCGACGGGUAAAUCCGUUUGAUUUUACCUUUCGGGGUUUUCCCGAUAGGCAAAUCUGUUUAAUUUUUCCUUUCGGGUUUCCCCGAUAAUGGAAAUUGAUUCAUUCCGAAUUUUGUGAUAAAGAUUUUUUGCAAAAACAGAAAUCAACUUCACCUCCGUUGGUCAUUUGUUGUCUGUAUAUGCUAUGACGGAAG ((((.(((((.(.((((.......))))).)))))))))..((((((((((..((((((....(((((.((............(((((.((((.(((((....((((((.(((((((((.....)).))))))).))))))....))))).)))))))))............))..)))))...))))))..)))).))))))....(((((..(((((..(..........)..)))))(((((...((((...(((......))).....)))))))))...........))))). (-95.85) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 384 198 151 220 174 tfor:TF2503|5end_conserved_hypothetical_protein_2678430..2678660_POSITIVE 359 289 243 126 67 tfor:TF0626|5end_hypothetical_protein_661945..662175_POSITIVE 355 250 201 215 148 tfor:TF1253|5end_hypothetical_protein_1335982..1336212_POSITIVE 355 180 139 73 19 tfor:TF1225|5end_conserved_hypothetical_protein_1311593..1311823_POSITIVE 340 236 191 41 2 tfor:TF1603|5end_RNA_polymerase_ECF-type_sigma_factor_1717176..1717406_POSITIVE 337 240 191 72 17 tfor:TF1236|5end_L-rhamnose_isomerase_1320743..1320973_POSITIVE 337 240 191 157 88 tfor:TF0748|5end_ATP-dependent_protease_La_792890..793120_POSITIVE 332 246 201 82 39 tfor:TF2797|5end_cytochrome_d_oxidase,_subunit_I_2982450..2982680_POSITIVE 329 229 188 152 104 tfor:TF1909|5end_cobalamin_(5`-phosphate)_synthase_2063207..2063437_POSITIVE 329 227 186 204 165 tfor:TF1848|5end_conserved_hypothetical_protein_1997589..1997819_POSITIVE 326 260 217 49 1 tfor:TF2015|5end_N6-adenine-specific_DNA_methylase_2171606..2171836_POSITIVE 325 208 169 191 151 tfor:TF0899|5end_hypothetical_protein_945780..946010_POSITIVE 325 229 186 112 64 tfor:TF0187|5end_ferredoxin_202151..202381_POSITIVE 323 236 201 223 183 tfor:TF1324|5end_conserved_hypothetical_protein_1403462..1403692_POSITIVE 323 220 171 228 171 tfor:TF0839|5end_aminopeptidasem_M28_family_890442..890672_POSITIVE 322 229 187 150 86 tfor:TF0523|5end_protein_protease_IV/endopeptidase_545871..546101_POSITIVE 321 50 1 185 124 tfor:TF0284|5end_alanine_racemase_311988..312218_POSITIVE 316 228 187 147 105 tfor:TF1182|5end_hypothetical_protein_1268565..1268795_POSITIVE 315 200 152 214 155 tfor:TF2886|5end_RNA_methylase_SpoU_family_3075651..3075881_POSITIVE 312 226 181 148 111 tfor:TF2528|5end_anti-sigma_factor_2708961..2709191_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 412 246 201 120 69 tfor:TF0419|3end_conserved_hypothetical_protein_435794..435944_POSITIVE 355 180 139 57 3 tfor:TF1224|3end_hypothetical_protein_1311657..1311807_POSITIVE 337 240 191 97 28 tfor:TF0746|3end_possible_DNA_polymerase_III_792910..793060_POSITIVE 332 246 201 52 9 tfor:TF2796|3end_cytochrome_D_ubiquinol_oxidase,_subunit_II_2982500..2982650_POSITIVE 325 208 169 61 21 tfor:TF0898|3end_hypothetical_protein_945730..945880_POSITIVE 325 289 245 46 1 tfor:TF0625|3end_hypothetical_protein_661945..662095_POSITIVE 322 229 187 128 64 tfor:TF0520|3end_tetraacyldisaccharide_4'-kinase_545929..546079_POSITIVE 316 228 187 147 105 tfor:TF1186|3end_hypothetical_protein_1269815..1269965_POSITIVE 312 226 181 114 77 tfor:TF2526|3end_outer_membrane_protein,_TonB_dependent_receptor_2709007..2709157_POSITIVE 310 229 184 104 64 tfor:TF0027|3end_conserved_hypothetical_protein_24199..24349_POSITIVE 307 236 206 48 9 tfor:TF1476|3end_outer_membrane_protein_P49_1571203..1571353_POSITIVE 306 289 243 57 4 tfor:TF1210|3end_conserved_hypothetical_protein_1298651..1298801_POSITIVE 304 223 186 105 63 tfor:TF1683|3end_conserved_hypothetical_protein_1796511..1796661_POSITIVE 301 229 186 73 34 tfor:TF1173|3end_ABC_transporter,_permease_component_1256651..1256801_POSITIVE 300 240 191 62 10 tfor:TF0856|3end_conserved_hypothetical_protein_908930..909080_POSITIVE 293 244 205 65 25 tfor:TF2895|3end_hypothetical_protein_3084192..3084342_POSITIVE 292 243 201 68 28 tfor:TF0537|3end_conserved_hypothetical_protein_566836..566986_POSITIVE 291 167 121 117 76 tfor:TF0504|3end_Fe-S_oxidoreductase,_family_2_530303..530453_POSITIVE 287 229 181 59 19 tfor:TF1461|3end_DNA-damage-inducible_protein_F_1552253..1552403_POSITIVE 287 160 111 51 10 tfor:TF1399|3end_conserved_hypothetical_protein;_possible_membrane_protein_1475062..1475212_POSITIVE