Origin IGS: cgtttttcagtctatttcgattctatttcttttctgttagacgcaactcttttctttttgttacaagatagcgttcgttttcttctgttctaaacctcatacatgctgcacaaggcacattcttcaagctgtttttcaatatttatcccctcgcttcccatactgttatggactgcacctactcgcaggaacacctcggttctacgacgttgtttccttttagtcagaccggttcaatcaatggatgttgatttggtatcacccttttaatctgccggaaaaacgggaacaatatacgaatgttttttcatgcaaaggtaagatggcataaaattttatcccgccgatttgtttttctggttatcggaaacaaaaaacagaagcgagaaagagtctgcaccgtctctca .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgagagacggtgcagactctttctcgcttctgttttttgtttccgataaccagaaaaacaaatcggcgggataaaattttatgccatcttacctttgcatgaaaaaacattcgtatattgttcccgtttttccggcagattaaaagggtgataccaaatcaacatccattgattgaaccggtctgactaaaaggaaacaacgtcgtagaaccgaggtgttcctgcgagtaggtgcagtccataacagtatgggaagcgaggggataaatattgaaaaacagcttgaagaatgtgccttgtgcagcatgtatgaggtttagaacagaagaaaacgaacgctatcttgtaacaaaaagaaaagagttgcgtctaacagaaaagaaatagaatcgaaatagactgaaaaacg Mask Tandem Repeat Region ================================================ cgtttttcagtctatttcgattctatttcttttctgttagacgcaactcttttctttttgttacaagatagcgttcgttttcttctgttctaaacctcatacatgctgcacaaggcacattcttcaagctgtttttcaatatttatcccctcgcttcccatactgttatggactgcacctactcgcaggaacacctcggttctacgacgttgtttccttttagtcagaccggttcaatcaatggatgttgatttggtatcacccttttaatctgccggaaaaacgggaacaatatacgaatgttttttcatgcaaaggtaagatggcataaaattttatcccgccgatttgtttttctggttatcggaaacaaaaaacagaagcgagaaagagtctgcaccgtctctca Find is-nt database================================================ Query_seq: TF1481:TF1482|TF1481:TF1482:ABC transporter, ATP-binding protein:alpha-amylase:->->:1575592..1576000 409 cgtttttcagtctatttcgattctatttcttttctgttagacgcaactcttttctttttgttacaagatagcgttcgttttcttctgttctaaacctcatacatgctgcacaaggcacattcttcaagctgtttttcaatatttatcccctcgcttcccatactgttatggactgcacctactcgcaggaacacctcggttctacgacgttgtttccttttagtcagaccggttcaatcaatggatgttgatttggtatcacccttttaatctgccggaaaaacgggaacaatatacgaatgttttttcatgcaaaggtaagatggcataaaattttatcccgccgatttgtttttctggttatcggaaacaaaaaacagaagcgagaaagagtctgcaccgtctctca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1481:TF1482|TF1481:TF1482:ABC transporter, ATP-binding protein:alpha-amylase:->->:1575592..1576000 409 cgtttttcagtctatttcgattctatttcttttctgttagacgcaactcttttctttttgttacaagatagcgttcgttttcttctgttctaaacctcatacatgctgcacaaggcacattcttcaagctgtttttcaatatttatcccctcgcttcccatactgttatggactgcacctactcgcaggaacacctcggttctacgacgttgtttccttttagtcagaccggttcaatcaatggatgttgatttggtatcacccttttaatctgccggaaaaacgggaacaatatacgaatgttttttcatgcaaaggtaagatggcataaaattttatcccgccgatttgtttttctggttatcggaaacaaaaaacagaagcgagaaagagtctgcaccgtctctca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1481:TF1482|TF1481:TF1482:ABC transporter, ATP-binding protein:alpha-amylase:->->:1575592..1576000 409 cgtttttcagtctatttcgattctatttcttttctgttagacgcaactcttttctttttgttacaagatagcgttcgttttcttctgttctaaacctcatacatgctgcacaaggcacattcttcaagctgtttttcaatatttatcccctcgcttcccatactgttatggactgcacctactcgcaggaacacctcggttctacgacgttgtttccttttagtcagaccggttcaatcaatggatgttgatttggtatcacccttttaatctgccggaaaaacgggaacaatatacgaatgttttttcatgcaaaggtaagatggcataaaattttatcccgccgatttgtttttctggttatcggaaacaaaaaacagaagcgagaaagagtctgcaccgtctctca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 cgtttttcagtctatttcgattctatttcttttctgttagacgcaactcttttctttttgttacaagatagcgttcgttttcttctgttctaaacctcatacatgctgcacaaggcacattcttcaagctgtttttcaatatttatcccctcgcttcccatactgttatggactgcacctactcgcaggaacacctcggttctacgacgttgtttccttttagtcagaccggttcaatcaatggatgttgatttggtatcacccttttaatctgccggaaaaacgggaacaatatacgaatgttttttcatgcaaaggtaagatggcataaaattttatcccgccgatttgtttttctggttatcggaaacaaaaaacagaagcgagaaagagtctgcaccgtctctca Predict ORF larger than 30AA ================================================ Protein_Len: 51 Strand: + Start: 68 End: 220 ................................................................... M A F V F F C S K P H T C C T R H I L Q A V F Q Y L S P R F P Y C Y G L H L L A G T P R F Y D V V S F ............................................................................................................................................................................................. Protein_Len: 50 Strand: + Start: 99 End: 248 .................................................................................................. M H A A Q G T F F K L F F N I Y P L A S H T V M D C T Y S Q E H L G S T T L F P F S Q T G S I N G C ................................................................................................................................................................. Protein_Len: 55 Strand: + Start: 103 End: 267 ...................................................................................................... M L H K A H S S S C F S I F I P S L P I L L W T A P T R R N T S V L R R C F L L V R P V Q S M D V D L V S P F .............................................................................................................................................. Protein_Len: 50 Strand: + Start: 258 End: 407 ................................................................................................................................................................................................................................................................. M T L L I C R K N G N N I R M F F H A K V R W H K I L S R R F V F L V I G N K K Q K R E R V C T V S .. Protein_Len: 30 Strand: - Start: 311 End: 400 ...................................................................................................................................................................................................................................................................................................................... A F T L H C L I K D R R N T K R T I P F L F C F R S L T Q M ......... Protein_Len: 45 Strand: - Start: 93 End: 227 ............................................................................................ V E Y M S C L A C E E L Q K E I N I G E S G M S N H V A G V R L F V E T R R R Q K R K T M ...................................................................................................................................................................................... Protein_Len: 39 Strand: - Start: 26 End: 142 ......................... K K E T L R L E K R K T V L Y R E N E E T R F R M C A A C P V N K L S N K L M ........................................................................................................................................................................................................................................................................... cgtttttcagtctatttcgattctatttcttttctgttagacgcaactcttttctttttgttacaagatagcgttcgttttcttctgttctaaacctcatacatgctgcacaaggcacattcttcaagctgtttttcaatatttatcccctcgcttcccatactgttatggactgcacctactcgcaggaacacctcggttctacgacgttgtttccttttagtcagaccggttcaatcaatggatgttgatttggtatcacccttttaatctgccggaaaaacgggaacaatatacgaatgttttttcatgcaaaggtaagatggcataaaattttatcccgccgatttgtttttctggttatcggaaacaaaaaacagaagcgagaaagagtctgcaccgtctctca 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================================================ cgtttttcagtctatttcgattctatttcttttctgttagacgcaactcttttctttttgttacaagatagcgttcgttttcttctgttctaaacctcatacatgctgcacaaggcacattcttcaagctgtttttcaatatttatcccctcgcttcccatactgttatggactgcacctactcgcaggaacacctcggttctacgacgttgtttccttttagtcagaccggttcaatcaatggatgttgatttggtatcacccttttaatctgccggaaaaacgggaacaatatacgaatgttttttcatgcaaaggtaagatggcataaaattttatcccgccgatttgtttttctggttatcggaaacaaaaaacagaagcgagaaagagtctgcaccgtctctca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF1481:TF1482|TF1481:TF1482:ABC transporter, ATP-binding protein:alpha-amylase:->->:1575592..1576000 409 cgtttttcagtctatttcgattctatttcttttctgttagacgcaactcttttctttttgttacaagatagcgttcgttttcttctgttctaaacctcatacatgctgcacaaggcacattcttcaagctgtttttcaatatttatcccctcgcttcccatactgttatggactgcacctactcgcaggaacacctcggttctacgacgttgtttccttttagtcagaccggttcaatcaatggatgttgatttggtatcacccttttaatctgccggaaaaacgggaacaatatacgaatgttttttcatgcaaaggtaagatggcataaaattttatcccgccgatttgtttttctggttatcggaaacaaaaaacagaagcgagaaagagtctgcaccgtctctca Intra-Species Hit: Count: 1 Min: 1 Max: 409 Len: 409 Subject: tfor_TF1481_TF1482|ABC transporter, ATP-binding protein:alpha-amylase|POSITIVE:POSITIVE|[1575592, 1576000]|409 HSP 1 e-value: 0.0 bit: 811.0 Len: 409 Query Start:1 Query End:409 Subject Strand: POSITIVE Subject Start: 1 Subject End: 409 cgtttttcagtctatttcgattctatttcttttctgttagacgcaactcttttctttttgttacaagatagcgttcgttttcttctgttctaaacctcatacatgctgcacaaggcacattcttcaagctgtttttcaatatttatcccctcgcttcccatactgttatggactgcacctactcgcaggaacacctcggttctacgacgttgtttccttttagtcagaccggttcaatcaatggatgttgatttggtatcacccttttaatctgccggaaaaacgggaacaatatacgaatgttttttcatgcaaaggtaagatggcataaaattttatcccgccgatttgtttttctggttatcggaaacaaaaaacagaagcgagaaagagtctgcaccgtctctca cgtttttcagtctatttcgattctatttcttttctgttagacgcaactcttttctttttgttacaagatagcgttcgttttcttctgttctaaacctcatacatgctgcacaaggcacattcttcaagctgtttttcaatatttatcccctcgcttcccatactgttatggactgcacctactcgcaggaacacctcggttctacgacgttgtttccttttagtcagaccggttcaatcaatggatgttgatttggtatcacccttttaatctgccggaaaaacgggaacaatatacgaatgttttttcatgcaaaggtaagatggcataaaattttatcccgccgatttgtttttctggttatcggaaacaaaaaacagaagcgagaaagagtctgcaccgtctctca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CGUUUUUCAGUCUAUUUCGAUUCUAUUUCUUUUCUGUUAGACGCAACUCUUUUCUUUUUGUUACAAGAUAGCGUUCGUUUUCUUCUGUUCUAAACCUCAUACAUGCUGCACAAGGCACAUUCUUCAAGCUGUUUUUCAAUAUUUAUCCCCUCGCUUCCCAUACUGUUAUGGACUGCACCUACUCGCAGGAACACCUCGGUUCUACGACGUUGUUUCCUUUUAGUCAGACCGGUUCAAUCAAUGGAUGUUGAUUUGGUAUCACCCUUUUAAUCUGCCGGAAAAACGGGAACAAUAUACGAAUGUUUUUUCAUGCAAAGGUAAGAUGGCAUAAAAUUUUAUCCCGCCGAUUUGUUUUUCUGGUUAUCGGAAACAAAAAACAGAAGCGAGAAAGAGUCUGCACCGUCUCUCA ........((((......)))).............(..(((((((((((((.......((((..((((((((....((((...........))))........((((......))))..........))))))))..))))........((((((((....((((...((..((((........))))...))...)))).........((((((((.....((...(((((.(((((........))))).)))))...))...........(((((((((((.((((.(((((....))))).))))..((...((((((((........))))))))..))......)))))))))))....))))))))......)))))))).)))))).)))...))))..). (-87.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAGAGACGGUGCAGACUCUUUCUCGCUUCUGUUUUUUGUUUCCGAUAACCAGAAAAACAAAUCGGCGGGAUAAAAUUUUAUGCCAUCUUACCUUUGCAUGAAAAAACAUUCGUAUAUUGUUCCCGUUUUUCCGGCAGAUUAAAAGGGUGAUACCAAAUCAACAUCCAUUGAUUGAACCGGUCUGACUAAAAGGAAACAACGUCGUAGAACCGAGGUGUUCCUGCGAGUAGGUGCAGUCCAUAACAGUAUGGGAAGCGAGGGGAUAAAUAUUGAAAAACAGCUUGAAGAAUGUGCCUUGUGCAGCAUGUAUGAGGUUUAGAACAGAAGAAAACGAACGCUAUCUUGUAACAAAAAGAAAAGAGUUGCGUCUAACAGAAAAGAAAUAGAAUCGAAAUAGACUGAAAAACG ((..(((((.....((((((((.((.(((((((((((((((((((((..............)))))..))))))).((((((((.(........).))))))))..((((((.....((((((((......((((..((((((..(((((............))))).))))))...)))).((.(((...(((((...((.(((......))).)).)))))...))).)).((..((((((....))))))..))..))))))))...((....)).........))))))((((..(((.....)))..))))...)))))))))...((((........))))........)))))))))).)))))..)).................................. (-96.44) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 454 200 151 121 57 tfor:TF2785|5end_RNA_polymerase_sigma_factor,_ECF_subfamily_(sigma-70)_2969277..2969507_POSITIVE 390 117 71 165 117 tfor:TF2504|5end_peptidyl-prolyl_cis-trans_isomerase_2680031..2680261_POSITIVE 388 200 152 121 71 tfor:TF0600|5end_oxidoreductase/dehydrogenase_630083..630313_POSITIVE 350 235 192 221 176 tfor:TF1598|5end_conserved_hypothetical_protein_1713358..1713588_POSITIVE 349 209 163 71 14 tfor:TF0414|5end_N-ethylammeline_chlorohydrolase_431789..432019_POSITIVE 347 196 152 145 101 tfor:TF2647|5end_transcriptional_regulator,_possible_arylsulfatase_regulator_2816796..2817026_POSITIVE 343 189 146 120 67 tfor:TF0538|5end_hypothetical_protein_566891..567121_POSITIVE 343 189 146 113 60 tfor:TF0539|5end_hypothetical_protein_566884..567114_POSITIVE 338 250 201 231 184 tfor:TF2473|5end_poly(A)_polymerase/tRNA_nucleotidyltransferase_2650470..2650700_POSITIVE 334 199 151 71 22 tfor:TF2793|5end_possible_L-lysine_2,3-aminomutase_2977661..2977891_POSITIVE 332 189 148 83 39 tfor:TF1710|5end_possible_cell_filamentation_protein_1829679..1829909_POSITIVE 329 230 184 89 40 tfor:TF2375|5end_conserved_hypothetical_protein_2540953..2541183_POSITIVE 325 222 181 166 123 tfor:TF0159|5end_conserved_hypothetical_protein_169756..169986_POSITIVE 322 220 173 213 159 tfor:TF2683|5end_translation_initiation_factor_IF-2_2857722..2857952_POSITIVE 321 200 151 79 21 tfor:TF2215|5end_conserved_hypothetical_protein_2387501..2387731_POSITIVE 321 200 152 227 176 tfor:TF1300|5end_conserved_hypothetical_protein_1382389..1382619_POSITIVE 320 196 151 136 88 tfor:TF2385|5end_conserved_hypothetical_protein;_possible_MazG_family_protein_2550676..2550906_POSITIVE 320 286 241 202 143 tfor:TF0077|5end_hypothetical_protein_84241..84471_POSITIVE 316 200 151 61 21 tfor:TF1873|5end_possible_hemolysin_secretion_protein_2026745..2026975_POSITIVE 316 200 151 61 21 tfor:TF1131|5end_membrane-fusion_protein;_possible_hemolysin_secretion_protein_1207611..1207841_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 388 200 152 88 38 tfor:TF0599|3end_hypothetical_protein_630130..630280_POSITIVE 358 200 151 61 1 tfor:TF2783|3end_aminotransferase,_PatB_family_2969297..2969447_POSITIVE 349 209 163 71 14 tfor:TF0413|3end_succinyl-diaminopimelate_desuccinylase_431869..432019_POSITIVE 338 250 201 149 102 tfor:TF2472|3end_GAF_domain-containing_protein_2650468..2650618_POSITIVE 327 176 135 68 11 tfor:TF2744|3end_methionyl-tRNA_formyltransferase_2927378..2927528_POSITIVE 325 222 181 130 87 tfor:TF0158|3end_CRISPR-associated_helicase_Cas3_169800..169950_POSITIVE 324 288 245 37 2 tfor:TF0178|3end_ferritin_188223..188373_POSITIVE 321 200 151 62 4 tfor:TF2214|3end_peptidyl-prolyl_cis-trans_isomerase_2387564..2387714_POSITIVE 320 196 151 136 88 tfor:TF2384|3end_thiol:disulfide_interchange_protein_2550756..2550906_POSITIVE 319 210 168 143 98 tfor:TF0027|3end_conserved_hypothetical_protein_24199..24349_POSITIVE 316 200 151 47 7 tfor:TF1872|3end_ABC_transporter,_ATP-binding/permease_component_2026811..2026961_POSITIVE 316 200 151 47 7 tfor:TF1130|3end_ABC_transporter_ATP-binding_protein/permease_component_1207677..1207827_POSITIVE 313 228 182 121 76 tfor:TF2607|3end_conserved_hypothetical_protein_2784645..2784795_POSITIVE 305 250 205 145 98 tfor:TF2515|3end_outer_membrane_protein,_TonB_dependent_receptor_2694865..2695015_POSITIVE 302 186 147 57 12 tfor:TF2516|3end_RNA_polymerase_sigma-70_factor,_ECF_subfamily_2692879..2693029_POSITIVE 302 159 113 51 5 tfor:TF2366|3end_conserved_hypothetical_protein_2531892..2532042_POSITIVE 300 125 81 122 83 tfor:TF2660|3end_hypothetical_protein_2833540..2833690_POSITIVE 294 231 194 45 5 tfor:TF1792|3end_acid_phosphatase_1933319..1933469_POSITIVE 294 218 175 148 110 tfor:TF0389|3end_conserved_hypothetical_protein;_possible_integral_membrane_protein_409336..409486_POSITIVE 293 367 324 130 78 tfor:TF0567|3end_conserved_hypothetical_protein;_possible_periplasmic_solute-binding_protein_600134..600284_POSITIVE