Origin IGS: tgacaaacattttcttctttctatccgtatatcaattgaaaacacgacattattgcatctattcgcaattatttcgatataaaccggtcttttgtagcgcaagaatggctcaggaagccgataaaataagaaaagtcattgcttgtcgtggatttcaggcctggctttcaggcgttaagtaatattaaatccattccttctcaaaaatattgcattatctttgcatgcgaattgaggtaaaagaccggtcttagcgaaggcagtctttttttctcactcctgaaactcagggggtcgaagaatatagaagaaataagcgtttcttttgggctgaatttgcagacaggcagggcgagtattcccgatatgcttcttcgatgttttttttcaccataaatataaagt .........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 actttatatttatggtgaaaaaaaacatcgaagaagcatatcgggaatactcgccctgcctgtctgcaaattcagcccaaaagaaacgcttatttcttctatattcttcgaccccctgagtttcaggagtgagaaaaaaagactgccttcgctaagaccggtcttttacctcaattcgcatgcaaagataatgcaatatttttgagaaggaatggatttaatattacttaacgcctgaaagccaggcctgaaatccacgacaagcaatgacttttcttattttatcggcttcctgagccattcttgcgctacaaaagaccggtttatatcgaaataattgcgaatagatgcaataatgtcgtgttttcaattgatatacggatagaaagaagaaaatgtttgtca Mask Tandem Repeat Region ================================================ tgacaaacattttcttctttctatccgtatatcaattgaaaacacgacattattgcatctattcgcaattatttcgatataaaccggtcttttgtagcgcaagaatggctcaggaagccgataaaataagaaaagtcattgcttgtcgtggatttcaggcctggctttcaggcgttaagtaatattaaatccattccttctcaaaaatattgcattatctttgcatgcgaattgaggtaaaagaccggtcttagcgaaggcagtctttttttctcactcctgaaactcagggggtcgaagaatatagaagaaataagcgtttcttttgggctgaatttgcagacaggcagggcgagtattcccgatatgcttcttcgatgttttttttcaccataaatataaagt Find is-nt database================================================ Query_seq: TF1044:TF1045|TF1044:TF1045:Mg(2)+ transport-related protein, MgtC family:conserved hypothetical protein:->->:1107400..1107804 405 tgacaaacattttcttctttctatccgtatatcaattgaaaacacgacattattgcatctattcgcaattatttcgatataaaccggtcttttgtagcgcaagaatggctcaggaagccgataaaataagaaaagtcattgcttgtcgtggatttcaggcctggctttcaggcgttaagtaatattaaatccattccttctcaaaaatattgcattatctttgcatgcgaattgaggtaaaagaccggtcttagcgaaggcagtctttttttctcactcctgaaactcagggggtcgaagaatatagaagaaataagcgtttcttttgggctgaatttgcagacaggcagggcgagtattcccgatatgcttcttcgatgttttttttcaccataaatataaagt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1044:TF1045|TF1044:TF1045:Mg(2)+ transport-related protein, MgtC family:conserved hypothetical protein:->->:1107400..1107804 405 tgacaaacattttcttctttctatccgtatatcaattgaaaacacgacattattgcatctattcgcaattatttcgatataaaccggtcttttgtagcgcaagaatggctcaggaagccgataaaataagaaaagtcattgcttgtcgtggatttcaggcctggctttcaggcgttaagtaatattaaatccattccttctcaaaaatattgcattatctttgcatgcgaattgaggtaaaagaccggtcttagcgaaggcagtctttttttctcactcctgaaactcagggggtcgaagaatatagaagaaataagcgtttcttttgggctgaatttgcagacaggcagggcgagtattcccgatatgcttcttcgatgttttttttcaccataaatataaagt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1044:TF1045|TF1044:TF1045:Mg(2)+ transport-related protein, MgtC family:conserved hypothetical protein:->->:1107400..1107804 405 tgacaaacattttcttctttctatccgtatatcaattgaaaacacgacattattgcatctattcgcaattatttcgatataaaccggtcttttgtagcgcaagaatggctcaggaagccgataaaataagaaaagtcattgcttgtcgtggatttcaggcctggctttcaggcgttaagtaatattaaatccattccttctcaaaaatattgcattatctttgcatgcgaattgaggtaaaagaccggtcttagcgaaggcagtctttttttctcactcctgaaactcagggggtcgaagaatatagaagaaataagcgtttcttttgggctgaatttgcagacaggcagggcgagtattcccgatatgcttcttcgatgttttttttcaccataaatataaagt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgacaaacattttcttctttctatccgtatatcaattgaaaacacgacattattgcatctattcgcaattatttcgatataaaccggtcttttgtagcgcaagaatggctcaggaagccgataaaataagaaaagtcattgcttgtcgtggatttcaggcctggctttcaggcgttaagtaatattaaatccattccttctcaaaaatattgcattatctttgcatgcgaattgaggtaaaagaccggtcttagcgaaggcagtctttttttctcactcctgaaactcagggggtcgaagaatatagaagaaataagcgtttcttttgggctgaatttgcagacaggcagggcgagtattcccgatatgcttcttcgatgttttttttcaccataaatataaagt Predict ORF larger than 30AA ================================================ Protein_Len: 57 Strand: + Start: 9 End: 179 ........ M F F F L S V Y Q L K T R H Y C I Y S Q L F R Y K P V F C S A R M A Q E A D K I R K V I A C R G F Q A W L S G V K .................................................................................................................................................................................................................................. Protein_Len: 33 Strand: + Start: 139 End: 237 .......................................................................................................................................... M L V V D F R P G F Q A L S N I K S I P S Q K Y C I I F A C E L R ........................................................................................................................................................................ Protein_Len: 38 Strand: + Start: 280 End: 393 ....................................................................................................................................................................................................................................................................................... M K L R G S K N I E E I S V S F G L N L Q T G R A S I P D M L L R C F F S P ............ Protein_Len: 37 Strand: - Start: 290 End: 400 ................................................................................................................................................................................................................................................................................................. P T S S Y L L F L R K K Q A S N A S L C P S Y E R Y A E E I N K K V M F M ..... Protein_Len: 30 Strand: - Start: 277 End: 366 .................................................................................................................................................................................................................................................................................... E Q F E P P R L I Y F F Y A N R K P Q I Q L C A P R T N G M ....................................... Protein_Len: 60 Strand: - Start: 204 End: 398 ........................................................................................................................................................................................................... K A H S N L Y F V P R L S P L R K K E S R F S L P D F F I S S I L T E K P S F K C V P L A L I G S I S R R H K K E G Y M ....... Protein_Len: 34 Strand: - Start: 1 End: 102 S L C K R R E I R I D I S F V V N N C R N A I I E I Y V P R K Y R M ............................................................................................................................................................................................................................................................................................................... tgacaaacattttcttctttctatccgtatatcaattgaaaacacgacattattgcatctattcgcaattatttcgatataaaccggtcttttgtagcgcaagaatggctcaggaagccgataaaataagaaaagtcattgcttgtcgtggatttcaggcctggctttcaggcgttaagtaatattaaatccattccttctcaaaaatattgcattatctttgcatgcgaattgaggtaaaagaccggtcttagcgaaggcagtctttttttctcactcctgaaactcagggggtcgaagaatatagaagaaataagcgtttcttttgggctgaatttgcagacaggcagggcgagtattcccgatatgcttcttcgatgttttttttcaccataaatataaagt 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================================================ tgacaaacattttcttctttctatccgtatatcaattgaaaacacgacattattgcatctattcgcaattatttcgatataaaccggtcttttgtagcgcaagaatggctcaggaagccgataaaataagaaaagtcattgcttgtcgtggatttcaggcctggctttcaggcgttaagtaatattaaatccattccttctcaaaaatattgcattatctttgcatgcgaattgaggtaaaagaccggtcttagcgaaggcagtctttttttctcactcctgaaactcagggggtcgaagaatatagaagaaataagcgtttcttttgggctgaatttgcagacaggcagggcgagtattcccgatatgcttcttcgatgttttttttcaccataaatataaagt Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 49 HP_score: -2.3 Tail_Score: -3.75051 Start: 45 End: 76 Full_Region: aagaccggtttatat cgaaataattgcg aataga tgcaataatgtcg tgttttcaattgata ............................................cgaaataattgcgaatagatgcaataatgtcg......................................................................................................................................................................................................................................................................................................................................... Find igs database================================================ Query_seq: TF1044:TF1045|TF1044:TF1045:Mg(2)+ transport-related protein, MgtC family:conserved hypothetical protein:->->:1107400..1107804 405 tgacaaacattttcttctttctatccgtatatcaattgaaaacacgacattattgcatctattcgcaattatttcgatataaaccggtcttttgtagcgcaagaatggctcaggaagccgataaaataagaaaagtcattgcttgtcgtggatttcaggcctggctttcaggcgttaagtaatattaaatccattccttctcaaaaatattgcattatctttgcatgcgaattgaggtaaaagaccggtcttagcgaaggcagtctttttttctcactcctgaaactcagggggtcgaagaatatagaagaaataagcgtttcttttgggctgaatttgcagacaggcagggcgagtattcccgatatgcttcttcgatgttttttttcaccataaatataaagt Intra-Species Hit: Count: 1 Min: 1 Max: 405 Len: 405 Subject: tfor_TF1044_TF1045|Mg(2)+ transport-related protein, MgtC family:conserved hypothetical protein|POSITIVE:POSITIVE|[1107400,1107804]|405 HSP 1 e-value: 0.0 bit: 714.0 Len: 405 Query Start:1 Query End:405 Subject Strand: POSITIVE Subject Start: 1 Subject End: 405 tgacaaacattttcttctttctatccgtatatcaattgaaaacacgacattattgcatctattcgcaattatttcgatataaaccggtcttttgtagcgcaagaatggctcaggaagccgataaaataagaaaagtcattgcttgtcgtggatttcaggcctggctttcaggcgttaagtaatattaaatccattccttctcaaaaatattgcattatctttgcatgcgaattgaggtaaaagaccggtcttagcgaaggcagtcnnnnnnnctcactcctgaaactcagggggtcgaagaatatagaagaaataagcgtttcttttgggctgaatttgcagacaggcagggcgagtattcccgatatgcttcttcgatgnnnnnnnncaccataaatataaagt tgacaaacattttcttctttctatccgtatatcaattgaaaacacgacattattgcatctattcgcaattatttcgatataaaccggtcttttgtagcgcaagaatggctcaggaagccgataaaataagaaaagtcattgcttgtcgtggatttcaggcctggctttcaggcgttaagtaatattaaatccattccttctcaaaaatattgcattatctttgcatgcgaattgaggtaaaagaccggtcttagcgaaggcagtctttttttctcactcctgaaactcagggggtcgaagaatatagaagaaataagcgtttcttttgggctgaatttgcagacaggcagggcgagtattcccgatatgcttcttcgatgttttttttcaccataaatataaagt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGACAAACAUUUUCUUCUUUCUAUCCGUAUAUCAAUUGAAAACACGACAUUAUUGCAUCUAUUCGCAAUUAUUUCGAUAUAAACCGGUCUUUUGUAGCGCAAGAAUGGCUCAGGAAGCCGAUAAAAUAAGAAAAGUCAUUGCUUGUCGUGGAUUUCAGGCCUGGCUUUCAGGCGUUAAGUAAUAUUAAAUCCAUUCCUUCUCAAAAAUAUUGCAUUAUCUUUGCAUGCGAAUUGAGGUAAAAGACCGGUCUUAGCGAAGGCAGUCUUUUUUUCUCACUCCUGAAACUCAGGGGGUCGAAGAAUAUAGAAGAAAUAAGCGUUUCUUUUGGGCUGAAUUUGCAGACAGGCAGGGCGAGUAUUCCCGAUAUGCUUCUUCGAUGUUUUUUUUCACCAUAAAUAUAAAGU ................((((.(((...(((.......(((((((((((((.((((....(((((((.....((((.........(((..(((((.(((.((....))))))))))..))).........)))).....(((((((((.(((((((...(((((.....)))))....(....)...))))))).....((((((......((((.......))))......))))))...((((....)))).(((((..(((((..((((((...((((((.....))))))...))))))..((((((((((....)))))))))))))))..))))).))))))))).)))))))....))))))).....))).))))))).......))).))).)))). (-100.51) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACUUUAUAUUUAUGGUGAAAAAAAACAUCGAAGAAGCAUAUCGGGAAUACUCGCCCUGCCUGUCUGCAAAUUCAGCCCAAAAGAAACGCUUAUUUCUUCUAUAUUCUUCGACCCCCUGAGUUUCAGGAGUGAGAAAAAAAGACUGCCUUCGCUAAGACCGGUCUUUUACCUCAAUUCGCAUGCAAAGAUAAUGCAAUAUUUUUGAGAAGGAAUGGAUUUAAUAUUACUUAACGCCUGAAAGCCAGGCCUGAAAUCCACGACAAGCAAUGACUUUUCUUAUUUUAUCGGCUUCCUGAGCCAUUCUUGCGCUACAAAAGACCGGUUUAUAUCGAAAUAAUUGCGAAUAGAUGCAAUAAUGUCGUGUUUUCAAUUGAUAUACGGAUAGAAAGAAGAAAAUGUUUGUCA .((((.........(((((........((((((((..(((..(((((((..((..((....(.(((......))).)....))...))..)))))))..))).))))))))...((((.....))))..((((...(((((((((...((.....)).)))))))))..)))).)))))...((((((((......)))))))).))))...(((((((..((.....))..(((((.....)))))...))))))).((((((((.(...(((((((.....((((((((..(((((((....)).))).)).))).)))))...((((......((((((......)))))).....(((((..((....)).)))))))))..))))))).).)))))))). (-92.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 401 120 74 199 141 tfor:TF1061|5end_glycosyltransferase_1130264..1130494_POSITIVE 373 370 321 61 5 tfor:TF2032|5end_outer_membrane_protein,_TonB_dependent_receptor_2188269..2188499_POSITIVE 369 358 312 73 26 tfor:TF0844|5end_transposase,_IS3_family_895204..895434_POSITIVE 358 390 341 211 154 tfor:TF1594|5end_hypothetical_protein_1709903..1710133_POSITIVE 355 120 71 202 151 tfor:TF2812|5end_hypothetical_protein_3002726..3002956_POSITIVE 353 126 82 74 35 tfor:TF0778|5end_outer_membrane_protein,_TonB_dependent_receptor_827284..827514_POSITIVE 351 369 323 209 156 tfor:TF3077|5end_tonB-dependent_receptor_HmuY_3305033..3305263_POSITIVE 346 353 316 188 148 tfor:TF1183|5end_hypothetical_protein_1268391..1268621_POSITIVE 346 270 221 179 120 tfor:TF0088|5end_ABC_transporter,_permease_component_94299..94529_POSITIVE 343 150 102 201 151 tfor:TF0089|5end_conserved_hypothetical_protein_95437..95667_POSITIVE 340 366 322 85 49 tfor:TF0191|5end_conserved_hypothetical_protein,_possible_Iojap-related_protein_206053..206283_POSITIVE 338 380 344 71 39 tfor:TF1465|5end_modulator_of_DNA_gyrase_1554148..1554378_POSITIVE 337 255 212 119 58 tfor:TF2602|5end_tRNA-(5-methylaminomethyl-2-thiouridylate)_methyltransferase_2775086..2775316_POSITIVE 335 370 330 109 61 tfor:TF1274|5end_hypothetical_protein_1357621..1357851_POSITIVE 330 359 316 225 185 tfor:TF0444|5end_Na+-translocating_NADH-quinone_oxidoreductase,_subunit_5_465869..466099_POSITIVE 329 109 65 183 148 tfor:TF0152|5end_RNA_polymerase_ECF-type_sigma_factor_162021..162251_POSITIVE 328 383 344 219 177 tfor:TF0389|5end_conserved_hypothetical_protein;_possible_integral_membrane_protein_408774..409004_POSITIVE 327 353 316 189 148 tfor:TF2824|5end_nucleoside-transporting_protein_nupG_3014701..3014931_POSITIVE 327 120 73 129 80 tfor:TF0962|5end_possible_amidohydrolase_1011593..1011823_POSITIVE 326 353 316 115 75 tfor:TF2191|5end_hypothetical_protein_2365934..2366164_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 373 370 321 58 2 tfor:TF2031|3end_conserved_hypothetical_protein_2188346..2188496_POSITIVE 371 265 225 53 19 tfor:TF3113|3end_hypothetical_protein_3349706..3349856_POSITIVE 345 355 317 119 67 tfor:TF1167|3end_hypothetical_protein_1248932..1249082_POSITIVE 342 365 323 48 2 tfor:TF0283|3end_possible_nicotinamide_mononucleotide_transporter_312074..312224_POSITIVE 340 366 322 58 22 tfor:TF0190|3end_cell_division_protein_FtsH_206106..206256_POSITIVE 337 255 212 92 31 tfor:TF2601|3end_conserved_hypothetical_protein_2775139..2775289_POSITIVE 335 355 317 119 66 tfor:TF2640|3end_hypothetical_protein_2809533..2809683_POSITIVE 334 366 321 147 99 tfor:TF2578|3end_30S_ribosomal_protein_S11_2747164..2747314_POSITIVE 331 294 254 139 106 tfor:TF2816|3end_hypothetical_protein_3007184..3007334_POSITIVE 331 380 331 93 42 tfor:TF0616|3end_conserved_hypothetical_protein_650658..650808_POSITIVE 327 120 73 129 80 tfor:TF0961|3end_translation_initiation_inhibitor,_endoribonuclease_activity_1011673..1011823_POSITIVE 326 353 316 107 67 tfor:TF1185|3end_hypothetical_protein_1269563..1269713_POSITIVE 326 353 316 60 20 tfor:TF0820|3end_hypothetical_protein_879942..880092_POSITIVE 325 109 62 147 92 tfor:TF2850|3end_endoribonuclease_L-PSP_3038871..3039021_POSITIVE 324 300 253 69 17 tfor:TF0538|3end_hypothetical_protein_567135..567285_POSITIVE 320 355 313 63 29 tfor:TF1197|3end_transcriptional_regulator_1281414..1281564_POSITIVE 318 364 325 147 112 tfor:TF1784|3end_conserved_hypothetical_protein;_possible_formiminotransferase-cyclodeaminase_1924556..1924706_POSITIVE 316 369 324 144 85 tfor:TF0825|3end_hypothetical_protein_883850..884000_POSITIVE 316 370 326 63 14 tfor:TF0380|3end_conserved_hypothetical_protein_401633..401783_POSITIVE 315 380 331 56 8 tfor:TF2847|3end_hypothetical_protein_3034985..3035135_POSITIVE