Origin IGS: tagtgtgacttagggagacggatgactacaggctattcgtattccatttcctcgaagggattgatgtatgagtgccgagaagtatgttcccgagagagtttagctgtatttttatttcaacgaggaattgccctgtagaagtcttgaaattttgttggcgaagaaaataaaatttacttcgccaacaaaatattttttcttcgcgaagaaaatttcggtcattcagcatcggagataaaagattgtccctgaaggtatctggccggtttgtgacaaaggagtaaagccttcgcag .........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 ctgcgaaggctttactcctttgtcacaaaccggccagataccttcagggacaatcttttatctccgatgctgaatgaccgaaattttcttcgcgaagaaaaaatattttgttggcgaagtaaattttattttcttcgccaacaaaatttcaagacttctacagggcaattcctcgttgaaataaaaatacagctaaactctctcgggaacatacttctcggcactcatacatcaatcccttcgaggaaatggaatacgaatagcctgtagtcatccgtctccctaagtcacacta Mask Tandem Repeat Region ================================================ tagtgtgacttagggagacggatgactacaggctattcgtattccatttcctcgaagggattgatgtatgagtgccgagaagtatgttcccgagagagtttagctgtatttttatttcaacgaggaattgccctgtagaagtcttgaaattttgttggcgaagaaaataaaatttacttcgccaacaaaatattttttcttcgcgaagaaaatttcggtcattcagcatcggagataaaagattgtccctgaaggtatctggccggtttgtgacaaaggagtaaagccttcgcag Find is-nt database================================================ Query_seq: TF0258:TF0259|TF0258:TF0259:hypothetical protein:conserved hypothetical protein:->->:289595..289889 295 tagtgtgacttagggagacggatgactacaggctattcgtattccatttcctcgaagggattgatgtatgagtgccgagaagtatgttcccgagagagtttagctgtatttttatttcaacgaggaattgccctgtagaagtcttgaaattttgttggcgaagaaaataaaatttacttcgccaacaaaatattttttcttcgcgaagaaaatttcggtcattcagcatcggagataaaagattgtccctgaaggtatctggccggtttgtgacaaaggagtaaagccttcgcag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0258:TF0259|TF0258:TF0259:hypothetical protein:conserved hypothetical protein:->->:289595..289889 295 tagtgtgacttagggagacggatgactacaggctattcgtattccatttcctcgaagggattgatgtatgagtgccgagaagtatgttcccgagagagtttagctgtatttttatttcaacgaggaattgccctgtagaagtcttgaaattttgttggcgaagaaaataaaatttacttcgccaacaaaatattttttcttcgcgaagaaaatttcggtcattcagcatcggagataaaagattgtccctgaaggtatctggccggtttgtgacaaaggagtaaagccttcgcag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0258:TF0259|TF0258:TF0259:hypothetical protein:conserved hypothetical protein:->->:289595..289889 295 tagtgtgacttagggagacggatgactacaggctattcgtattccatttcctcgaagggattgatgtatgagtgccgagaagtatgttcccgagagagtttagctgtatttttatttcaacgaggaattgccctgtagaagtcttgaaattttgttggcgaagaaaataaaatttacttcgccaacaaaatattttttcttcgcgaagaaaatttcggtcattcagcatcggagataaaagattgtccctgaaggtatctggccggtttgtgacaaaggagtaaagccttcgcag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tagtgtgacttagggagacggatgactacaggctattcgtattccatttcctcgaagggattgatgtatgagtgccgagaagtatgttcccgagagagtttagctgtatttttatttcaacgaggaattgccctgtagaagtcttgaaattttgttggcgaagaaaataaaatttacttcgccaacaaaatattttttcttcgcgaagaaaatttcggtcattcagcatcggagataaaagattgtccctgaaggtatctggccggtttgtgacaaaggagtaaagccttcgcag Predict ORF larger than 30AA ================================================ Protein_Len: 38 Strand: + Start: 22 End: 135 ..................... M T T G Y S Y S I S S K G L M Y E C R E V C S R E S L A V F L F Q R G I A L ................................................................................................................................................................ Protein_Len: 32 Strand: + Start: 72 End: 167 ....................................................................... M P R S M F P R E F S C I F I S T R N C P V E V L K F C W R R K ................................................................................................................................ Protein_Len: 44 Strand: + Start: 104 End: 235 ....................................................................................................... M Y F Y F N E E L P C R S L E I L L A K K I K F T S P T K Y F F F A K K I S V I Q H R R ............................................................ Protein_Len: 30 Strand: + Start: 192 End: 281 ............................................................................................................................................................................................... M F S S R R K F R S F S I G D K R L S L K V S G R F V T K E .............. Protein_Len: 36 Strand: - Start: 115 End: 222 .................................................................................................................. K L S S N G Q L L R S I K N A F F I F N V E G V F Y K K K A F F I E T M ......................................................................... Protein_Len: 60 Strand: - Start: 29 End: 295 ............................ E V L F Q G T S T K F N Q Q R L F Y F K S R W C F I K E E R L F N R D N L M P S L L N D R F T D P R N T V F S Y L R R M tagtgtgacttagggagacggatgactacaggctattcgtattccatttcctcgaagggattgatgtatgagtgccgagaagtatgttcccgagagagtttagctgtatttttatttcaacgaggaattgccctgtagaagtcttgaaattttgttggcgaagaaaataaaatttacttcgccaacaaaatattttttcttcgcgaagaaaatttcggtcattcagcatcggagataaaagattgtccctgaaggtatctggccggtttgtgacaaaggagtaaagccttcgcag 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================================================ tagtgtgacttagggagacggatgactacaggctattcgtattccatttcctcgaagggattgatgtatgagtgccgagaagtatgttcccgagagagtttagctgtatttttatttcaacgaggaattgccctgtagaagtcttgaaattttgttggcgaagaaaataaaatttacttcgccaacaaaatattttttcttcgcgaagaaaatttcggtcattcagcatcggagataaaagattgtccctgaaggtatctggccggtttgtgacaaaggagtaaagccttcgcag Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 100 HP_score: -17.5 Tail_Score: -5.4505 Start: 148 End: 192 Full_Region: CTGTAGAAGTCTTGA AATTTTGTTGGCGAAGAAAAT AAA ATTTACTTCGCCAACAAAATA TTTTTTCTTCGCGAA ...................................................................................................................................................AATTTTGTTGGCGAAGAAAATAAAATTTACTTCGCCAACAAAATA....................................................................................................... TransTerm Strand: + Conf: 100 HP_score: -20.1 Tail_Score: -4.36592 Start: 150 End: 190 Full_Region: GTAGAAGTCTTGAAA TTTTGTTGGCGAAGAAAAT AAA ATTTACTTCGCCAACAAAA TATTTTTTCTTCGCG .....................................................................................................................................................TTTTGTTGGCGAAGAAAATAAAATTTACTTCGCCAACAAAA......................................................................................................... TransTerm Strand: - Conf: 100 HP_score: -20.1 Tail_Score: -3.58533 Start: 150 End: 190 Full_Region: cgcgaagaaaaaata ttttgttggcgaagtaaat ttt attttcttcgccaacaaaa tttcaagacttctac .....................................................................................................................................................ttttgttggcgaagtaaattttattttcttcgccaacaaaa......................................................................................................... TransTerm Strand: - Conf: 89 HP_score: -6.6 Tail_Score: -5.27476 Start: 173 End: 212 Full_Region: gctgaatgaccgaaa ttttcttcgcgaagaaaa aata ttttgttggcgaagtaaa ttttattttcttcgc ............................................................................................................................................................................ttttcttcgcgaagaaaaaatattttgttggcgaagtaaa................................................................................... Find igs database================================================ Query_seq: TF0258:TF0259|TF0258:TF0259:hypothetical protein:conserved hypothetical protein:->->:289595..289889 295 tagtgtgacttagggagacggatgactacaggctattcgtattccatttcctcgaagggattgatgtatgagtgccgagaagtatgttcccgagagagtttagctgtatttttatttcaacgaggaattgccctgtagaagtcttgaaattttgttggcgaagaaaataaaatttacttcgccaacaaaatattttttcttcgcgaagaaaatttcggtcattcagcatcggagataaaagattgtccctgaaggtatctggccggtttgtgacaaaggagtaaagccttcgcag Intra-Species Hit: Count: 1 Min: 1 Max: 295 Len: 295 Subject: tfor_TF0258_TF0259|hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[289595,289889]|295 HSP 1 e-value: 1.0E-166 bit: 585.0 Len: 295 Query Start:1 Query End:295 Subject Strand: POSITIVE Subject Start: 1 Subject End: 295 tagtgtgacttagggagacggatgactacaggctattcgtattccatttcctcgaagggattgatgtatgagtgccgagaagtatgttcccgagagagtttagctgtatttttatttcaacgaggaattgccctgtagaagtcttgaaattttgttggcgaagaaaataaaatttacttcgccaacaaaatattttttcttcgcgaagaaaatttcggtcattcagcatcggagataaaagattgtccctgaaggtatctggccggtttgtgacaaaggagtaaagccttcgcag tagtgtgacttagggagacggatgactacaggctattcgtattccatttcctcgaagggattgatgtatgagtgccgagaagtatgttcccgagagagtttagctgtatttttatttcaacgaggaattgccctgtagaagtcttgaaattttgttggcgaagaaaataaaatttacttcgccaacaaaatattttttcttcgcgaagaaaatttcggtcattcagcatcggagataaaagattgtccctgaaggtatctggccggtttgtgacaaaggagtaaagccttcgcag Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGUGUGACUUAGGGAGACGGAUGACUACAGGCUAUUCGUAUUCCAUUUCCUCGAAGGGAUUGAUGUAUGAGUGCCGAGAAGUAUGUUCCCGAGAGAGUUUAGCUGUAUUUUUAUUUCAACGAGGAAUUGCCCUGUAGAAGUCUUGAAAUUUUGUUGGCGAAGAAAAUAAAAUUUACUUCGCCAACAAAAUAUUUUUUCUUCGCGAAGAAAAUUUCGGUCAUUCAGCAUCGGAGAUAAAAGAUUGUCCCUGAAGGUAUCUGGCCGGUUUGUGACAAAGGAGUAAAGCCUUCGCAG ((((..(((((.(((((.((....(((.(.(((.((((((((..((.((((.....)))).))..)))))))))))..).))).)))))))....)))))..))))..............(((((..(((((((..(((((....((.(((((((((((((((.((((...)))).))))))))))))))).)).)))))(((((((.......(((((((...(.(.((((.(((((....))))).)))).).)...))))))))))))))...))).))))..)).)))... (-88.51) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUGCGAAGGCUUUACUCCUUUGUCACAAACCGGCCAGAUACCUUCAGGGACAAUCUUUUAUCUCCGAUGCUGAAUGACCGAAAUUUUCUUCGCGAAGAAAAAAUAUUUUGUUGGCGAAGUAAAUUUUAUUUUCUUCGCCAACAAAAUUUCAAGACUUCUACAGGGCAAUUCCUCGUUGAAAUAAAAAUACAGCUAAACUCUCUCGGGAACAUACUUCUCGGCACUCAUACAUCAAUCCCUUCGAGGAAAUGGAAUACGAAUAGCCUGUAGUCAUCCGUCUCCCUAAGUCACACUA ...((((((..........(((((.(.....((.......)).....))))))............((((.(((.((.((((.......(((.((((((......(((((((((((((((.(((......))))))))))))))))))........(((.((((((....)))).)).)))..................))).))).)))........)))))).)))..))))....)))))).(((.(((((.((((.......))))....))))).)))............. (-67.56) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 420 270 230 50 1 tfor:TF2850|5end_endoribonuclease_L-PSP_3038417..3038647_POSITIVE 395 190 149 146 106 tfor:TF0269|5end_possible_transposase_element_297060..297290_POSITIVE 373 267 224 166 127 tfor:TF1036|5end_iron(III)_ABC_transporter,_permease_component_1097160..1097390_POSITIVE 359 270 221 152 83 tfor:TF0374|5end_glycerophosphoryl_diester_phosphodiesterase_392527..392757_POSITIVE 348 268 226 72 24 tfor:TF2445|5end_protoporphyrinogen_oxidase_2621457..2621687_POSITIVE 344 266 223 187 145 tfor:TF0413|5end_succinyl-diaminopimelate_desuccinylase_430434..430664_POSITIVE 341 260 211 105 47 tfor:TF0023|5end_possible_response_element_in_two_component_regulation_19446..19676_POSITIVE 340 162 127 36 2 tfor:TF1741|5end_conserved_hypothetical_protein_1869304..1869534_POSITIVE 339 260 212 54 9 tfor:TF2014|5end_dipeptidyl_aminopeptidase_IV_2169398..2169628_POSITIVE 337 60 17 221 173 tfor:TF2798|5end_conserved_hypothetical_protein_2984023..2984253_POSITIVE 336 104 65 66 27 tfor:TF2273|5end_conserved_hypothetical_protein_2436398..2436628_POSITIVE 334 105 61 182 130 tfor:TF0549|5end_universal_stress_protein,_UspA_581454..581684_POSITIVE 331 289 248 104 69 tfor:TF1003|5end_conserved_hypothetical_protein;_possible_secreted_glycosylhydrolase_1058177..1058407_POSITIVE 331 290 247 102 57 tfor:TF0371|5end_beta-mannosidase_precursor_386763..386993_POSITIVE 329 86 45 210 172 tfor:TF0064|5end_conserved_hypothetical_protein_68419..68649_POSITIVE 328 106 63 187 144 tfor:TF0602|5end_aminotripeptidase;_peptidase_T_632169..632399_POSITIVE 327 60 19 215 184 tfor:TF0643|5end_probable_tRNA_methyltransferase_684195..684425_POSITIVE 321 267 224 173 123 tfor:TF2571|5end_30S_ribosomal_protein_S5_2742548..2742778_POSITIVE 318 268 221 51 11 tfor:TF2849|5end_histidinol-phosphate_transaminase_3037288..3037518_POSITIVE 317 267 223 199 139 tfor:TF1974|5end_glyoxalase_I_related_protein_(lactoylglutathione_lyase)_2120950..2121180_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 377 191 152 39 1 tfor:TF0268|3end_hypothetical_protein_297032..297182_POSITIVE 359 270 221 141 72 tfor:TF0373|3end_conserved_hypothetical_protein,_yngK-related_392596..392746_POSITIVE 348 268 226 84 36 tfor:TF2444|3end_regulatory_protein_RecX_2621549..2621699_POSITIVE 341 260 211 101 43 tfor:TF0022|3end_two-component_system_sensor_histidine_kinase_19522..19672_POSITIVE 336 104 65 102 63 tfor:TF2272|3end_conserved_hypothetical_protein_2436514..2436664_POSITIVE 334 105 61 65 13 tfor:TF0548|3end_TPR-repeat-containing_protein_581417..581567_POSITIVE 331 289 248 79 44 tfor:TF1002|3end_replicative_DNA_helicase_1058232..1058382_POSITIVE 323 79 34 98 48 tfor:TF0629|3end_hypothetical_protein_666710..666860_POSITIVE 318 268 221 72 32 tfor:TF2848|3end_cobalamin_biosynthesis_protein_3037389..3037539_POSITIVE 314 60 12 121 75 tfor:TF3157|3end_sodium/solute_symporter_3393787..3393937_POSITIVE 309 272 240 151 120 tfor:TF2094|3end_6-phosphofructokinase_2263524..2263674_POSITIVE 305 58 11 88 44 tfor:TF1167|3end_hypothetical_protein_1248932..1249082_POSITIVE 302 60 12 72 17 tfor:TF0779|3end_possible_outer_membrane_protein_831874..832024_POSITIVE 301 100 53 59 2 tfor:TF0145|3end_glutamine_synthetase_154718..154868_POSITIVE 300 35 5 124 91 tfor:TF0351|3end_hypothetical_protein_371226..371376_POSITIVE 298 99 53 63 22 tfor:TF3021|3end_FKBP-type_peptidyl-prolyl_cis-trans_isomerase_3246194..3246344_POSITIVE 298 45 1 110 61 tfor:TF1105|3end_arylsulfatase_regulator;_Fe-S_oxidoreductase_1174178..1174328_POSITIVE 298 157 115 134 94 tfor:TF0683|3end_conserved_hypothetical_protein_728914..729064_POSITIVE 297 79 32 74 33 tfor:TF1956|3end_hypothetical_protein_2107873..2108023_POSITIVE 297 260 212 138 100 tfor:TF1868|3end_conserved_hypothetical_protein;_possible_transposase_2023043..2023193_POSITIVE