Origin IGS: agatcgtaaaaagttctataaccgccaatagaatccgaataaaattttcataaacattgaatgctcctcctacgatcgattcactgcccctcctgattttctccgagaatggttgacacgaccttttcccaatggctcaaaatatttatttgttaaaatctgcaaaaatatcactaataaattattgtacaccaatagattatagcaataaaatgtccaataatgatacgtctgaaaaatacagaatgtccgatatgaataggtttttgtctgattatgatag .........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 ctatcataatcagacaaaaacctattcatatcggacattctgtatttttcagacgtatcattattggacattttattgctataatctattggtgtacaataatttattagtgatatttttgcagattttaacaaataaatattttgagccattgggaaaaggtcgtgtcaaccattctcggagaaaatcaggaggggcagtgaatcgatcgtaggaggagcattcaatgtttatgaaaattttattcggattctattggcggttatagaactttttacgatct Mask Tandem Repeat Region ================================================ agatcgtaaaaagttctataaccgccaatagaatccgaataaaattttcataaacattgaatgctcctcctacgatcgattcactgcccctcctgattttctccgagaatggttgacacgaccttttcccaatggctcaaaatatttatttgttaaaatctgcaaaaatatcactaataaattattgtacaccaatagattatagcaataaaatgtccaataatgatacgtctgaaaaatacagaatgtccgatatgaataggtttttgtctgattatgatag Find is-nt database================================================ Query_seq: TF0530:TF0531|TF0530:TF0531:hypothetical protein with TPR domain:hypothetical protein:->->:556920..557202 283 agatcgtaaaaagttctataaccgccaatagaatccgaataaaattttcataaacattgaatgctcctcctacgatcgattcactgcccctcctgattttctccgagaatggttgacacgaccttttcccaatggctcaaaatatttatttgttaaaatctgcaaaaatatcactaataaattattgtacaccaatagattatagcaataaaatgtccaataatgatacgtctgaaaaatacagaatgtccgatatgaataggtttttgtctgattatgatag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0530:TF0531|TF0530:TF0531:hypothetical protein with TPR domain:hypothetical protein:->->:556920..557202 283 agatcgtaaaaagttctataaccgccaatagaatccgaataaaattttcataaacattgaatgctcctcctacgatcgattcactgcccctcctgattttctccgagaatggttgacacgaccttttcccaatggctcaaaatatttatttgttaaaatctgcaaaaatatcactaataaattattgtacaccaatagattatagcaataaaatgtccaataatgatacgtctgaaaaatacagaatgtccgatatgaataggtttttgtctgattatgatag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0530:TF0531|TF0530:TF0531:hypothetical protein with TPR domain:hypothetical protein:->->:556920..557202 283 agatcgtaaaaagttctataaccgccaatagaatccgaataaaattttcataaacattgaatgctcctcctacgatcgattcactgcccctcctgattttctccgagaatggttgacacgaccttttcccaatggctcaaaatatttatttgttaaaatctgcaaaaatatcactaataaattattgtacaccaatagattatagcaataaaatgtccaataatgatacgtctgaaaaatacagaatgtccgatatgaataggtttttgtctgattatgatag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 agatcgtaaaaagttctataaccgccaatagaatccgaataaaattttcataaacattgaatgctcctcctacgatcgattcactgcccctcctgattttctccgagaatggttgacacgaccttttcccaatggctcaaaatatttatttgttaaaatctgcaaaaatatcactaataaattattgtacaccaatagattatagcaataaaatgtccaataatgatacgtctgaaaaatacagaatgtccgatatgaataggtttttgtctgattatgatag Predict ORF larger than 30AA ================================================ Protein_Len: 53 Strand: + Start: 44 End: 202 ........................................... M F I N I E C S S Y D R F T A P P D F L R E W L T R P F P N G S K Y L F V K I C K N I T N K L L Y T N R L ................................................................................. Protein_Len: 50 Strand: + Start: 132 End: 281 ................................................................................................................................... M A Q N I Y L L K S A K I S L I N Y C T P I D Y S N K M S N N D T S E K Y R M S D M N R F L S D Y D .. Protein_Len: 35 Strand: - Start: 177 End: 281 ................................................................................................................................................................................ Y I I T C W Y I I A I F H G I I I R R F F V S H G I H I P K Q R I I M .. Protein_Len: 56 Strand: - Start: 73 End: 240 ........................................................................ S R N V A G G S K R R S H N V R G K G L P E F Y K N T L I Q L F I V L L N N Y V L L N Y C Y F T W Y H Y T Q F M ........................................... Protein_Len: 44 Strand: - Start: 2 End: 133 . I T F L E I V A L L I R I F N E Y V N F A G G V I S E S G R R I K E S F P Q C S R K G M ...................................................................................................................................................... agatcgtaaaaagttctataaccgccaatagaatccgaataaaattttcataaacattgaatgctcctcctacgatcgattcactgcccctcctgattttctccgagaatggttgacacgaccttttcccaatggctcaaaatatttatttgttaaaatctgcaaaaatatcactaataaattattgtacaccaatagattatagcaataaaatgtccaataatgatacgtctgaaaaatacagaatgtccgatatgaataggtttttgtctgattatgatag 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================================================ agatcgtaaaaagttctataaccgccaatagaatccgaataaaattttcataaacattgaatgctcctcctacgatcgattcactgcccctcctgattttctccgagaatggttgacacgaccttttcccaatggctcaaaatatttatttgttaaaatctgcaaaaatatcactaataaattattgtacaccaatagattatagcaataaaatgtccaataatgatacgtctgaaaaatacagaatgtccgatatgaataggtttttgtctgattatgatag Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF0530:TF0531|TF0530:TF0531:hypothetical protein with TPR domain:hypothetical protein:->->:556920..557202 283 agatcgtaaaaagttctataaccgccaatagaatccgaataaaattttcataaacattgaatgctcctcctacgatcgattcactgcccctcctgattttctccgagaatggttgacacgaccttttcccaatggctcaaaatatttatttgttaaaatctgcaaaaatatcactaataaattattgtacaccaatagattatagcaataaaatgtccaataatgatacgtctgaaaaatacagaatgtccgatatgaataggtttttgtctgattatgatag Intra-Species Hit: Count: 1 Min: 1 Max: 283 Len: 283 Subject: tfor_TF0530_TF0531|hypothetical protein with TPR domain:hypothetical protein|POSITIVE:POSITIVE|[556920,557202]|283 HSP 1 e-value: 1.0E-159 bit: 561.0 Len: 283 Query Start:1 Query End:283 Subject Strand: POSITIVE Subject Start: 1 Subject End: 283 agatcgtaaaaagttctataaccgccaatagaatccgaataaaattttcataaacattgaatgctcctcctacgatcgattcactgcccctcctgattttctccgagaatggttgacacgaccttttcccaatggctcaaaatatttatttgttaaaatctgcaaaaatatcactaataaattattgtacaccaatagattatagcaataaaatgtccaataatgatacgtctgaaaaatacagaatgtccgatatgaataggtttttgtctgattatgatag agatcgtaaaaagttctataaccgccaatagaatccgaataaaattttcataaacattgaatgctcctcctacgatcgattcactgcccctcctgattttctccgagaatggttgacacgaccttttcccaatggctcaaaatatttatttgttaaaatctgcaaaaatatcactaataaattattgtacaccaatagattatagcaataaaatgtccaataatgatacgtctgaaaaatacagaatgtccgatatgaataggtttttgtctgattatgatag Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGAUCGUAAAAAGUUCUAUAACCGCCAAUAGAAUCCGAAUAAAAUUUUCAUAAACAUUGAAUGCUCCUCCUACGAUCGAUUCACUGCCCCUCCUGAUUUUCUCCGAGAAUGGUUGACACGACCUUUUCCCAAUGGCUCAAAAUAUUUAUUUGUUAAAAUCUGCAAAAAUAUCACUAAUAAAUUAUUGUACACCAAUAGAUUAUAGCAAUAAAAUGUCCAAUAAUGAUACGUCUGAAAAAUACAGAAUGUCCGAUAUGAAUAGGUUUUUGUCUGAUUAUGAUAG .(((((((....(((((((........)))))))............((((.......)))).........)))))))...(((..(((.(((..((.....)).)))...))).((((.(((((.(((....(((......((((((..((((((.((((((.........((.(((....))).))........)))))).))))))..))))))))).....((((..((((.......)))).))))......))).)))))..))))......)))... (-43.23) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUAUCAUAAUCAGACAAAAACCUAUUCAUAUCGGACAUUCUGUAUUUUUCAGACGUAUCAUUAUUGGACAUUUUAUUGCUAUAAUCUAUUGGUGUACAAUAAUUUAUUAGUGAUAUUUUUGCAGAUUUUAACAAAUAAAUAUUUUGAGCCAUUGGGAAAAGGUCGUGUCAACCAUUCUCGGAGAAAAUCAGGAGGGGCAGUGAAUCGAUCGUAGGAGGAGCAUUCAAUGUUUAUGAAAAUUUUAUUCGGAUUCUAUUGGCGGUUAUAGAACUUUUUACGAUCU ...((((.....((((...((((.(((.((..((.(..((((.......((((.(((((((((.((((....((((((.((((.((....)))))))))))))))).))))))))).))))))))......((((.......)))).)))..)).))).))))..)))).....(((((.((.....))..)))))...))))...((((((((((((...((((((((...((....))..)))).))))(((((........))))).)))))))))))). (-56.61) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 369 107 68 200 156 tfor:TF1703|5end_conserved_hypothetical_protein_1822065..1822295_POSITIVE 363 104 61 142 102 tfor:TF0662|5end_hypothetical_protein_708316..708546_POSITIVE 355 108 64 91 39 tfor:TF0239|5end_conserved_hypothetical_protein_268894..269124_POSITIVE 334 120 71 137 77 tfor:TF1598|5end_conserved_hypothetical_protein_1713358..1713588_POSITIVE 328 129 84 163 126 tfor:TF1768|5end_conserved_hypothetical_protein;_possible_transposase_1906526..1906756_POSITIVE 326 130 89 52 1 tfor:TF1829|5end_2-isopropylmalate_synthase_1977365..1977595_POSITIVE 325 116 73 223 172 tfor:TF2561|5end_50S_ribosomal_protein_L16_2738693..2738923_POSITIVE 321 107 62 144 94 tfor:TF1182|5end_hypothetical_protein_1268565..1268795_POSITIVE 316 103 62 61 23 tfor:TF0330|5end_excinuclease_ABC,_subunit_A_356196..356426_POSITIVE 311 108 62 80 29 tfor:TF2817|5end_hypothetical_protein_3007358..3007588_POSITIVE 307 117 73 133 70 tfor:TF2043|5end_fructokinase_2202267..2202497_POSITIVE 307 127 81 83 39 tfor:TF1148|5end_para-aminobenzoate_synthase_component_I_1228219..1228449_POSITIVE 307 122 85 89 49 tfor:TF0024|5end_conserved_hypothetical_protein;_possible_ATPase_20191..20421_POSITIVE 306 109 61 223 163 tfor:TF1511|5end_outer_membrane_protein,_TonB_dependent_receptor_1621069..1621299_POSITIVE 305 129 83 205 163 tfor:TF2802|5end_possible_outer_membrane_protein_2989842..2990072_POSITIVE 303 134 91 229 180 tfor:TF1484|5end_penicillin_binding_protein_1579559..1579789_POSITIVE 302 95 55 84 43 tfor:TF1718|5end_conserved_hypothetical_protein_1840462..1840692_POSITIVE 302 96 59 210 168 tfor:TF1416|5end_outer_membrane_protein_1497576..1497806_POSITIVE 300 106 67 100 62 tfor:TF3160|5end_conserved_hypothetical_protein_3395531..3395761_POSITIVE 299 130 86 228 185 tfor:TF2682|5end_N_utilization_substance_protein_A_2856308..2856538_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 369 107 68 130 86 tfor:TF1702|3end_conserved_hypothetical_protein_1822075..1822225_POSITIVE 355 108 64 74 22 tfor:TF0238|3end_outer_membrane_protein_268957..269107_POSITIVE 334 120 71 117 57 tfor:TF1597|3end_TatD_family_protein_1713418..1713568_POSITIVE 332 126 82 106 54 tfor:TF0541|3end_conserved_hypothetical_protein_571858..572008_POSITIVE 330 106 61 99 54 tfor:TF0178|3end_ferritin_188223..188373_POSITIVE 321 107 62 144 94 tfor:TF1186|3end_hypothetical_protein_1269815..1269965_POSITIVE 312 118 71 72 6 tfor:TF3109|3end_hypothetical_protein_3342803..3342953_POSITIVE 307 117 73 142 79 tfor:TF2042|3end_sugar_phosphate_isomerase,_polysialic_acid_capsule_expression_protein_2202356..2202506_POSITIVE 307 122 85 51 11 tfor:TF0023|3end_possible_response_element_in_two_component_regulation_20233..20383_POSITIVE 300 106 67 100 62 tfor:TF3159|3end_conserved_hypothetical_protein;_possible_transcriptional_regulator_3395611..3395761_POSITIVE 295 110 61 70 14 tfor:TF2770|3end_conserved_hypothetical_protein_2956639..2956789_POSITIVE 292 89 62 151 123 tfor:TF2795|3end_hypothetical_protein_2980909..2981059_POSITIVE 291 115 73 38 2 tfor:TF1139|3end_adenylosuccinate_lyase_1216667..1216817_POSITIVE 291 130 85 78 28 tfor:TF0409|3end_conserved_hypothetical_protein_427672..427822_POSITIVE 290 109 63 55 15 tfor:TF1915|3end_NAD-dependent_protein_deacetylase,_SIR2_family_2068489..2068639_POSITIVE 288 105 63 140 99 tfor:TF1405|3end_conserved_hypothetical_protein_1481819..1481969_POSITIVE 288 129 81 134 61 tfor:TF0629|3end_hypothetical_protein_666710..666860_POSITIVE 286 115 73 67 6 tfor:TF2702|3end_hypothetical_protein_2876136..2876286_POSITIVE 285 252 223 67 38 tfor:TF3024|3end_periplasmic_protease_3248714..3248864_POSITIVE 283 138 97 84 41 tfor:TF0599|3end_hypothetical_protein_630130..630280_POSITIVE