Origin IGS: agctataggaggtgtgtcgaacgtccggcacgcctcttatctattataaatcatatcgggacagatctccttccggtaaattcggagatcggccggtgtgcgaccggagaggggcagccccacgaaagaaaacattgacaacaaaaacgacaagaagatgagattgaacctaagctcc .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ggagcttaggttcaatctcatcttcttgtcgtttttgttgtcaatgttttctttcgtggggctgcccctctccggtcgcacaccggccgatctccgaatttaccggaaggagatctgtcccgatatgatttataatagataagaggcgtgccggacgttcgacacacctcctatagct Mask Tandem Repeat Region ================================================ agctataggaggtgtgtcgaacgtccggcacgcctcttatctattataaatcatatcgggacagatctccttccggtaaattcggagatcggccggtgtgcgaccggagaggggcagccccacgaaagaaaacattgacaacaaaaacgacaagaagatgagattgaacctaagctcc Find is-nt database================================================ Query_seq: PG1283:PG1285|PG1283:PG1285:hypothetical protein:glucosamine-6-phosphate deaminase:->->:1362856..1363033 178 agctataggaggtgtgtcgaacgtccggcacgcctcttatctattataaatcatatcgggacagatctccttccggtaaattcggagatcggccggtgtgcgaccggagaggggcagccccacgaaagaaaacattgacaacaaaaacgacaagaagatgagattgaacctaagctcc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG1283:PG1285|PG1283:PG1285:hypothetical protein:glucosamine-6-phosphate deaminase:->->:1362856..1363033 178 agctataggaggtgtgtcgaacgtccggcacgcctcttatctattataaatcatatcgggacagatctccttccggtaaattcggagatcggccggtgtgcgaccggagaggggcagccccacgaaagaaaacattgacaacaaaaacgacaagaagatgagattgaacctaagctcc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG1283:PG1285|PG1283:PG1285:hypothetical protein:glucosamine-6-phosphate deaminase:->->:1362856..1363033 178 agctataggaggtgtgtcgaacgtccggcacgcctcttatctattataaatcatatcgggacagatctccttccggtaaattcggagatcggccggtgtgcgaccggagaggggcagccccacgaaagaaaacattgacaacaaaaacgacaagaagatgagattgaacctaagctcc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 agctataggaggtgtgtcgaacgtccggcacgcctcttatctattataaatcatatcgggacagatctccttccggtaaattcggagatcggccggtgtgcgaccggagaggggcagccccacgaaagaaaacattgacaacaaaaacgacaagaagatgagattgaacctaagctcc Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: + Start: 43 End: 135 .......................................... M I N H I G T D L L P V N S E I G R C A T G E G Q P H E R K H ........................................... Protein_Len: 49 Strand: + Start: 12 End: 158 ........... M C R T S G T P L I Y Y K S Y R D R S P S G K F G D R P V C D R R G A A P R K K T L T T K T T R R .................... Protein_Len: 33 Strand: + Start: 80 End: 178 ............................................................................... M R R S A G V R P E R G S P T K E N I D N K N D K K M R L N L S S Protein_Len: 37 Strand: - Start: 54 End: 164 ..................................................... I P V S R R G T F E S I P R H A V P S P C G W S L F C Q C C F R C S S S M .............. Protein_Len: 40 Strand: - Start: 40 End: 159 ....................................... R N Y I M D P C I E K R Y I R L D A P T R G S L P L G V F S F M S L L F S L F M ................... agctataggaggtgtgtcgaacgtccggcacgcctcttatctattataaatcatatcgggacagatctccttccggtaaattcggagatcggccggtgtgcgaccggagaggggcagccccacgaaagaaaacattgacaacaaaaacgacaagaagatgagattgaacctaagctcc 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================================================ agctataggaggtgtgtcgaacgtccggcacgcctcttatctattataaatcatatcgggacagatctccttccggtaaattcggagatcggccggtgtgcgaccggagaggggcagccccacgaaagaaaacattgacaacaaaaacgacaagaagatgagattgaacctaagctcc Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG1283:PG1285|PG1283:PG1285:hypothetical protein:glucosamine-6-phosphate deaminase:->->:1362856..1363033 178 agctataggaggtgtgtcgaacgtccggcacgcctcttatctattataaatcatatcgggacagatctccttccggtaaattcggagatcggccggtgtgcgaccggagaggggcagccccacgaaagaaaacattgacaacaaaaacgacaagaagatgagattgaacctaagctcc Intra-Species Hit: Count: 1 Min: 1 Max: 178 Len: 178 Subject: NC_002950_PG1283_PG1285|hypothetical protein:glucosamine-6-phosphate deaminase|POSITIVE:POSITIVE|[1362856,1363033]|178 HSP 1 e-value: 1.0E-96 bit: 353.0 Len: 178 Query Start:1 Query End:178 Subject Strand: POSITIVE Subject Start: 1 Subject End: 178 agctataggaggtgtgtcgaacgtccggcacgcctcttatctattataaatcatatcgggacagatctccttccggtaaattcggagatcggccggtgtgcgaccggagaggggcagccccacgaaagaaaacattgacaacaaaaacgacaagaagatgagattgaacctaagctcc agctataggaggtgtgtcgaacgtccggcacgcctcttatctattataaatcatatcgggacagatctccttccggtaaattcggagatcggccggtgtgcgaccggagaggggcagccccacgaaagaaaacattgacaacaaaaacgacaagaagatgagattgaacctaagctcc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGCUAUAGGAGGUGUGUCGAACGUCCGGCACGCCUCUUAUCUAUUAUAAAUCAUAUCGGGACAGAUCUCCUUCCGGUAAAUUCGGAGAUCGGCCGGUGUGCGACCGGAGAGGGGCAGCCCCACGAAAGAAAACAUUGACAACAAAAACGACAAGAAGAUGAGAUUGAACCUAAGCUCC ((((.((((.(((((((((......)))))))))((((((((.........((((((((....(((((((.............)))))))..))))))))....((....((((...)))).(....)...................))......)))))))).....)))))))).. (-58.22) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GGAGCUUAGGUUCAAUCUCAUCUUCUUGUCGUUUUUGUUGUCAAUGUUUUCUUUCGUGGGGCUGCCCCUCUCCGGUCGCACACCGGCCGAUCUCCGAAUUUACCGGAAGGAGAUCUGUCCCGAUAUGAUUUAUAAUAGAUAAGAGGCGUGCCGGACGUUCGACACACCUCCUAUAGCU ..((((((((...........(((((((((....((((.((((.((((.......(((.(((((........))))).)))...(((.(((((((.............))))))).)))..))))))))..))))..))))))))).(((.(((....))).)))....)))).)))) (-50.32) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 460 109 67 202 158 NC_002950:PG2029|5end_hypothetical_protein_2126543..2126773_POSITIVE 446 128 83 62 10 NC_002950:PG0736|5end_ribonuclease_HII_785608..785838_POSITIVE 438 119 72 65 6 NC_002950:PG1301|5end_hypothetical_protein_1379921..1380151_NEGATIVE 438 114 73 226 184 NC_002950:PG0483|5end_kinase,_putative_523844..524074_NEGATIVE 434 119 75 86 38 NC_002950:PG2146|5end_hypothetical_protein_2253815..2254045_POSITIVE 434 120 74 98 40 NC_002950:PG1675|5end_hypothetical_protein_1760182..1760412_POSITIVE 423 125 82 204 150 NC_002950:PG2086|5end_hypothetical_protein_2186571..2186801_POSITIVE 422 127 82 199 159 NC_002950:PG0323|5end_hypothetical_protein_357388..357618_NEGATIVE 420 118 74 178 127 NC_002950:PG0638|5end_tetraacyldisaccharide_4'-kinase_691183..691413_NEGATIVE 419 124 83 96 32 NC_002950:PG1899|5end_TonB-dependent_receptor,_putative_1999724..1999954_NEGATIVE 416 120 75 110 44 NC_002950:PG0017|5end_sensor_histidine_kinase_18307..18537_POSITIVE 413 129 89 51 4 NC_002950:PG2130|5end_hypothetical_protein_2235567..2235797_POSITIVE 413 125 83 93 47 NC_002950:PG1594|5end_ComEC/Rec2-related_protein_1673587..1673817_NEGATIVE 413 117 71 58 18 NC_002950:PG0128|5end_hypothetical_protein_149594..149824_POSITIVE 406 108 62 100 30 NC_002950:PG0546|5end_hypothetical_protein_600391..600621_NEGATIVE 404 107 66 169 112 NC_002950:PG1964|5end_bacterial_sugar_transferase_2052910..2053140_POSITIVE 402 119 73 118 51 NC_002950:PG2220|5end_hypothetical_protein_2334935..2335165_POSITIVE 400 120 73 231 193 NC_002950:PG1109|5end_mobilization_protein_1182792..1183022_NEGATIVE 399 107 63 82 16 NC_002950:PG1351|5end_hypothetical_protein_1432744..1432974_NEGATIVE 396 119 73 56 12 NC_002950:PG0228|5end_DdaH_family_protein_264950..265180_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 525 119 71 122 70 NC_002950:PG2031|3end_hypothetical_protein_2130871..2131021_POSITIVE 504 40 5 86 51 NC_002950:PG1283|3end_hypothetical_protein_1362795..1362945_POSITIVE 439 118 71 129 78 NC_002950:PG0619|3end_alkyl_hydroperoxide_reductase,_F_subunit_672731..672881_POSITIVE 437 107 61 117 66 NC_002950:PG1675|3end_hypothetical_protein_1760360..1760510_POSITIVE 434 119 75 129 81 NC_002950:PG2145|3end_polysaccharide_deacetylase_2253938..2254088_POSITIVE 423 125 82 148 94 NC_002950:PG2085|3end_tryptophanyl-tRNA_synthetase_2186595..2186745_POSITIVE 420 118 74 148 97 NC_002950:PG0639|3end_signal_peptide_peptidase_SppA,_67K_type_691213..691363_NEGATIVE 419 128 87 51 2 NC_002950:PG0735|3end_aminotransferase,_class_V_785677..785827_POSITIVE 416 120 75 99 33 NC_002950:PG0016|3end_sigma-54_dependent_DNA-binding_response_regulator_18376..18526_POSITIVE 413 125 83 86 40 NC_002950:PG1595|3end_ribulose-phosphate_3-epimerase_1673594..1673744_NEGATIVE 413 117 71 51 11 NC_002950:PG0127|3end_ferrochelatase_149667..149817_POSITIVE 404 108 71 150 109 NC_002950:PG1242|3end_replicative_DNA_helicase_1319101..1319251_POSITIVE 404 129 84 64 25 NC_002950:PG1117|3end_MATE_efflux_family_protein_1191541..1191691_POSITIVE 399 107 63 89 23 NC_002950:PG1352|3end_hypothetical_protein_1432737..1432887_NEGATIVE 393 113 72 71 25 NC_002950:PG0312|3end_hypothetical_protein_346509..346659_NEGATIVE 392 125 87 143 100 NC_002950:PG1743|3end_2-dehydro-3-deoxyphosphooctonate_aldolase_1827530..1827680_NEGATIVE 388 110 61 111 52 NC_002950:PG1808|3end_guanosine-3',5'-bis(diphosphate)_3'-pyrophosphohydrolase_1902955..1903105_NEGATIVE 386 124 82 142 91 NC_002950:PG1391|3end_hypothetical_protein_1472961..1473111_POSITIVE 386 120 74 115 60 NC_002950:PG1389|3end_DNA-binding_protein,_histone-like_family_1470870..1471020_NEGATIVE 385 140 93 86 33 NC_002950:PG2046|3end_hypothetical_protein_2145793..2145943_POSITIVE