Origin IGS: agtatattcaagaaaatgcgatgttatagaatgtgttgcatatttattcgttgcctctgtctgaataacttctgtctcttagctgatttcgatcggaatttgaaatgcaattaagcaattcttttttttgtgtaagtttttaattttatgtgtgctgtta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taacagcacacataaaattaaaaacttacacaaaaaaaagaattgcttaattgcatttcaaattccgatcgaaatcagctaagagacagaagttattcagacagaggcaacgaataaatatgcaacacattctataacatcgcattttcttgaatatact Mask Tandem Repeat Region ================================================ agtatattcaagaaaatgcgatgttatagaatgtgttgcatatttattcgttgcctctgtctgaataacttctgtctcttagctgatttcgatcggaatttgaaatgcaattaagcaattcttttttttgtgtaagtttttaattttatgtgtgctgtta Find is-nt database================================================ Query_seq: PG0564:PG0565|PG0564:PG0565:hypothetical protein:hypothetical protein:<-<-:621701..621860 160 agtatattcaagaaaatgcgatgttatagaatgtgttgcatatttattcgttgcctctgtctgaataacttctgtctcttagctgatttcgatcggaatttgaaatgcaattaagcaattcttttttttgtgtaagtttttaattttatgtgtgctgtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG0564:PG0565|PG0564:PG0565:hypothetical protein:hypothetical protein:<-<-:621701..621860 160 agtatattcaagaaaatgcgatgttatagaatgtgttgcatatttattcgttgcctctgtctgaataacttctgtctcttagctgatttcgatcggaatttgaaatgcaattaagcaattcttttttttgtgtaagtttttaattttatgtgtgctgtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG0564:PG0565|PG0564:PG0565:hypothetical protein:hypothetical protein:<-<-:621701..621860 160 agtatattcaagaaaatgcgatgttatagaatgtgttgcatatttattcgttgcctctgtctgaataacttctgtctcttagctgatttcgatcggaatttgaaatgcaattaagcaattcttttttttgtgtaagtttttaattttatgtgtgctgtta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 agtatattcaagaaaatgcgatgttatagaatgtgttgcatatttattcgttgcctctgtctgaataacttctgtctcttagctgatttcgatcggaatttgaaatgcaattaagcaattcttttttttgtgtaagtttttaattttatgtgtgctgtta Predict ORF larger than 30AA ================================================ Protein_Len: 36 Strand: + Start: 4 End: 111 ... M F K K M R C Y R M C C I F I R C L C L N N F C L L A D F D R N L K C N ................................................. agtatattcaagaaaatgcgatgttatagaatgtgttgcatatttattcgttgcctctgtctgaataacttctgtctcttagctgatttcgatcggaatttgaaatgcaattaagcaattcttttttttgtgtaagtttttaattttatgtgtgctgtta 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================================================ agtatattcaagaaaatgcgatgttatagaatgtgttgcatatttattcgttgcctctgtctgaataacttctgtctcttagctgatttcgatcggaatttgaaatgcaattaagcaattcttttttttgtgtaagtttttaattttatgtgtgctgtta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 81 HP_score: -2.1 Tail_Score: -6.02914 Start: 102 End: 121 Full_Region: TTTCGATCGGAATTT GAAATGC AATTAA GCAATTC TTTTTTTTGTGTAAG .....................................................................................................GAAATGCAATTAAGCAATTC....................................... Find igs database================================================ Query_seq: PG0564:PG0565|PG0564:PG0565:hypothetical protein:hypothetical protein:<-<-:621701..621860 160 agtatattcaagaaaatgcgatgttatagaatgtgttgcatatttattcgttgcctctgtctgaataacttctgtctcttagctgatttcgatcggaatttgaaatgcaattaagcaattcttttttttgtgtaagtttttaattttatgtgtgctgtta Intra-Species Hit: Count: 1 Min: 1 Max: 160 Len: 160 Subject: NC_002950_PG0564_PG0565|hypothetical protein:hypothetical protein|NEGATIVE:NEGATIVE|[621701,621860]|160 HSP 1 e-value: 1.0E-71 bit: 270.0 Len: 160 Query Start:1 Query End:160 Subject Strand: POSITIVE Subject Start: 1 Subject End: 160 agtatattcaagaaaatgcgatgttatagaatgtgttgcatatttattcgttgcctctgtctgaataacttctgtctcttagctgatttcgatcggaatttgaaatgcaattaagcaattcnnnnnnnngtgtaagtttttaattttatgtgtgctgtta agtatattcaagaaaatgcgatgttatagaatgtgttgcatatttattcgttgcctctgtctgaataacttctgtctcttagctgatttcgatcggaatttgaaatgcaattaagcaattcttttttttgtgtaagtttttaattttatgtgtgctgtta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGUAUAUUCAAGAAAAUGCGAUGUUAUAGAAUGUGUUGCAUAUUUAUUCGUUGCCUCUGUCUGAAUAACUUCUGUCUCUUAGCUGAUUUCGAUCGGAAUUUGAAAUGCAAUUAAGCAAUUCUUUUUUUUGUGUAAGUUUUUAAUUUUAUGUGUGCUGUUA (((((((.((((((((.((((((..((((((((.....))).))))).)))))).((((..((((...(..(((.....)))..)..))))..))))....(((.(((......))).))).)))))))).(((((........)))))))))))).... (-26.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAACAGCACACAUAAAAUUAAAAACUUACACAAAAAAAAGAAUUGCUUAAUUGCAUUUCAAAUUCCGAUCGAAAUCAGCUAAGAGACAGAAGUUAUUCAGACAGAGGCAACGAAUAAAUAUGCAACACAUUCUAUAACAUCGCAUUUUCUUGAAUAUACU ....(((................................(((.(((......))).))).......(((....))).)))((((((..((.(((((..........(((...........)))..........))))).))....))))))......... (-17.35) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 885 100 51 191 142 NC_002950:PG0564|5end_hypothetical_protein_621610..621840_NEGATIVE 415 87 43 170 125 NC_002950:PG1472|5end_hypothetical_protein_1549033..1549263_POSITIVE 366 109 69 199 164 NC_002950:PG1580|5end_hypothetical_protein_1657499..1657729_POSITIVE 328 96 52 212 163 NC_002950:PG1533|5end_Toprim_domain_protein_1613761..1613991_NEGATIVE 298 96 51 151 108 NC_002950:PG2098|5end_hypothetical_protein_2206635..2206865_NEGATIVE 280 125 82 70 31 NC_002950:PG2062|5end_histidyl-tRNA_synthetase_2158971..2159201_POSITIVE 278 94 53 189 144 NC_002950:PG1069|5end_alcohol_dehydrogenase,_zinc-containing,_putative_1135499..1135729_POSITIVE 276 80 35 114 64 NC_002950:PG0259|5end_hypothetical_protein_292278..292508_POSITIVE 273 97 51 80 24 NC_002950:PG2163|5end_acid_phosphatase_2269571..2269801_NEGATIVE 268 107 70 53 5 NC_002950:PG0281|5end_ABC_transporter,_permease_protein,_putative_316023..316253_NEGATIVE 265 79 37 40 2 NC_002950:PG1591|5end_hypothetical_protein_1667917..1668147_POSITIVE 265 97 53 221 173 NC_002950:PG0444|5end_oligopeptide_transporter,_OPT_family_483256..483486_POSITIVE 264 86 41 215 167 NC_002950:PG2048|5end_hypothetical_protein_2148514..2148744_NEGATIVE 264 97 53 66 20 NC_002950:PG2046|5end_hypothetical_protein_2144349..2144579_POSITIVE 264 96 52 224 176 NC_002950:PG1754|5end_hypothetical_protein_1839679..1839909_POSITIVE 261 89 47 60 31 NC_002950:PG0344|5end_purple_acid_phosphatase_380012..380242_NEGATIVE 260 97 51 155 92 NC_002950:PG1380|5end_ABC_transporter,_ATP-binding_protein_1459927..1460157_POSITIVE 259 97 54 161 114 NC_002950:PG1370|5end_lysyl-tRNA_synthetase_1452229..1452459_NEGATIVE 257 130 81 186 132 NC_002950:PG1166|5end_hypothetical_protein_1248443..1248673_NEGATIVE 257 78 34 148 102 NC_002950:PG0636|5end_MATE_efflux_family_protein_689071..689301_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 415 87 43 135 90 NC_002950:PG1471|3end_hypothetical_protein_1549078..1549228_POSITIVE 308 95 51 151 101 NC_002950:PG0130|3end_phosphoglyceromutase_151922..152072_NEGATIVE 298 96 51 137 94 NC_002950:PG2099|3end_ATP-dependent_RNA_helicase,_DEAD/DEAH_box_family_2206649..2206799_NEGATIVE 296 85 47 70 28 NC_002950:PG1431|3end_DNA-binding_response_regulator,_LuxR_family_1515986..1516136_NEGATIVE 278 94 53 147 102 NC_002950:PG1068|3end_hypothetical_protein_1135537..1135687_POSITIVE 276 80 35 107 57 NC_002950:PG0258|3end_ABC_transporter,_ATP-binding_protein_292351..292501_POSITIVE 273 97 51 83 27 NC_002950:PG2164|3end_peptidyl-prolyl_cis-trans_isomerase,_FKBP-type_2269568..2269718_NEGATIVE 262 80 32 131 79 NC_002950:PG1285|3end_glucosamine-6-phosphate_deaminase_1364941..1365091_POSITIVE 261 89 47 57 28 NC_002950:PG0345|3end_hypothetical_protein_380015..380165_NEGATIVE 260 97 51 103 40 NC_002950:PG1379|3end_ABC_transporter,_periplasmic_substrate-binding_protein,_putative_1459955..1460105_POSITIVE 255 110 73 150 111 NC_002950:PG1794|3end_DNA_polymerase_type_I_1888838..1888988_POSITIVE 254 76 31 77 24 NC_002950:PG1310|3end_exsB_protein_1389826..1389976_POSITIVE 251 88 41 51 8 NC_002950:PG0164|3end_hypothetical_protein_187081..187231_NEGATIVE 250 98 54 50 1 NC_002950:PG2044|3end_hypothetical_protein_2144165..2144315_POSITIVE 250 96 51 66 29 NC_002950:PG0516|3end_hypothetical_protein_557937..558087_NEGATIVE 250 79 32 130 83 NC_002950:PG0377|3end_30S_ribosomal_protein_S2_407845..407995_POSITIVE 249 65 31 82 51 NC_002950:PG2218|3end_potassium_uptake_protein_TrkA_2333000..2333150_POSITIVE 245 60 13 91 48 NC_002950:PG0615|3end_GTP-binding_protein_TypA_668912..669062_POSITIVE 244 89 45 96 39 NC_002950:PG0793|3end_fructose-1,6-bisphosphatase_846335..846485_POSITIVE 243 109 67 66 20 NC_002950:PG1599|3end_hypothetical_protein_1679955..1680105_POSITIVE