Origin IGS: tgagaagaaaaaattagggagattcatttcaaaatctcccgttttattgttacttttgcatacgaagagttctttgaaggttacgcaacgcgcagaaggatgatgcagtagataactaactaaatcgtaacctattactatcatgagcaattaacctacgctcagttccaataaattacactcttttcgtaacttctttgcacaaagatgtaaaatttttttttatcgcgcaaatttttcaggcaaaaaaaattaacctacacataaccttagataacatagccttaacattgcatgaaattcggaggctgtatctttgccgtatcaaaaacaataaaaagtaaacagac .........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 gtctgtttactttttattgtttttgatacggcaaagatacagcctccgaatttcatgcaatgttaaggctatgttatctaaggttatgtgtaggttaattttttttgcctgaaaaatttgcgcgataaaaaaaaattttacatctttgtgcaaagaagttacgaaaagagtgtaatttattggaactgagcgtaggttaattgctcatgatagtaataggttacgatttagttagttatctactgcatcatccttctgcgcgttgcgtaaccttcaaagaactcttcgtatgcaaaagtaacaataaaacgggagattttgaaatgaatctccctaattttttcttctca Mask Tandem Repeat Region ================================================ tgagaagaaaaaattagggagattcatttcaaaatctcccgttttattgttacttttgcatacgaagagttctttgaaggttacgcaacgcgcagaaggatgatgcagtagataactaactaaatcgtaacctattactatcatgagcaattaacctacgctcagttccaataaattacactcttttcgtaacttctttgcacaaagatgtaaaatttttttttatcgcgcaaatttttcaggcaaaaaaaattaacctacacataaccttagataacatagccttaacattgcatgaaattcggaggctgtatctttgccgtatcaaaaacaataaaaagtaaacagac Find is-nt database================================================ Query_seq: TF2281:TF2283|TF2281:TF2283:hypothetical protein:hypothetical protein:->->:2440056..2440405 350 tgagaagaaaaaattagggagattcatttcaaaatctcccgttttattgttacttttgcatacgaagagttctttgaaggttacgcaacgcgcagaaggatgatgcagtagataactaactaaatcgtaacctattactatcatgagcaattaacctacgctcagttccaataaattacactcttttcgtaacttctttgcacaaagatgtaaaatttttttttatcgcgcaaatttttcaggcaaaaaaaattaacctacacataaccttagataacatagccttaacattgcatgaaattcggaggctgtatctttgccgtatcaaaaacaataaaaagtaaacagac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2281:TF2283|TF2281:TF2283:hypothetical protein:hypothetical protein:->->:2440056..2440405 350 tgagaagaaaaaattagggagattcatttcaaaatctcccgttttattgttacttttgcatacgaagagttctttgaaggttacgcaacgcgcagaaggatgatgcagtagataactaactaaatcgtaacctattactatcatgagcaattaacctacgctcagttccaataaattacactcttttcgtaacttctttgcacaaagatgtaaaatttttttttatcgcgcaaatttttcaggcaaaaaaaattaacctacacataaccttagataacatagccttaacattgcatgaaattcggaggctgtatctttgccgtatcaaaaacaataaaaagtaaacagac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2281:TF2283|TF2281:TF2283:hypothetical protein:hypothetical protein:->->:2440056..2440405 350 tgagaagaaaaaattagggagattcatttcaaaatctcccgttttattgttacttttgcatacgaagagttctttgaaggttacgcaacgcgcagaaggatgatgcagtagataactaactaaatcgtaacctattactatcatgagcaattaacctacgctcagttccaataaattacactcttttcgtaacttctttgcacaaagatgtaaaatttttttttatcgcgcaaatttttcaggcaaaaaaaattaacctacacataaccttagataacatagccttaacattgcatgaaattcggaggctgtatctttgccgtatcaaaaacaataaaaagtaaacagac Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgagaagaaaaaattagggagattcatttcaaaatctcccgttttattgttacttttgcatacgaagagttctttgaaggttacgcaacgcgcagaaggatgatgcagtagataactaactaaatcgtaacctattactatcatgagcaattaacctacgctcagttccaataaattacactcttttcgtaacttctttgcacaaagatgtaaaatttttttttatcgcgcaaatttttcaggcaaaaaaaattaacctacacataaccttagataacatagccttaacattgcatgaaattcggaggctgtatctttgccgtatcaaaaacaataaaaagtaaacagac Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: + Start: 13 End: 108 ............ M R E I H F K I S R F I V T F A Y E E F F E G Y A T R R R M M Q .................................................................................................................................................................................................................................................. Protein_Len: 60 Strand: + Start: 150 End: 341 ..................................................................................................................................................... M N L R S V P I N Y T L F V T S L H K D V K F F F I A Q I F Q A K K I N L H I T L D N I A L T L H E I R R L Y L C R I K ......... Protein_Len: 31 Strand: - Start: 242 End: 334 ................................................................................................................................................................................................................................................. A F F I L R C M V K S L M A K V N C S I R L S Y R Q R I L F M ................ Protein_Len: 50 Strand: - Start: 1 End: 150 S F F F N P L N M E F D G T K N N S K C V F L E K F T V C R A S P H H L L Y S V L D Y G I V I M L M ........................................................................................................................................................................................................ tgagaagaaaaaattagggagattcatttcaaaatctcccgttttattgttacttttgcatacgaagagttctttgaaggttacgcaacgcgcagaaggatgatgcagtagataactaactaaatcgtaacctattactatcatgagcaattaacctacgctcagttccaataaattacactcttttcgtaacttctttgcacaaagatgtaaaatttttttttatcgcgcaaatttttcaggcaaaaaaaattaacctacacataaccttagataacatagccttaacattgcatgaaattcggaggctgtatctttgccgtatcaaaaacaataaaaagtaaacagac 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================================================ tgagaagaaaaaattagggagattcatttcaaaatctcccgttttattgttacttttgcatacgaagagttctttgaaggttacgcaacgcgcagaaggatgatgcagtagataactaactaaatcgtaacctattactatcatgagcaattaacctacgctcagttccaataaattacactcttttcgtaacttctttgcacaaagatgtaaaatttttttttatcgcgcaaatttttcaggcaaaaaaaattaacctacacataaccttagataacatagccttaacattgcatgaaattcggaggctgtatctttgccgtatcaaaaacaataaaaagtaaacagac Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 71 HP_score: -7.5 Tail_Score: -3.53281 Start: 17 End: 40 Full_Region: aagtaacaataaaac gggagattt tgaaat gaatctccc taattttttcttctc ................gggagattttgaaatgaatctccc...................................................................................................................................................................................................................................................................................................................... Find igs database================================================ Query_seq: TF2281:TF2283|TF2281:TF2283:hypothetical protein:hypothetical protein:->->:2440056..2440405 350 tgagaagaaaaaattagggagattcatttcaaaatctcccgttttattgttacttttgcatacgaagagttctttgaaggttacgcaacgcgcagaaggatgatgcagtagataactaactaaatcgtaacctattactatcatgagcaattaacctacgctcagttccaataaattacactcttttcgtaacttctttgcacaaagatgtaaaatttttttttatcgcgcaaatttttcaggcaaaaaaaattaacctacacataaccttagataacatagccttaacattgcatgaaattcggaggctgtatctttgccgtatcaaaaacaataaaaagtaaacagac Intra-Species Hit: Count: 1 Min: 1 Max: 350 Len: 350 Subject: tfor_TF2281_TF2283|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[2440056,2440405]|350 HSP 1 e-value: 1.0E-168 bit: 593.0 Len: 350 Query Start:1 Query End:350 Subject Strand: POSITIVE Subject Start: 1 Subject End: 350 tgagaagaaaaaattagggagattcatttcaaaatctcccgttttattgttacttttgcatacgaagagttctttgaaggttacgcaacgcgcagaaggatgatgcagtagataactaactaaatcgtaacctattactatcatgagcaattaacctacgctcagttccaataaattacactcttttcgtaacttctttgcacaaagatgtaaaannnnnnnnnatcgcgcaaatttttcaggcnnnnnnnnttaacctacacataaccttagataacatagccttaacattgcatgaaattcggaggctgtatctttgccgtatcaaaaacaataaaaagtaaacagac tgagaagaaaaaattagggagattcatttcaaaatctcccgttttattgttacttttgcatacgaagagttctttgaaggttacgcaacgcgcagaaggatgatgcagtagataactaactaaatcgtaacctattactatcatgagcaattaacctacgctcagttccaataaattacactcttttcgtaacttctttgcacaaagatgtaaaatttttttttatcgcgcaaatttttcaggcaaaaaaaattaacctacacataaccttagataacatagccttaacattgcatgaaattcggaggctgtatctttgccgtatcaaaaacaataaaaagtaaacagac Inter-species Hit: Count: 3 Min: 49 Max: 196 Len: 148 Subject: NC_006347_BF0102_BF0103|hypothetical protein:hypothetical protein|POSITIVE:NEGATIVE|[114504,114771]|268 HSP 1 e-value: 6.0E-54 bit: 212.0 Len: 119 Query Start:78 Query End:196 Subject Strand: NEGATIVE Subject Start: 150 Subject End: 268 .............................................................................aggttacgcaacgcgcagaaggatgatgcagtagataactaactaaatcgtaacctattactatcatgagcaattaacctacgctcagttccaataaattacactcttttcgtaacttc.......................................................................................................................................................... .............................................................................aggttacgcaacgcgcagaaggataatgcagtagataactaactaaatcgtaacctattactatcaagagcaattaacctacgctcatttccaataaattacactcttttcgtaacttc.......................................................................................................................................................... Subject: NC_006347_BF3684_BF3685|hypothetical protein:putative acetyltransferase|POSITIVE:POSITIVE|[4193959, 4194398]|440 HSP 1 e-value: 4.0E-49 bit: 196.0 Len: 147 Query Start:49 Query End:195 Subject Strand: POSITIVE Subject Start: 239 Subject End: 385 ................................................gttacttttgcatacgaagagttctttgaaggttacgcaacgcgcagaaggatgatgcagtagataactaactaaatcgtaacctattactatcatgagcaattaacctacgctcagttccaataaattacactcttttcgtaactt........................................................................................................................................................... ................................................gttatttttgcatacgaagagttctttgatggttacgcaatgtgcagaaggataatgcagtagataactaaccaaatcgtaacctattactatcaagagcgattaacctatgctcatttccaataaattacactattttcataactt........................................................................................................................................................... Subject: NC_006347_BF1779_BF1780|hypothetical protein:hypothetical protein|NEGATIVE:POSITIVE|[2094232,2095227]|996 HSP 1 e-value: 3.0E-43 bit: 176.0 Len: 133 Query Start:64 Query End:196 Subject Strand: POSITIVE Subject Start: 268 Subject End: 400 ...............................................................gaagagttctttgaaggttacgcaacgcgcagaaggatgatgcagtagataactaactaaatcgtaacctattactatcatgagcaattaacctacgctcagttccaataaattacactcttttcgtaacttc.......................................................................................................................................................... ...............................................................gaagagtcctttgaaggttacgcaacacacagaaaaataatgcagtagataactaactaaatcgtaacctattactattatgagcaattaacctatgctcatttcccataaattacactcttttcgtagcttc.......................................................................................................................................................... Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUUACUUUUGCAUACGAAGAGUUCUUUGAAGGUUACGCAACGCGCAGAAGGAUGAUGCAGUAGAUAACUAACUAAAUCGUAACCUAUUACUAUCAUGAGCAAUUAACCUACGCUCAGUUCCAAUAAAUUACACUCUUUUCGUAACUUC ............(((((((((........((((((((....(((((......)).)))..(((....))).......))))))))..........(((((...........)))))..................)))))))))..... (-28.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAAGUUACGAAAAGAGUGUAAUUUAUUGGAACUGAGCGUAGGUUAAUUGCUCAUGAUAGUAAUAGGUUACGAUUUAGUUAGUUAUCUACUGCAUCAUCCUUCUGCGCGUUGCGUAACCUUCAAAGAACUCUUCGUAUGCAAAAGUAAC ...(((((((..(((((..........(((..((((((.........)))))).(((.(((.(((((.((..........)).))))).)))))).)))...(((((...)))))...........)))))))))).))......... (-31.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 332 70 21 102 57 tfor:TF3056|5end_conserved_hypothetical_protein_3279444..3279674_POSITIVE 305 51 28 70 42 tfor:TF1449|5end_RNA_polymerase_sigma_factor,_RpoD_1533124..1533354_POSITIVE 298 58 21 45 1 tfor:TF0410|5end_8-amino-7-oxononanoate_synthase_427605..427835_POSITIVE 290 70 21 65 8 tfor:TF2185|5end_outer_membrane_protein,_TonB_dependent_receptor_2357262..2357492_POSITIVE 290 58 13 174 134 tfor:TF2083|5end_conserved_hypothetical_protein_2250834..2251064_POSITIVE 288 50 4 195 150 tfor:TF2437|5end_elongation_factor_P_2615104..2615334_POSITIVE 287 59 16 52 10 tfor:TF2220|5end_CTn_integrase-recombinase_protein_2392424..2392654_POSITIVE 282 60 11 49 1 tfor:TF0377|5end_FtsK/SpoIIIE_family_cell_division_protein_394944..395174_POSITIVE 280 72 31 53 5 tfor:TF2931|5end_3-deoxy-D-manno-2-octulosonic_acid_(Kdo_transferase)_3134275..3134505_POSITIVE 279 47 4 211 175 tfor:TF2520|5end_conserved_hypothetical_protein_2698917..2699147_POSITIVE 276 50 7 198 146 tfor:TF0429|5end_ABC_transporter,_ATP-binding_protein_450177..450407_POSITIVE 274 58 14 163 108 tfor:TF0995|5end_conserved_hypothetical_protein_1049695..1049925_POSITIVE 273 58 14 97 48 tfor:TF3039|5end_ABC_transporter,_ATP-binding_protein_3265731..3265961_POSITIVE 272 80 31 104 52 tfor:TF1201|5end_possible_preprotein_translocase_1283732..1283962_POSITIVE 270 60 14 189 141 tfor:TF1918|5end_hypothetical_protein_2069864..2070094_POSITIVE 268 45 6 226 190 tfor:TF2795|5end_hypothetical_protein_2980602..2980832_POSITIVE 267 50 5 180 141 tfor:TF3077|5end_tonB-dependent_receptor_HmuY_3305033..3305263_POSITIVE 267 55 15 94 52 tfor:TF2582|5end_ABC_transporter,_ATP-binding_protein_2749433..2749663_POSITIVE 266 60 11 66 2 tfor:TF3008|5end_zinc_protease_3228041..3228271_POSITIVE 266 80 31 98 51 tfor:TF0230|5end_hydrolase,_haloacid_dehalogenase-like_family_256982..257212_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 335 45 5 150 105 tfor:TF1716|3end_hypothetical_protein_1837710..1837860_POSITIVE 297 50 2 72 24 tfor:TF0529|3end_transposase_556193..556343_POSITIVE 288 50 4 147 102 tfor:TF2435|3end_DNA_repair_protein_radC_2615136..2615286_POSITIVE 282 60 11 49 1 tfor:TF0376|3end_conserved_hypothetical_protein_395024..395174_POSITIVE 280 72 31 50 2 tfor:TF2930|3end_glutamyl-tRNA_synthetase_3134352..3134502_POSITIVE 280 66 27 65 13 tfor:TF0825|3end_hypothetical_protein_883850..884000_POSITIVE 273 58 14 85 36 tfor:TF3038|3end_conserved_hypothetical_protein_3265799..3265949_POSITIVE 272 80 31 90 38 tfor:TF1200|3end_conserved_hypothetical_protein_1283798..1283948_POSITIVE 271 65 24 90 49 tfor:TF2173|3end_hypothetical_protein_2346063..2346213_POSITIVE 271 44 6 55 27 tfor:TF0777|3end_1,4-dihydroxy-2-naphthoate_octaprenyltransferase_827053..827203_POSITIVE 269 79 36 55 13 tfor:TF0365|3end_hypothetical_protein_383152..383302_POSITIVE 267 60 15 82 43 tfor:TF1665|3end_conserved_hypothetical_protein_1779578..1779728_POSITIVE 263 70 36 44 11 tfor:TF0360|3end_hypothetical_protein_379538..379688_POSITIVE 255 58 14 48 4 tfor:TF1314|3end_conserved_hypothetical_protein_1390302..1390452_POSITIVE 255 46 6 55 4 tfor:TF1227|3end_hypothetical_protein_1314231..1314381_POSITIVE 253 80 35 91 42 tfor:TF2166|3end_hypothetical_protein_2342362..2342512_POSITIVE 253 48 9 52 1 tfor:TF0694|3end_possible_hemolysin,_acyltransferase_family_739101..739251_POSITIVE 253 80 35 91 42 tfor:TF0366|3end_hypothetical_protein_383811..383961_POSITIVE 253 80 35 91 42 tfor:TF0362|3end_hypothetical_protein_380199..380349_POSITIVE 252 52 13 65 29 tfor:TF3089|3end_ISPg2_(PGIS2)_transposase_3324140..3324290_POSITIVE