Origin IGS: taatgaactatcgccgtaggataactgccaaagcacaactattatcttagcaatacaagcgaaaaagggagaaaaagtgtaaatattttttatagccacaatcattgcataaccacttcgttatca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgataacgaagtggttatgcaatgattgtggctataaaaaatatttacactttttctccctttttcgcttgtattgctaagataatagttgtgctttggcagttatcctacggcgatagttcatta Mask Tandem Repeat Region ================================================ taatgaactatcgccgtaggataactgccaaagcacaactattatcttagcaatacaagcgaaaaagggagaaaaagtgtaaatattttttatagccacaatcattgcataaccacttcgttatca Find is-nt database================================================ Query_seq: PI1194:PI1195|PI1194:PI1195:DnaJ protein (Hsp-40):hypothetical protein:->->:1113185..1113310 126 taatgaactatcgccgtaggataactgccaaagcacaactattatcttagcaatacaagcgaaaaagggagaaaaagtgtaaatattttttatagccacaatcattgcataaccacttcgttatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1194:PI1195|PI1194:PI1195:DnaJ protein (Hsp-40):hypothetical protein:->->:1113185..1113310 126 taatgaactatcgccgtaggataactgccaaagcacaactattatcttagcaatacaagcgaaaaagggagaaaaagtgtaaatattttttatagccacaatcattgcataaccacttcgttatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1194:PI1195|PI1194:PI1195:DnaJ protein (Hsp-40):hypothetical protein:->->:1113185..1113310 126 taatgaactatcgccgtaggataactgccaaagcacaactattatcttagcaatacaagcgaaaaagggagaaaaagtgtaaatattttttatagccacaatcattgcataaccacttcgttatca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taatgaactatcgccgtaggataactgccaaagcacaactattatcttagcaatacaagcgaaaaagggagaaaaagtgtaaatattttttatagccacaatcattgcataaccacttcgttatca Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: + Start: 25 End: 126 ........................ M P K H N Y Y L S N T S E K G R K S V N I F Y S H N H C I T T S L S Protein_Len: 35 Strand: - Start: 1 End: 105 L S S D G Y S L Q W L V V I I K A I C A F F P S F T Y I N K I A V I M ..................... taatgaactatcgccgtaggataactgccaaagcacaactattatcttagcaatacaagcgaaaaagggagaaaaagtgtaaatattttttatagccacaatcattgcataaccacttcgttatca 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================================================ taatgaactatcgccgtaggataactgccaaagcacaactattatcttagcaatacaagcgaaaaagggagaaaaagtgtaaatattttttatagccacaatcattgcataaccacttcgttatca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI1194:PI1195|PI1194:PI1195:DnaJ protein (Hsp-40):hypothetical protein:->->:1113185..1113310 126 taatgaactatcgccgtaggataactgccaaagcacaactattatcttagcaatacaagcgaaaaagggagaaaaagtgtaaatattttttatagccacaatcattgcataaccacttcgttatca Intra-Species Hit: Count: 1 Min: 1 Max: 126 Len: 126 Subject: pint_PI1194_PI1195|DnaJ protein (Hsp-40):hypothetical protein|POSITIVE:POSITIVE|[1113185,1113310]|126 HSP 1 e-value: 9.0E-66 bit: 250.0 Len: 126 Query Start:1 Query End:126 Subject Strand: POSITIVE Subject Start: 1 Subject End: 126 taatgaactatcgccgtaggataactgccaaagcacaactattatcttagcaatacaagcgaaaaagggagaaaaagtgtaaatattttttatagccacaatcattgcataaccacttcgttatca taatgaactatcgccgtaggataactgccaaagcacaactattatcttagcaatacaagcgaaaaagggagaaaaagtgtaaatattttttatagccacaatcattgcataaccacttcgttatca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUGAACUAUCGCCGUAGGAUAACUGCCAAAGCACAACUAUUAUCUUAGCAAUACAAGCGAAAAAGGGAGAAAAAGUGUAAAUAUUUUUUAUAGCCACAAUCAUUGCAUAACCACUUCGUUAUCA (((((((.....((..((((((((.(((....)))......)))))))))).......((((.....((..((((((((....))))))))....)).......))))........)))))))... (-18.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAUAACGAAGUGGUUAUGCAAUGAUUGUGGCUAUAAAAAAUAUUUACACUUUUUCUCCCUUUUUCGCUUGUAUUGCUAAGAUAAUAGUUGUGCUUUGGCAGUUAUCCUACGGCGAUAGUUCAUUA .((((((...((((((((.........))))))))...............................(((.((((.((((......)))).))))...))).))))))................... (-20.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 330 94 59 92 56 pint:PI0024|5end_hypothetical_protein_28378..28608_POSITIVE 324 38 5 49 13 pint:PI0680|5end_hypothetical_protein_616958..617188_POSITIVE 315 94 55 144 102 pint:PI0949|5end_endonuclease_882264..882494_POSITIVE 297 94 55 183 141 pint:PI0038|5end_transcriptional_regulator,_LysR_family_39578..39808_POSITIVE 281 118 71 110 64 pint:PI0991|5end_conserved_hypothetical_protein_915309..915539_POSITIVE 277 80 44 63 26 pint:PI0185|5end_conserved_hypothetical_protein_176992..177222_POSITIVE 274 39 8 40 1 pint:PI0048|5end_conserved_hypothetical_protein_47119..47349_POSITIVE 263 36 3 64 24 pint:PI0356|5end_hypothetical_protein_326642..326872_POSITIVE 263 60 11 43 6 pint:PI0139|5end_pyridoxine_biosynthesis_protein_131835..132065_POSITIVE 263 40 2 78 32 pint:PI0122|5end_outer_membrane_protein,_ompH_family_113319..113549_POSITIVE 262 119 73 131 85 pint:PI0887|5end_hypothetical_protein_817536..817766_POSITIVE 255 60 11 115 57 pint:PI1115|5end_conserved_hypothetical_protein_1039244..1039474_POSITIVE 253 96 61 108 71 pint:PI0653|5end_hypothetical_protein_596046..596276_POSITIVE 248 39 5 76 43 pint:PI1980|5end_conserved_hypothetical_protein_1937470..1937700_POSITIVE 248 60 13 89 46 pint:PI1801|5end_30S_ribosomal_protein_S9_1733949..1734179_POSITIVE 248 120 75 187 141 pint:PI1272|5end_possible_transcriptional_regulator_1191702..1191932_POSITIVE 248 70 28 230 190 pint:PI0070|5end_conserved_hypothetical_protein_67653..67883_POSITIVE 246 96 54 200 155 pint:PI1253|5end_hypothetical_protein_1175516..1175746_POSITIVE 245 60 15 53 7 pint:PI1666|5end_conserved_hypothetical_protein_1579231..1579461_POSITIVE 245 96 52 219 172 pint:PI0821|5end_conserved_hypothetical_protein_760063..760293_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 297 94 55 141 99 pint:PI0037|3end_hypothetical_protein_39616..39766_POSITIVE 294 120 73 79 29 pint:PI0866|3end_hypothetical_protein_803993..804143_POSITIVE 278 108 61 55 6 pint:PI0568|3end_hypothetical_protein_513131..513281_POSITIVE 270 51 12 120 75 pint:PI0365|3end_hypothetical_protein_336118..336268_POSITIVE 262 119 73 78 32 pint:PI0885|3end_hypothetical_protein_817563..817713_POSITIVE 253 36 8 40 7 pint:PI0355|3end_probable__N-acetylmuramoyl-L-alanine_amidase_326698..326848_POSITIVE 251 120 74 79 32 pint:PI1041|3end_hypothetical_protein_960675..960825_POSITIVE 245 96 52 56 9 pint:PI0820|3end_hypothetical_protein_759980..760130_POSITIVE 245 53 11 146 106 pint:PI0160|3end_conserved_hypothetical_protein_153268..153418_POSITIVE 243 96 57 61 20 pint:PI0659|3end_hypothetical_protein_603396..603546_POSITIVE 242 118 77 105 63 pint:PI1064|3end_hypothetical_protein_983324..983474_POSITIVE 238 69 26 120 71 pint:PI0664|3end_dihydroorotate_dehydrogenase,_electron_transfer_subunit_607819..607969_POSITIVE 234 34 7 137 109 pint:PI1574|3end_conserved_hypothetical_protein_1501226..1501376_POSITIVE 234 118 73 65 20 pint:PI0095|3end_hypothetical_protein_91850..92000_POSITIVE 234 117 77 81 36 pint:PI0089|3end_hypothetical_protein_88355..88505_POSITIVE 233 56 11 73 38 pint:PI1622|3end_hypothetical_protein_1547230..1547380_POSITIVE 233 56 11 73 38 pint:PI0329|3end_hypothetical_protein_310514..310664_POSITIVE 227 118 71 77 30 pint:PI0118|3end_hypothetical_protein_111640..111790_POSITIVE 224 35 8 70 38 pint:PI0033|3end_peptidylprolyl_isomerase_37101..37251_POSITIVE 221 39 3 70 31 pint:PI0375|3end_hypothetical_protein_346082..346232_POSITIVE