Origin IGS: catagccgatgaaaaatgcttttctccgaatttcgggaaactcttggctgtcatctgtccgaaagctggcgtggctgccaaacttgcgagcagaaggcctgatgcataaataaaatgtttcatgtttaaaatgatttaaagtaaaaattgatttttatttaataataatatcttta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaagatattattattaaataaaaatcaatttttactttaaatcattttaaacatgaaacattttatttatgcatcaggccttctgctcgcaagtttggcagccacgccagctttcggacagatgacagccaagagtttcccgaaattcggagaaaagcatttttcatcggctatg Mask Tandem Repeat Region ================================================ catagccgatgaaaaatgcttttctccgaatttcgggaaactcttggctgtcatctgtccgaaagctggcgtggctgccaaacttgcgagcagaaggcctgatgcataaataaaatgtttcatgtttaaaatgatttaaagtaaaaattgatttttatttaataataatatcttta Find is-nt database================================================ Query_seq: PI0428:PI0429|PI0428:PI0429:hypothetical protein:hypothetical protein:->->:396382..396557 176 catagccgatgaaaaatgcttttctccgaatttcgggaaactcttggctgtcatctgtccgaaagctggcgtggctgccaaacttgcgagcagaaggcctgatgcataaataaaatgtttcatgtttaaaatgatttaaagtaaaaattgatttttatttaataataatatcttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0428:PI0429|PI0428:PI0429:hypothetical protein:hypothetical protein:->->:396382..396557 176 catagccgatgaaaaatgcttttctccgaatttcgggaaactcttggctgtcatctgtccgaaagctggcgtggctgccaaacttgcgagcagaaggcctgatgcataaataaaatgtttcatgtttaaaatgatttaaagtaaaaattgatttttatttaataataatatcttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0428:PI0429|PI0428:PI0429:hypothetical protein:hypothetical protein:->->:396382..396557 176 catagccgatgaaaaatgcttttctccgaatttcgggaaactcttggctgtcatctgtccgaaagctggcgtggctgccaaacttgcgagcagaaggcctgatgcataaataaaatgtttcatgtttaaaatgatttaaagtaaaaattgatttttatttaataataatatcttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 catagccgatgaaaaatgcttttctccgaatttcgggaaactcttggctgtcatctgtccgaaagctggcgtggctgccaaacttgcgagcagaaggcctgatgcataaataaaatgtttcatgtttaaaatgatttaaagtaaaaattgatttttatttaataataatatcttta Predict ORF larger than 30AA ================================================ Protein_Len: 35 Strand: + Start: 2 End: 106 . M A D E K C F S P N F G K L L A V I C P K A G V A A K L A S R R P D A ...................................................................... Protein_Len: 34 Strand: + Start: 9 End: 110 ........ M K N A F L R I S G N S W L S S V R K L A W L P N L R A E G L M H K .................................................................. Protein_Len: 49 Strand: - Start: 2 End: 148 . Y G I F F A K R R I E P F E Q S D D T R F S A H S G F K R A S P R I C L Y F T E H K F H N L T F M ............................ Protein_Len: 45 Strand: - Start: 1 End: 135 M A S S F H K E G F K P F S K A T M Q G F A P T A A L S A L L L G S A Y I F H K M N L I M ......................................... catagccgatgaaaaatgcttttctccgaatttcgggaaactcttggctgtcatctgtccgaaagctggcgtggctgccaaacttgcgagcagaaggcctgatgcataaataaaatgtttcatgtttaaaatgatttaaagtaaaaattgatttttatttaataataatatcttta 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================================================ catagccgatgaaaaatgcttttctccgaatttcgggaaactcttggctgtcatctgtccgaaagctggcgtggctgccaaacttgcgagcagaaggcctgatgcataaataaaatgtttcatgtttaaaatgatttaaagtaaaaattgatttttatttaataataatatcttta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0428:PI0429|PI0428:PI0429:hypothetical protein:hypothetical protein:->->:396382..396557 176 catagccgatgaaaaatgcttttctccgaatttcgggaaactcttggctgtcatctgtccgaaagctggcgtggctgccaaacttgcgagcagaaggcctgatgcataaataaaatgtttcatgtttaaaatgatttaaagtaaaaattgatttttatttaataataatatcttta Intra-Species Hit: Count: 1 Min: 1 Max: 105 Len: 105 Subject: pint_PI0428_PI0429|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[396382,396557]|176 HSP 1 e-value: 5.0E-53 bit: 208.0 Len: 105 Query Start:1 Query End:105 Subject Strand: POSITIVE Subject Start: 1 Subject End: 105 catagccgatgaaaaatgcttttctccgaatttcgggaaactcttggctgtcatctgtccgaaagctggcgtggctgccaaacttgcgagcagaaggcctgatgc....................................................................... catagccgatgaaaaatgcttttctccgaatttcgggaaactcttggctgtcatctgtccgaaagctggcgtggctgccaaacttgcgagcagaaggcctgatgc....................................................................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CAUAGCCGAUGAAAAAUGCUUUUCUCCGAAUUUCGGGAAACUCUUGGCUGUCAUCUGUCCGAAAGCUGGCGUGGCUGCCAAACUUGCGAGCAGAAGGCCUGAUGC ...((((((.(((((....))))).(((.....))).......))))))(((.((((..((.(((.(((((....)))))..))).))..)))).)))....... (-29.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GCAUCAGGCCUUCUGCUCGCAAGUUUGGCAGCCACGCCAGCUUUCGGACAGAUGACAGCCAAGAGUUUCCCGAAAUUCGGAGAAAAGCAUUUUUCAUCGGCUAUG ((....(((..((((..((.(((((.(((......)))))))).))..)))).....)))..(..(((((((.....))).))))..)...........)).... (-31.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 443 99 53 62 9 pint:PI0301|5end_probable_transposase_285672..285902_POSITIVE 387 80 31 210 147 pint:PI1262|5end_ISPg3-related_transposase,_C-terminal_region_1183967..1184197_POSITIVE 370 99 52 68 19 pint:PI0602|5end_conserved_hypothetical_protein_549099..549329_POSITIVE 368 90 44 126 60 pint:PI1642|5end_conserved_hypothetical_protein_1558800..1559030_POSITIVE 363 99 52 59 1 pint:PI2144|5end_hypothetical_protein_2091954..2092184_POSITIVE 356 99 52 82 35 pint:PI0431|5end_Xaa-Pro_aminopeptidase_403064..403294_POSITIVE 353 98 54 207 166 pint:PI0737|5end_hypothetical_protein_671182..671412_POSITIVE 351 79 34 225 181 pint:PI2074|5end_conserved_hypothetical_protein_2033660..2033890_POSITIVE 351 89 43 52 7 pint:PI1637|5end_hypothetical_protein_1554500..1554730_POSITIVE 349 79 36 199 149 pint:PI2104|5end_carboxyl-terminal_protease_2057910..2058140_POSITIVE 349 80 32 183 136 pint:PI0355|5end_probable__N-acetylmuramoyl-L-alanine_amidase_326157..326387_POSITIVE 343 99 52 71 13 pint:PI1934|5end_hypothetical_protein_1882363..1882593_POSITIVE 343 99 52 120 62 pint:PI0055|5end_hypothetical_protein_54815..55045_POSITIVE 342 89 41 104 41 pint:PI0729|5end_integrase_661428..661658_POSITIVE 340 100 51 57 3 pint:PI1636|5end_hypothetical_protein_1554246..1554476_POSITIVE 340 89 44 227 183 pint:PI1377|5end_cAMP-binding_domain_protein_(cyclic_nucleotide-binding_domain)_1299289..1299519_POSITIVE 340 80 33 60 13 pint:PI0906|5end_hypothetical_protein_835653..835883_POSITIVE 339 79 31 205 140 pint:PI0331|5end_hypothetical_protein_311656..311886_POSITIVE 336 88 43 128 77 pint:PI2062|5end_type_I_restriction-modification_system_2021658..2021888_POSITIVE 334 99 52 156 104 pint:PI2121|5end_glucose_inhibited_division_protein_A_2069889..2070119_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 443 99 53 71 18 pint:PI0300|3end_transposase_285761..285911_POSITIVE 384 89 45 133 85 pint:PI1547|3end_hypothetical_protein_1466226..1466376_POSITIVE 370 89 41 118 47 pint:PI0242|3end_hypothetical_protein_240227..240377_POSITIVE 368 90 44 129 63 pint:PI1641|3end_hypothetical_protein_1558883..1559033_POSITIVE 349 79 36 143 93 pint:PI2103|3end_hypothetical_protein_2057934..2058084_POSITIVE 346 86 44 134 101 pint:PI1349|3end_polysaccharide_export_protein_1265720..1265870_POSITIVE 342 89 41 104 41 pint:PI0728|3end_integrase_661508..661658_POSITIVE 341 90 42 67 14 pint:PI1494|3end_conserved_hypothetical_protein_1413968..1414118_POSITIVE 337 75 34 125 75 pint:PI0056|3end_conserved_hypothetical_protein;_possible_DNA_uptake_protein_55907..56057_POSITIVE 333 99 60 54 1 pint:PI0054|3end_hypothetical_protein_54829..54979_POSITIVE 329 99 52 125 89 pint:PI0182|3end_hypothetical_protein_174277..174427_POSITIVE 328 88 46 118 80 pint:PI1623|3end_hypothetical_protein_1549261..1549411_POSITIVE 328 88 46 148 110 pint:PI0331|3end_hypothetical_protein_312575..312725_POSITIVE 328 88 46 118 80 pint:PI0330|3end_hypothetical_protein_312545..312695_POSITIVE 324 100 51 142 102 pint:PI1906|3end_zinc_protease,_immunoreactive_106_kDa_antigen_PG115_1850901..1851051_POSITIVE 324 78 31 120 71 pint:PI0528|3end_hypothetical_protein_483122..483272_POSITIVE 323 89 44 63 14 pint:PI0166|3end_hypothetical_protein_161258..161408_POSITIVE 322 95 52 132 86 pint:PI1723|3end_conserved_hypothetical_protein_1642133..1642283_POSITIVE 320 98 53 76 30 pint:PI0249|3end_conserved_hypothetical_protein_247026..247176_POSITIVE 315 87 42 43 2 pint:PI1363|3end_hypothetical_protein_1281922..1282072_POSITIVE