Origin IGS: agcgcagttatcactttttaacagaattatttaaggaaaaatagaacaaaactacaccgtcagcttactgcatatttcagcctgtatgattgtagttttgattcttttatta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taataaaagaatcaaaactacaatcatacaggctgaaatatgcagtaagctgacggtgtagttttgttctatttttccttaaataattctgttaaaaagtgataactgcgct Mask Tandem Repeat Region ================================================ agcgcagttatcactttttaacagaattatttaaggaaaaatagaacaaaactacaccgtcagcttactgcatatttcagcctgtatgattgtagttttgattcttttatta Find is-nt database================================================ Query_seq: PI0551:PI0552|PI0551:PI0552:hypothetical protein:hypothetical protein:->->:502744..502855 112 agcgcagttatcactttttaacagaattatttaaggaaaaatagaacaaaactacaccgtcagcttactgcatatttcagcctgtatgattgtagttttgattcttttatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0551:PI0552|PI0551:PI0552:hypothetical protein:hypothetical protein:->->:502744..502855 112 agcgcagttatcactttttaacagaattatttaaggaaaaatagaacaaaactacaccgtcagcttactgcatatttcagcctgtatgattgtagttttgattcttttatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0551:PI0552|PI0551:PI0552:hypothetical protein:hypothetical protein:->->:502744..502855 112 agcgcagttatcactttttaacagaattatttaaggaaaaatagaacaaaactacaccgtcagcttactgcatatttcagcctgtatgattgtagttttgattcttttatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 agcgcagttatcactttttaacagaattatttaaggaaaaatagaacaaaactacaccgtcagcttactgcatatttcagcctgtatgattgtagttttgattcttttatta Predict ORF larger than 30AA ================================================ agcgcagttatcactttttaacagaattatttaaggaaaaatagaacaaaactacaccgtcagcttactgcatatttcagcctgtatgattgtagttttgattcttttatta 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================================================ agcgcagttatcactttttaacagaattatttaaggaaaaatagaacaaaactacaccgtcagcttactgcatatttcagcctgtatgattgtagttttgattcttttatta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0551:PI0552|PI0551:PI0552:hypothetical protein:hypothetical protein:->->:502744..502855 112 agcgcagttatcactttttaacagaattatttaaggaaaaatagaacaaaactacaccgtcagcttactgcatatttcagcctgtatgattgtagttttgattcttttatta Intra-Species Hit: Count: 1 Min: 1 Max: 112 Len: 112 Subject: pint_PI0551_PI0552|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[502744,502855]|112 HSP 1 e-value: 2.0E-57 bit: 222.0 Len: 112 Query Start:1 Query End:112 Subject Strand: POSITIVE Subject Start: 1 Subject End: 112 agcgcagttatcactttttaacagaattatttaaggaaaaatagaacaaaactacaccgtcagcttactgcatatttcagcctgtatgattgtagttttgattcttttatta agcgcagttatcactttttaacagaattatttaaggaaaaatagaacaaaactacaccgtcagcttactgcatatttcagcctgtatgattgtagttttgattcttttatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGCGCAGUUAUCACUUUUUAACAGAAUUAUUUAAGGAAAAAUAGAACAAAACUACACCGUCAGCUUACUGCAUAUUUCAGCCUGUAUGAUUGUAGUUUUGAUUCUUUUAUUA ......((((........)))).................((.((((((((((((((..((((...(((.((........))..))))))))))))))))).)))).)).... (-19.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUAAAAGAAUCAAAACUACAAUCAUACAGGCUGAAAUAUGCAGUAAGCUGACGGUGUAGUUUUGUUCUAUUUUUCCUUAAAUAAUUCUGUUAAAAAGUGAUAACUGCGCU .......((((.((((((((((.(((.....((((.......))))....)))...))))))))))))))...........................((((.......)))) (-20.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 440 32 1 123 92 pint:PI1702|5end_hypothetical_protein_1620587..1620817_POSITIVE 368 32 1 185 154 pint:PI1371|5end_hypothetical_protein_1292359..1292589_POSITIVE 368 32 1 231 200 pint:PI0211|5end_hypothetical_protein_204067..204297_POSITIVE 363 45 1 77 34 pint:PI1041|5end_hypothetical_protein_960443..960673_POSITIVE 316 32 1 50 19 pint:PI1540|5end_hypothetical_protein_1461362..1461592_POSITIVE 302 92 52 179 123 pint:PI0088|5end_S-adenosylmethionine_synthetase_86663..86893_POSITIVE 299 32 1 163 132 pint:PI0867|5end_hypothetical_protein_803859..804089_POSITIVE 299 32 1 80 49 pint:PI0866|5end_hypothetical_protein_803776..804006_POSITIVE 295 44 1 120 78 pint:PI0659|5end_hypothetical_protein_603203..603433_POSITIVE 290 46 1 84 40 pint:PI1064|5end_hypothetical_protein_983071..983301_POSITIVE 286 32 1 124 92 pint:PI2022|5end_hypothetical_protein_1978631..1978861_POSITIVE 286 32 1 78 46 pint:PI2023|5end_hypothetical_protein_1978585..1978815_POSITIVE 286 99 55 114 69 pint:PI1820|5end_hypothetical_protein_1759962..1760192_POSITIVE 276 99 52 98 47 pint:PI1477|5end_TonB-dependent_outer_membrane_receptor_1399734..1399964_POSITIVE 273 99 58 74 20 pint:PI1758|5end_hypothetical_protein_1683207..1683437_POSITIVE 265 32 1 104 73 pint:PI0089|5end_hypothetical_protein_88162..88392_POSITIVE 257 100 57 95 57 pint:PI0342|5end_hypothetical_protein_317556..317786_POSITIVE 257 100 57 44 6 pint:PI0343|5end_hypothetical_protein_317505..317735_POSITIVE 249 25 1 27 5 pint:PI0884|5end_hypothetical_protein_817302..817532_POSITIVE 248 85 57 35 4 pint:PI0527|5end_outer_membrane_efflux_protein_482375..482605_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 381 32 1 33 2 pint:PI0010|3end_conserved_hypothetical_protein_11679..11829_POSITIVE 286 32 1 44 12 pint:PI2021|3end_DNA_repair_protein_1978631..1978781_POSITIVE 279 89 57 112 79 pint:PI0036|3end_glutathione_peroxidase_39289..39439_POSITIVE 257 100 57 74 36 pint:PI0341|3end_conserved_hypothetical_protein_317615..317765_POSITIVE 256 100 54 74 33 pint:PI1636|3end_hypothetical_protein_1554823..1554973_POSITIVE 245 100 52 53 1 pint:PI0379|3end_conserved_hypothetical_protein_350239..350389_POSITIVE 243 97 54 86 35 pint:PI1633|3end_hypothetical_protein_1552955..1553105_POSITIVE 240 84 55 56 30 pint:PI2016|3end_ribosomal_large_subunit_pseudouridine_synthase_D_1974933..1975083_POSITIVE 238 72 42 46 2 pint:PI0571|3end_conserved_hypothetical_protein;_possible_permease_516449..516599_POSITIVE 238 47 1 144 98 pint:PI0567|3end_hypothetical_protein_513055..513205_POSITIVE 238 102 62 120 78 pint:PI0421|3end_hypothetical_protein_387774..387924_POSITIVE 237 88 51 51 8 pint:PI1789|3end_hypothetical_protein_1719037..1719187_POSITIVE 236 87 44 84 37 pint:PI0743|3end_hypothetical_protein_673026..673176_POSITIVE 236 83 52 150 113 pint:PI0087|3end_conserved_hypothetical_protein_86733..86883_POSITIVE 235 89 49 148 116 pint:PI1448|3end_hypothetical_protein_1371832..1371982_POSITIVE 235 99 63 46 15 pint:PI1040|3end_8-amino-7-oxononanoate_synthase_960202..960352_POSITIVE 234 57 11 52 3 pint:PI1379|3end_hypothetical_protein_1302292..1302442_POSITIVE 230 69 21 99 62 pint:PI0451|3end_serine_proteases,__S51_group_425127..425277_POSITIVE 229 96 53 92 48 pint:PI1485|3end_hypothetical_protein_1405339..1405489_POSITIVE 228 98 54 43 3 pint:PI1549|3end_conserved_hypothetical_protein_1467382..1467532_POSITIVE