Origin IGS: ctacggaagattgaagagaatacaggcaatagtgctgcttcattgaaagagataggtgctgatgtgaaaaaaatgattagggacggagtaaaagttagataagt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 acttatctaacttttactccgtccctaatcatttttttcacatcagcacctatctctttcaatgaagcagcactattgcctgtattctcttcaatcttccgtag Mask Tandem Repeat Region ================================================ ctacggaagattgaagagaatacaggcaatagtgctgcttcattgaaagagataggtgctgatgtgaaaaaaatgattagggacggagtaaaagttagataagt Find is-nt database================================================ Query_seq: PI1655:PI1656|PI1655:PI1656:hypothetical protein:hypothetical protein:->->:1570278..1570381 104 ctacggaagattgaagagaatacaggcaatagtgctgcttcattgaaagagataggtgctgatgtgaaaaaaatgattagggacggagtaaaagttagataagt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1655:PI1656|PI1655:PI1656:hypothetical protein:hypothetical protein:->->:1570278..1570381 104 ctacggaagattgaagagaatacaggcaatagtgctgcttcattgaaagagataggtgctgatgtgaaaaaaatgattagggacggagtaaaagttagataagt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1655:PI1656|PI1655:PI1656:hypothetical protein:hypothetical protein:->->:1570278..1570381 104 ctacggaagattgaagagaatacaggcaatagtgctgcttcattgaaagagataggtgctgatgtgaaaaaaatgattagggacggagtaaaagttagataagt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ctacggaagattgaagagaatacaggcaatagtgctgcttcattgaaagagataggtgctgatgtgaaaaaaatgattagggacggagtaaaagttagataagt Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: + Start: 10 End: 99 ......... M E E N T G N S A A S L K E I G A D V K K M I R D G V K V R * ..... ctacggaagattgaagagaatacaggcaatagtgctgcttcattgaaagagataggtgctgatgtgaaaaaaatgattagggacggagtaaaagttagataagt 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================================================ ctacggaagattgaagagaatacaggcaatagtgctgcttcattgaaagagataggtgctgatgtgaaaaaaatgattagggacggagtaaaagttagataagt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI1655:PI1656|PI1655:PI1656:hypothetical protein:hypothetical protein:->->:1570278..1570381 104 ctacggaagattgaagagaatacaggcaatagtgctgcttcattgaaagagataggtgctgatgtgaaaaaaatgattagggacggagtaaaagttagataagt Intra-Species Hit: Count: 1 Min: 1 Max: 104 Len: 104 Subject: pint_PI1655_PI1656|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[1570278,1570381]|104 HSP 1 e-value: 3.0E-40 bit: 165.0 Len: 104 Query Start:1 Query End:104 Subject Strand: POSITIVE Subject Start: 1 Subject End: 104 ctacggaagattgaagagaatacaggcaatagtgctgcttcattgaaagagataggtgctgatgtgnnnnnnntgattagggacggagtaaaagttagataagt ctacggaagattgaagagaatacaggcaatagtgctgcttcattgaaagagataggtgctgatgtgaaaaaaatgattagggacggagtaaaagttagataagt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUACGGAAGAUUGAAGAGAAUACAGGCAAUAGUGCUGCUUCAUUGAAAGAGAUAGGUGCUGAUGUGAAAAAAAUGAUUAGGGACGGAGUAAAAGUUAGAUAAGU ...(....)................(((.(((..((...((.((....))))..))..))).)))...........(((..(((.........)))...))).. (-12.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACUUAUCUAACUUUUACUCCGUCCCUAAUCAUUUUUUUCACAUCAGCACCUAUCUCUUUCAAUGAAGCAGCACUAUUGCCUGUAUUCUCUUCAAUCUUCCGUAG ...............................................................(((((((((....)).)))).)))................. ( -4.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 303 67 23 158 101 pint:PI0030|5end_transcriptional_regulator,_AsnC_family_34509..34739_POSITIVE 291 48 1 58 11 pint:PI0346|5end_hypothetical_protein_320834..321064_POSITIVE 285 69 22 83 25 pint:PI1723|5end_conserved_hypothetical_protein_1641649..1641879_POSITIVE 285 53 13 225 178 pint:PI0941|5end_hypothetical_protein_874443..874673_POSITIVE 285 67 27 94 46 pint:PI0096|5end_glycerol-3-phosphate_cytidylyltransferase_91885..92115_POSITIVE 281 70 25 64 13 pint:PI0871|5end_hypothetical_protein_806834..807064_POSITIVE 278 50 2 99 46 pint:PI0381|5end_probable_transcriptional_regulator,_AraC_family_350572..350802_POSITIVE 275 66 22 66 14 pint:PI0719|5end_conserved_hypothetical_protein_653043..653273_POSITIVE 266 59 12 125 66 pint:PI0406|5end_hypothetical_protein_372734..372964_POSITIVE 263 59 14 109 67 pint:PI1858|5end_conserved_hypothetical_protein_1804400..1804630_POSITIVE 262 85 42 135 97 pint:PI1991|5end_conserved_hypothetical_protein_1944611..1944841_POSITIVE 262 85 42 88 50 pint:PI1990|5end_hypothetical_protein_1944564..1944794_POSITIVE 262 60 11 61 18 pint:PI0234|5end_integrase_234473..234703_POSITIVE 260 54 15 116 79 pint:PI0936|5end_conserved_hypothetical_protein_868329..868559_POSITIVE 258 66 24 80 33 pint:PI0128|5end_dipeptidase,_pathogenicity_island-encoded_protein_D_120532..120762_POSITIVE 256 88 48 41 1 pint:PI0541|5end_GTP-binding_protein,_GTP1/OBG_family_493760..493990_POSITIVE 254 76 32 60 2 pint:PI0148|5end_mannose-1-phosphate_guanylyltransferase_141423..141653_POSITIVE 252 93 52 188 135 pint:PI0923|5end_6-phosphofructokinase_853316..853546_POSITIVE 248 44 4 172 134 pint:PI0927|5end_transglutaminase-related_protein_857283..857513_POSITIVE 248 66 25 79 32 pint:PI0590|5end_ribosomal_large_subunit_pseudouridine_synthase_B_536963..537193_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 303 67 23 107 50 pint:PI0029|3end_glutamine_amidotransferase_(GMP_synthase_(glutamine-hydrolyzing))_34538..34688_POSITIVE 293 59 13 140 84 pint:PI0940|3end_ribonuclease_G_874429..874579_POSITIVE 278 66 24 41 10 pint:PI0540|3end_conserved_hypothetical_protein_493865..494015_POSITIVE 275 66 22 63 11 pint:PI0717|3end_conserved_hypothetical_protein_653120..653270_POSITIVE 260 45 5 133 83 pint:PI0524|3end_meso-diaminopimelate_D-dehydrogenase_480849..480999_POSITIVE 256 66 21 141 79 pint:PI1062|3end_TPR_repeat_protein_980780..980930_POSITIVE 255 59 13 56 1 pint:PI0405|3end_hypothetical_protein_372745..372895_POSITIVE 254 88 45 148 103 pint:PI1736|3end_topoisomerase_IV,_subunit_A_1657090..1657240_POSITIVE 247 69 25 76 29 pint:PI2009|3end_ribosome-binding_factor_A_1969013..1969163_POSITIVE 246 66 25 141 97 pint:PI1623|3end_hypothetical_protein_1549261..1549411_POSITIVE 246 59 11 94 39 pint:PI1282|3end_ATP_synthase,_gamma_subunit_(F0F1-ATPase,_gamma_subunit)_1198269..1198419_POSITIVE 245 90 48 66 35 pint:PI2123|3end_adenine_phosphoribosyltransferase_2072324..2072474_POSITIVE 245 68 25 146 95 pint:PI1942|3end_hypothetical_protein_1901269..1901419_POSITIVE 242 65 23 122 75 pint:PI0024|3end_hypothetical_protein_28559..28709_POSITIVE 239 39 1 131 88 pint:PI0578|3end_methyltransferase_523253..523403_POSITIVE 236 58 24 52 16 pint:PI1708|3end_hypothetical_protein_1625562..1625712_POSITIVE 236 59 18 120 80 pint:PI1438|3end_penicillin_tolerance_protein/steroid_biosynthesis_1357275..1357425_POSITIVE 235 67 25 69 21 pint:PI1843|3end_hypothetical_protein_1788611..1788761_POSITIVE 234 68 23 137 80 pint:PI0660|3end_conserved_hypothetical_protein_603997..604147_POSITIVE 233 90 48 88 41 pint:PI1273|3end_anthranilate_synthase_component_II_1192955..1193105_POSITIVE