Origin IGS: ttgatataaattgtattattacttaattttgttaatggaggcacaaatataactaaatttctcaggaaactccttattgtattatgctctttttgtattttttaagaataagcaggtcgataaaagtagtagaaatgtaagattataccattatcgaagttagactaagaagatgttattcatttatgtatgtagagaatatgccattaaaatgagttatgatatacatctttta .........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 taaaagatgtatatcataactcattttaatggcatattctctacatacataaatgaataacatcttcttagtctaacttcgataatggtataatcttacatttctactacttttatcgacctgcttattcttaaaaaatacaaaaagagcataatacaataaggagtttcctgagaaatttagttatatttgtgcctccattaacaaaattaagtaataatacaatttatatcaa Mask Tandem Repeat Region ================================================ ttgatataaattgtattattacttaattttgttaatggaggcacaaatataactaaatttctcaggaaactccttattgtattatgctctttttgtattttttaagaataagcaggtcgataaaagtagtagaaatgtaagattataccattatcgaagttagactaagaagatgttattcatttatgtatgtagagaatatgccattaaaatgagttatgatatacatctttta Find is-nt database================================================ Query_seq: PI0610:PI0611|PI0610:PI0611:conserved hypothetical protein:hypothetical protein:->->:559292..559526 235 ttgatataaattgtattattacttaattttgttaatggaggcacaaatataactaaatttctcaggaaactccttattgtattatgctctttttgtattttttaagaataagcaggtcgataaaagtagtagaaatgtaagattataccattatcgaagttagactaagaagatgttattcatttatgtatgtagagaatatgccattaaaatgagttatgatatacatctttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0610:PI0611|PI0610:PI0611:conserved hypothetical protein:hypothetical protein:->->:559292..559526 235 ttgatataaattgtattattacttaattttgttaatggaggcacaaatataactaaatttctcaggaaactccttattgtattatgctctttttgtattttttaagaataagcaggtcgataaaagtagtagaaatgtaagattataccattatcgaagttagactaagaagatgttattcatttatgtatgtagagaatatgccattaaaatgagttatgatatacatctttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0610:PI0611|PI0610:PI0611:conserved hypothetical protein:hypothetical protein:->->:559292..559526 235 ttgatataaattgtattattacttaattttgttaatggaggcacaaatataactaaatttctcaggaaactccttattgtattatgctctttttgtattttttaagaataagcaggtcgataaaagtagtagaaatgtaagattataccattatcgaagttagactaagaagatgttattcatttatgtatgtagagaatatgccattaaaatgagttatgatatacatctttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttgatataaattgtattattacttaattttgttaatggaggcacaaatataactaaatttctcaggaaactccttattgtattatgctctttttgtattttttaagaataagcaggtcgataaaagtagtagaaatgtaagattataccattatcgaagttagactaagaagatgttattcatttatgtatgtagagaatatgccattaaaatgagttatgatatacatctttta Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: + Start: 10 End: 102 ......... M V L L L N F V N G G T N I T K F L R K L L I V L C S F C I F ..................................................................................................................................... Protein_Len: 32 Strand: - Start: 3 End: 98 .. I Y I T N N S L K T L P P V F I V L N R L F S R I T N H E K Q M ......................................................................................................................................... ttgatataaattgtattattacttaattttgttaatggaggcacaaatataactaaatttctcaggaaactccttattgtattatgctctttttgtattttttaagaataagcaggtcgataaaagtagtagaaatgtaagattataccattatcgaagttagactaagaagatgttattcatttatgtatgtagagaatatgccattaaaatgagttatgatatacatctttta 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================================================ ttgatataaattgtattattacttaattttgttaatggaggcacaaatataactaaatttctcaggaaactccttattgtattatgctctttttgtattttttaagaataagcaggtcgataaaagtagtagaaatgtaagattataccattatcgaagttagactaagaagatgttattcatttatgtatgtagagaatatgccattaaaatgagttatgatatacatctttta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0610:PI0611|PI0610:PI0611:conserved hypothetical protein:hypothetical protein:->->:559292..559526 235 ttgatataaattgtattattacttaattttgttaatggaggcacaaatataactaaatttctcaggaaactccttattgtattatgctctttttgtattttttaagaataagcaggtcgataaaagtagtagaaatgtaagattataccattatcgaagttagactaagaagatgttattcatttatgtatgtagagaatatgccattaaaatgagttatgatatacatctttta Intra-Species Hit: Count: 1 Min: 1 Max: 235 Len: 235 Subject: pint_PI0610_PI0611|conserved hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[559292,559526]|235 HSP 1 e-value: 1.0E-130 bit: 466.0 Len: 235 Query Start:1 Query End:235 Subject Strand: POSITIVE Subject Start: 1 Subject End: 235 ttgatataaattgtattattacttaattttgttaatggaggcacaaatataactaaatttctcaggaaactccttattgtattatgctctttttgtattttttaagaataagcaggtcgataaaagtagtagaaatgtaagattataccattatcgaagttagactaagaagatgttattcatttatgtatgtagagaatatgccattaaaatgagttatgatatacatctttta ttgatataaattgtattattacttaattttgttaatggaggcacaaatataactaaatttctcaggaaactccttattgtattatgctctttttgtattttttaagaataagcaggtcgataaaagtagtagaaatgtaagattataccattatcgaagttagactaagaagatgttattcatttatgtatgtagagaatatgccattaaaatgagttatgatatacatctttta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUGAUAUAAAUUGUAUUAUUACUUAAUUUUGUUAAUGGAGGCACAAAUAUAACUAAAUUUCUCAGGAAACUCCUUAUUGUAUUAUGCUCUUUUUGUAUUUUUUAAGAAUAAGCAGGUCGAUAAAAGUAGUAGAAAUGUAAGAUUAUACCAUUAUCGAAGUUAGACUAAGAAGAUGUUAUUCAUUUAUGUAUGUAGAGAAUAUGCCAUUAAAAUGAGUUAUGAUAUACAUCUUUUA .((((((.....))))))....(((((((((.((((((.........(((((((..(((((((.(....)...((((((.....((((..((((..........))))..))))...)))))).....).))))))...)).))))))))))).)))))))))....(((((((((.((((((((((((((((.....))))).)))..))))))))........))))))))). (-42.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAAGAUGUAUAUCAUAACUCAUUUUAAUGGCAUAUUCUCUACAUACAUAAAUGAAUAACAUCUUCUUAGUCUAACUUCGAUAAUGGUAUAAUCUUACAUUUCUACUACUUUUAUCGACCUGCUUAUUCUUAAAAAAUACAAAAAGAGCAUAAUACAAUAAGGAGUUUCCUGAGAAAUUUAGUUAUAUUUGUGCCUCCAUUAACAAAAUUAAGUAAUAAUACAAUUUAUAUCAA .....((((((...................((((((.......(((......))).(((((...(((((((...(((((((((((.((((.................)))).)))))....(((((....................)))))...........))))))..))))))).....)))))...)))))).................(((....)))....)))))).. (-32.58) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 308 227 183 153 107 pint:PI1505|5end_2-amino-4-hydroxy-6-hydroxymethyldihydropteridine_pyrophosphokinase_1424922..1425152_POSITIVE 258 130 82 226 184 pint:PI1239|5end_possible_peptidase_C1-like_family_(aminopeptidase_C)_1163498..1163728_POSITIVE 251 159 111 53 4 pint:PI1507|5end_tRNA_pseudouridine_synthase_B_1426554..1426784_POSITIVE 236 89 41 167 115 pint:PI0331|5end_hypothetical_protein_311656..311886_POSITIVE 223 73 37 38 1 pint:PI1334|5end_ferrodoxin_1251404..1251634_POSITIVE 217 69 27 82 41 pint:PI0425|5end_hypothetical_protein_389454..389684_POSITIVE 216 160 115 63 12 pint:PI0929|5end_copper_homeostasis_protein_860294..860524_POSITIVE 211 158 111 106 48 pint:PI1697|5end_conserved_hypothetical_protein_1612217..1612447_POSITIVE 211 142 104 106 60 pint:PI1546|5end_mobilizable_transposon,_excision_protein_1464060..1464290_POSITIVE 210 96 64 33 1 pint:PI0398|5end_hypothetical_protein_363378..363608_POSITIVE 207 206 167 161 109 pint:PI1321|5end_conserved_hypothetical_protein_1239764..1239994_POSITIVE 206 133 95 159 122 pint:PI1176|5end_endonuclease_III_1098089..1098319_POSITIVE 206 148 112 98 60 pint:PI0008|5end_exoribonuclease_II_(ribonuclease_II)_7238..7468_POSITIVE 206 148 112 59 21 pint:PI0006|5end_hypothetical_protein_7199..7429_POSITIVE 205 206 174 145 111 pint:PI2000|5end_conserved_hypothetical_protein;_possible_membrane_protein_1958913..1959143_POSITIVE 203 147 112 196 149 pint:PI0962|5end_phosphoglycerate_mutase_892101..892331_POSITIVE 201 121 82 226 180 pint:PI1803|5end_conserved_hypothetical_protein_1735081..1735311_POSITIVE 200 130 85 208 161 pint:PI0995|5end_hypothetical_protein_920558..920788_POSITIVE 200 130 85 108 61 pint:PI0996|5end_hypothetical_protein_920458..920688_POSITIVE 198 141 110 84 57 pint:PI1571|5end_surface_antigen_BspA_1494765..1494995_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 308 227 183 55 9 pint:PI1504|3end_non-specific_DNA-binding_protein_1424904..1425054_POSITIVE 258 130 82 86 44 pint:PI1238|3end_single-strand_DNA-specific_exonuclease_1163438..1163588_POSITIVE 237 96 63 116 83 pint:PI0398|3end_hypothetical_protein_363541..363691_POSITIVE 231 120 84 137 91 pint:PI0378|3end_conserved_hypothetical_protein;_possible_helicase_349539..349689_POSITIVE 222 173 147 30 4 pint:PI0456|3end_30S_ribosomal_protein_S12_429219..429369_POSITIVE 213 93 64 32 6 pint:PI0658|3end_conserved_hypothetical_protein_603043..603193_POSITIVE 211 142 104 100 54 pint:PI1545|3end_conserved_hypothetical_protein_1464134..1464284_POSITIVE 210 230 192 135 101 pint:PI1587|3end_conserved_hypothetical_protein;_possible_permease_1516266..1516416_POSITIVE 207 206 167 78 26 pint:PI1320|3end_conserved_hypothetical_protein_1239761..1239911_POSITIVE 206 133 95 149 112 pint:PI1175|3end_conserved_hypothetical_protein_1098159..1098309_POSITIVE 206 148 112 80 42 pint:PI0007|3end_hypothetical_protein_7300..7450_POSITIVE 203 147 112 58 11 pint:PI0961|3end_conserved_hypothetical_protein_892043..892193_POSITIVE 199 74 32 121 77 pint:PI0229|3end_hypothetical_protein_229404..229554_POSITIVE 196 123 86 102 67 pint:PI0425|3end_hypothetical_protein_389722..389872_POSITIVE 195 120 72 113 68 pint:PI0343|3end_hypothetical_protein_317920..318070_POSITIVE 192 199 155 52 13 pint:PI1881|3end_ISPg3-related_transposase_1824530..1824680_POSITIVE 192 158 112 58 1 pint:PI1696|3end_conserved_hypothetical_protein_1612249..1612399_POSITIVE 192 120 79 110 57 pint:PI1670|3end_hypothetical_protein_1587026..1587176_POSITIVE 192 208 164 104 66 pint:PI0892|3end_acyl-ACP_thioesterase_823939..824089_POSITIVE 189 188 148 93 59 pint:PI1163|3end_single-strand_DNA_binding_protein_1088244..1088394_POSITIVE