Origin IGS: aacttttctaccaatagaagaattgattaaccacataaattgttttgttttttttaatatttaaactgttagaattaattgtctttttcgtgaacgcacacataaaaggtatgccaaaaagtgcaatccctatatagcaatacccataagttggtatcaa .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ttgataccaacttatgggtattgctatatagggattgcactttttggcataccttttatgtgtgcgttcacgaaaaagacaattaattctaacagtttaaatattaaaaaaaacaaaacaatttatgtggttaatcaattcttctattggtagaaaagtt Mask Tandem Repeat Region ================================================ aacttttctaccaatagaagaattgattaaccacataaattgttttgttttttttaatatttaaactgttagaattaattgtctttttcgtgaacgcacacataaaaggtatgccaaaaagtgcaatccctatatagcaatacccataagttggtatcaa Find is-nt database================================================ Query_seq: PI2119:PI2120|PI2119:PI2120:conserved hypothetical protein; possible cytochrome B subunit:hypothetical protein:->->:2068819..2068978 160 aacttttctaccaatagaagaattgattaaccacataaattgttttgttttttttaatatttaaactgttagaattaattgtctttttcgtgaacgcacacataaaaggtatgccaaaaagtgcaatccctatatagcaatacccataagttggtatcaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI2119:PI2120|PI2119:PI2120:conserved hypothetical protein; possible cytochrome B subunit:hypothetical protein:->->:2068819..2068978 160 aacttttctaccaatagaagaattgattaaccacataaattgttttgttttttttaatatttaaactgttagaattaattgtctttttcgtgaacgcacacataaaaggtatgccaaaaagtgcaatccctatatagcaatacccataagttggtatcaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI2119:PI2120|PI2119:PI2120:conserved hypothetical protein; possible cytochrome B subunit:hypothetical protein:->->:2068819..2068978 160 aacttttctaccaatagaagaattgattaaccacataaattgttttgttttttttaatatttaaactgttagaattaattgtctttttcgtgaacgcacacataaaaggtatgccaaaaagtgcaatccctatatagcaatacccataagttggtatcaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aacttttctaccaatagaagaattgattaaccacataaattgttttgttttttttaatatttaaactgttagaattaattgtctttttcgtgaacgcacacataaaaggtatgccaaaaagtgcaatccctatatagcaatacccataagttggtatcaa Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: + Start: 39 End: 134 ...................................... M V L F F L I F K L L E L I V F F V N A H I K G M P K S A I P I .......................... Protein_Len: 50 Strand: - Start: 11 End: 160 .......... W Y F F Q N V V Y I T K N K K I N L S N S N I T K K T F A C M F P I G F L A I G I Y C Y G Y T P I M aacttttctaccaatagaagaattgattaaccacataaattgttttgttttttttaatatttaaactgttagaattaattgtctttttcgtgaacgcacacataaaaggtatgccaaaaagtgcaatccctatatagcaatacccataagttggtatcaa 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================================================ aacttttctaccaatagaagaattgattaaccacataaattgttttgttttttttaatatttaaactgttagaattaattgtctttttcgtgaacgcacacataaaaggtatgccaaaaagtgcaatccctatatagcaatacccataagttggtatcaa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI2119:PI2120|PI2119:PI2120:conserved hypothetical protein; possible cytochrome B subunit:hypothetical protein:->->:2068819..2068978 160 aacttttctaccaatagaagaattgattaaccacataaattgttttgttttttttaatatttaaactgttagaattaattgtctttttcgtgaacgcacacataaaaggtatgccaaaaagtgcaatccctatatagcaatacccataagttggtatcaa Intra-Species Hit: Count: 1 Min: 1 Max: 160 Len: 160 Subject: pint_PI2119_PI2120|conserved hypothetical protein; possible cytochrome B subunit:hypothetical protein|POSITIVE:POSITIVE|[2068819,2068978]|160 HSP 1 e-value: 1.0E-71 bit: 270.0 Len: 160 Query Start:1 Query End:160 Subject Strand: POSITIVE Subject Start: 1 Subject End: 160 aacttttctaccaatagaagaattgattaaccacataaattgttttgnnnnnnnnaatatttaaactgttagaattaattgtctttttcgtgaacgcacacataaaaggtatgccaaaaagtgcaatccctatatagcaatacccataagttggtatcaa aacttttctaccaatagaagaattgattaaccacataaattgttttgttttttttaatatttaaactgttagaattaattgtctttttcgtgaacgcacacataaaaggtatgccaaaaagtgcaatccctatatagcaatacccataagttggtatcaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AACUUUUCUACCAAUAGAAGAAUUGAUUAACCACAUAAAUUGUUUUGUUUUUUUUAAUAUUUAAACUGUUAGAAUUAAUUGUCUUUUUCGUGAACGCACACAUAAAAGGUAUGCCAAAAAGUGCAAUCCCUAUAUAGCAAUACCCAUAAGUUGGUAUCAA ...(((((((....)))))))..((((..((((........((.(((((..((((((((.......))))))))...((((((((((..(((....)))........((....)).))))).)))))........))))).))........)))))))). (-21.59) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUGAUACCAACUUAUGGGUAUUGCUAUAUAGGGAUUGCACUUUUUGGCAUACCUUUUAUGUGUGCGUUCACGAAAAAGACAAUUAAUUCUAACAGUUUAAAUAUUAAAAAAAACAAAACAAUUUAUGUGGUUAAUCAAUUCUUCUAUUGGUAGAAAAGUU ..((((((........))))))(((((((((.(((((...((((((((((((.......)))))).....))))))...)))))..........((((............))))........)))))))))..((((((......))))))......... (-23.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 270 155 111 72 12 pint:PI1524|5end_phosphatidylserine_decarboxylase_1445924..1446154_POSITIVE 264 157 111 86 43 pint:PI0680|5end_hypothetical_protein_616958..617188_POSITIVE 261 99 65 187 154 pint:PI1650|5end_N-acetylmuramoyl-L-alanine_amidase_1563195..1563425_POSITIVE 261 99 65 72 39 pint:PI1649|5end_hypothetical_protein_1563080..1563310_POSITIVE 261 99 65 72 39 pint:PI0354|5end_hypothetical_protein_325886..326116_POSITIVE 255 124 82 223 170 pint:PI0436|5end_integrase/recombinase_407263..407493_POSITIVE 246 142 106 48 3 pint:PI0853|5end_glycosyl_transferase,_group_2_family_protein_785515..785745_POSITIVE 245 116 80 111 73 pint:PI0988|5end_hypothetical_protein_912347..912577_POSITIVE 237 139 94 194 167 pint:PI1883|5end_conserved_hypothetical_protein;_possible_surface_protein_1824874..1825104_POSITIVE 236 119 73 41 5 pint:PI1827|5end_peptidase,_M23/M37_family,_N-terminal_1768013..1768243_POSITIVE 236 130 82 127 72 pint:PI1746|5end_hypothetical_protein_1667356..1667586_POSITIVE 234 105 80 150 124 pint:PI1431|5end_conserved_hypothetical_protein_1352079..1352309_POSITIVE 233 145 108 119 83 pint:PI1617|5end_hypothetical_protein_1542923..1543153_POSITIVE 230 124 81 185 136 pint:PI0721|5end_hypothetical_protein_654615..654845_POSITIVE 229 129 83 89 42 pint:PI0128|5end_dipeptidase,_pathogenicity_island-encoded_protein_D_120532..120762_POSITIVE 227 114 71 147 100 pint:PI0477|5end_30S_ribosomal_protein_S5_440392..440622_POSITIVE 226 130 83 53 10 pint:PI0412|5end_primosomal_protein_N',_replication_factor_Y_379751..379981_POSITIVE 225 140 97 126 86 pint:PI0043|5end_thiamine_phosphate_pyrophosphorylase_42294..42524_POSITIVE 222 129 90 94 48 pint:PI1757|5end_hypothetical_protein_1683934..1684164_POSITIVE 222 139 92 114 73 pint:PI0062|5end_endopeptidase_60963..61193_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 264 157 111 60 17 pint:PI0679|3end_hypothetical_protein_617012..617162_POSITIVE 261 99 65 40 7 pint:PI1646|3end_hypothetical_protein_1563128..1563278_POSITIVE 261 99 65 40 7 pint:PI0352|3end_hypothetical_protein_325934..326084_POSITIVE 256 55 11 52 9 pint:PI0480|3end_preprotein_translocase,_SecY_subunit_442993..443143_POSITIVE 255 124 82 145 92 pint:PI0435|3end_30S_ribosomal_protein_S21_407265..407415_POSITIVE 245 116 80 50 12 pint:PI0986|3end_conserved_hypothetical_protein_912366..912516_POSITIVE 236 130 82 108 53 pint:PI1745|3end_conserved_hypothetical_protein_1667417..1667567_POSITIVE 227 114 71 137 90 pint:PI0476|3end_50S_ribosomal_protein_L18_440462..440612_POSITIVE 226 130 83 50 7 pint:PI0411|3end_conserved_hypothetial_protein;_possible_hydrolase_379828..379978_POSITIVE 224 159 111 140 91 pint:PI2085|3end_conserved_hypothetical_protein_2041803..2041953_POSITIVE 223 149 108 100 57 pint:PI0365|3end_hypothetical_protein_336118..336268_POSITIVE 222 129 90 137 91 pint:PI1758|3end_hypothetical_protein_1684057..1684207_POSITIVE 220 102 72 145 115 pint:PI0686|3end_glycosyl_transferase,_group_2_family_protein_624249..624399_POSITIVE 215 130 81 97 44 pint:PI0115|3end_hypothetical_protein_108669..108819_POSITIVE 212 155 120 72 34 pint:PI0904|3end_conserved_hypothetical_protein_834295..834445_POSITIVE 209 126 91 134 92 pint:PI0276|3end_anti-restriction_protein_265021..265171_POSITIVE 207 148 106 146 103 pint:PI1490|3end_GTP_cyclohydrolase_I_1409127..1409277_POSITIVE 207 126 90 102 69 pint:PI0028|3end_aminopeptidase_32727..32877_POSITIVE 205 129 82 106 61 pint:PI0683|3end_hypothetical_protein_619797..619947_POSITIVE 203 126 83 123 91 pint:PI0191|3end_O-methyltransferase_181785..181935_POSITIVE