Origin IGS: gaatgttgcgcttatttacaaataatatttctgttgttcgtaaaatcgcccttcctgccattgtttcacgcttattttttaacaaacaaggcttctgtttgtatataattaacgaaaagaaatgctaagactattttgatgttaatgagaactttgcaacttggttgcaacagttatttcctaactttgtagcaaaacaaaagaacagaaacaatgttttgggatttagtatctaaatattatatattcttcgagaaattgtataatggaagagttaatcgggag .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 ctcccgattaactcttccattatacaatttctcgaagaatatataatatttagatactaaatcccaaaacattgtttctgttcttttgttttgctacaaagttaggaaataactgttgcaaccaagttgcaaagttctcattaacatcaaaatagtcttagcatttcttttcgttaattatatacaaacagaagccttgtttgttaaaaaataagcgtgaaacaatggcaggaagggcgattttacgaacaacagaaatattatttgtaaataagcgcaacattc Mask Tandem Repeat Region ================================================ gaatgttgcgcttatttacaaataatatttctgttgttcgtaaaatcgcccttcctgccattgtttcacgcttattttttaacaaacaaggcttctgtttgtatataattaacgaaaagaaatgctaagactattttgatgttaatgagaactttgcaacttggttgcaacagttatttcctaactttgtagcaaaacaaaagaacagaaacaatgttttgggatttagtatctaaatattatatattcttcgagaaattgtataatggaagagttaatcgggag Find is-nt database================================================ Query_seq: PI1020:PI1021|PI1020:PI1021:hypothetical protein:conserved hypothetical protein; possible methyltransferase:->->:938840..939124 285 gaatgttgcgcttatttacaaataatatttctgttgttcgtaaaatcgcccttcctgccattgtttcacgcttattttttaacaaacaaggcttctgtttgtatataattaacgaaaagaaatgctaagactattttgatgttaatgagaactttgcaacttggttgcaacagttatttcctaactttgtagcaaaacaaaagaacagaaacaatgttttgggatttagtatctaaatattatatattcttcgagaaattgtataatggaagagttaatcgggag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1020:PI1021|PI1020:PI1021:hypothetical protein:conserved hypothetical protein; possible methyltransferase:->->:938840..939124 285 gaatgttgcgcttatttacaaataatatttctgttgttcgtaaaatcgcccttcctgccattgtttcacgcttattttttaacaaacaaggcttctgtttgtatataattaacgaaaagaaatgctaagactattttgatgttaatgagaactttgcaacttggttgcaacagttatttcctaactttgtagcaaaacaaaagaacagaaacaatgttttgggatttagtatctaaatattatatattcttcgagaaattgtataatggaagagttaatcgggag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1020:PI1021|PI1020:PI1021:hypothetical protein:conserved hypothetical protein; possible methyltransferase:->->:938840..939124 285 gaatgttgcgcttatttacaaataatatttctgttgttcgtaaaatcgcccttcctgccattgtttcacgcttattttttaacaaacaaggcttctgtttgtatataattaacgaaaagaaatgctaagactattttgatgttaatgagaactttgcaacttggttgcaacagttatttcctaactttgtagcaaaacaaaagaacagaaacaatgttttgggatttagtatctaaatattatatattcttcgagaaattgtataatggaagagttaatcgggag Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gaatgttgcgcttatttacaaataatatttctgttgttcgtaaaatcgcccttcctgccattgtttcacgcttattttttaacaaacaaggcttctgtttgtatataattaacgaaaagaaatgctaagactattttgatgttaatgagaactttgcaacttggttgcaacagttatttcctaactttgtagcaaaacaaaagaacagaaacaatgttttgggatttagtatctaaatattatatattcttcgagaaattgtataatggaagagttaatcgggag Predict ORF larger than 30AA ================================================ Protein_Len: 41 Strand: + Start: 3 End: 125 .. M L R L F T N N I S V V R K I A L P A I V S R L F F N K Q G F C L Y I I N E K K C ................................................................................................................................................................ Protein_Len: 33 Strand: - Start: 134 End: 232 ..................................................................................................................................... K S T L S F K A V Q N C C N N G L K T A F C F F L F L T K P N L M ..................................................... Protein_Len: 33 Strand: - Start: 75 End: 173 .......................................................................... K K V F L A E T Q I Y N V F L F A L V I K I N I L V K C S P Q L M ................................................................................................................ Protein_Len: 36 Strand: - Start: 2 End: 109 . I N R K N V F L I E T T R L I A R G A M T E R K N K L L C P K Q K Y I M ................................................................................................................................................................................ gaatgttgcgcttatttacaaataatatttctgttgttcgtaaaatcgcccttcctgccattgtttcacgcttattttttaacaaacaaggcttctgtttgtatataattaacgaaaagaaatgctaagactattttgatgttaatgagaactttgcaacttggttgcaacagttatttcctaactttgtagcaaaacaaaagaacagaaacaatgttttgggatttagtatctaaatattatatattcttcgagaaattgtataatggaagagttaatcgggag 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================================================ gaatgttgcgcttatttacaaataatatttctgttgttcgtaaaatcgcccttcctgccattgtttcacgcttattttttaacaaacaaggcttctgtttgtatataattaacgaaaagaaatgctaagactattttgatgttaatgagaactttgcaacttggttgcaacagttatttcctaactttgtagcaaaacaaaagaacagaaacaatgttttgggatttagtatctaaatattatatattcttcgagaaattgtataatggaagagttaatcgggag Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 44 HP_score: -3.2 Tail_Score: -3.00298 Start: 83 End: 101 Full_Region: ACGCTTATTTTTTAA CAAACA AGGCTTC TGTTTG TATATAATTAACGAA ..................................................................................CAAACAAGGCTTCTGTTTG........................................................................................................................................................................................ TransTerm Strand: + Conf: 71 HP_score: -6.7 Tail_Score: -4.03174 Start: 152 End: 173 Full_Region: TGATGTTAATGAGAA CTTTGCAAC TTG GTTGCAACAG TTATTTCCTAACTTT .......................................................................................................................................................CTTTGCAACTTGGTTGCAACAG................................................................................................................ Find igs database================================================ Query_seq: PI1020:PI1021|PI1020:PI1021:hypothetical protein:conserved hypothetical protein; possible methyltransferase:->->:938840..939124 285 gaatgttgcgcttatttacaaataatatttctgttgttcgtaaaatcgcccttcctgccattgtttcacgcttattttttaacaaacaaggcttctgtttgtatataattaacgaaaagaaatgctaagactattttgatgttaatgagaactttgcaacttggttgcaacagttatttcctaactttgtagcaaaacaaaagaacagaaacaatgttttgggatttagtatctaaatattatatattcttcgagaaattgtataatggaagagttaatcgggag Intra-Species Hit: Count: 2 Min: 1 Max: 285 Len: 285 Subject: pint_PI1020_PI1021|hypothetical protein:conserved hypothetical protein; possible methyltransferase|POSITIVE:POSITIVE|[938840,939124]|285 HSP 1 e-value: 1.0E-160 bit: 565.0 Len: 285 Query Start:1 Query End:285 Subject Strand: POSITIVE Subject Start: 1 Subject End: 285 gaatgttgcgcttatttacaaataatatttctgttgttcgtaaaatcgcccttcctgccattgtttcacgcttattttttaacaaacaaggcttctgtttgtatataattaacgaaaagaaatgctaagactattttgatgttaatgagaactttgcaacttggttgcaacagttatttcctaactttgtagcaaaacaaaagaacagaaacaatgttttgggatttagtatctaaatattatatattcttcgagaaattgtataatggaagagttaatcgggag gaatgttgcgcttatttacaaataatatttctgttgttcgtaaaatcgcccttcctgccattgtttcacgcttattttttaacaaacaaggcttctgtttgtatataattaacgaaaagaaatgctaagactattttgatgttaatgagaactttgcaacttggttgcaacagttatttcctaactttgtagcaaaacaaaagaacagaaacaatgttttgggatttagtatctaaatattatatattcttcgagaaattgtataatggaagagttaatcgggag Subject: pint_PI0432_PI0434|hypothetical protein:possible beta-lactamase|POSITIVE:POSITIVE|[405098,405831]|734 HSP 1 e-value: 8.0E-19 bit: 95.6 Len: 108 Query Start:6 Query End:113 Subject Strand: POSITIVE Subject Start: 486 Subject End: 593 .....ttgcgcttatttacaaataatatttctgttgttcgtaaaatcgcccttcctgccattgtttcacgcttattttttaacaaacaaggcttctgtttgtatataattaac............................................................................................................................................................................ .....ttgcgcttatttgcgaataatatttttgtagttcgtaaaatccgccttcttgccattgtttcacgctttgtttttaacaaattcggcttttgtttatgtataattaac............................................................................................................................................................................ Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAAUGUUGCGCUUAUUUACAAAUAAUAUUUCUGUUGUUCGUAAAAUCGCCCUUCCUGCCAUUGUUUCACGCUUAUUUUUUAACAAACAAGGCUUCUGUUUGUAUAUAAUUAACGAAAAGAAAUGCUAAGACUAUUUUGAUGUUAAUGAGAACUUUGCAACUUGGUUGCAACAGUUAUUUCCUAACUUUGUAGCAAAACAAAAGAACAGAAACAAUGUUUUGGGAUUUAGUAUCUAAAUAUUAUAUAUUCUUCGAGAAAUUGUAUAAUGGAAGAGUUAAUCGGGAG ..............(((((.(((((((....))))))).)))))....(((.(((((.(((((((((..((..(.(((((.(((((((.......))))))).....(((((((....((((((.......))))))..)))))))))))).)..))......(((((((.(((((.....))))))))))))..............)))))))))...))))).......(((...((((((((((((.....)))..)))))))))..))).......))).. (-53.90) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CUCCCGAUUAACUCUUCCAUUAUACAAUUUCUCGAAGAAUAUAUAAUAUUUAGAUACUAAAUCCCAAAACAUUGUUUCUGUUCUUUUGUUUUGCUACAAAGUUAGGAAAUAACUGUUGCAACCAAGUUGCAAAGUUCUCAUUAACAUCAAAAUAGUCUUAGCAUUUCUUUUCGUUAAUUAUAUACAAACAGAAGCCUUGUUUGUUAAAAAAUAAGCGUGAAACAAUGGCAGGAAGGGCGAUUUUACGAACAACAGAAAUAUUAUUUGUAAAUAAGCGCAACAUUC .............(((((.(((((....(((.....)))..))))).......................(((((((((....(((((((((.........(((((.....((((.(((((((...)))))))))))....)))))......(((...(((((..........)))))...)))..)))))))))....(((((((....)))))))..)))))))))...))))).(((..((((((((.((.(....).)).))))))))....)))....... (-51.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 339 172 135 41 3 pint:PI2043|5end_hypothetical_protein_1996058..1996288_POSITIVE 320 69 30 130 78 pint:PI0989|5end_mannose-1-phosphate_guanylyltransferase_912833..913063_POSITIVE 290 71 35 194 149 pint:PI0576|5end_helicase,_UvrD/Rep_520226..520456_POSITIVE 284 79 31 126 72 pint:PI1623|5end_hypothetical_protein_1547163..1547393_POSITIVE 284 80 32 65 12 pint:PI0819|5end_hypothetical_protein_759414..759644_POSITIVE 270 181 149 65 33 pint:PI0263|5end_conjugative_transposon_protein,_TraM_255256..255486_POSITIVE 269 170 121 181 127 pint:PI0924|5end_possible_glycosyl_hydrolase_855004..855234_POSITIVE 269 73 32 116 71 pint:PI0113|5end_arginyl-tRNA_synthetase_108371..108601_POSITIVE 266 71 31 219 178 pint:PI0365|5end_hypothetical_protein_335721..335951_POSITIVE 265 90 42 223 175 pint:PI1725|5end_hypothetical_protein_1643024..1643254_POSITIVE 265 68 45 99 66 pint:PI0248|5end_protein_associated_with_conjugate_transformation/chromosome_partioning_246139..246369_POSITIVE 264 72 31 213 182 pint:PI0751|5end_conserved_hypothetical_protein_680623..680853_POSITIVE 263 72 39 33 1 pint:PI2158|5end_glycosyl_transferase,_group_2_family_protein_2104392..2104622_POSITIVE 261 168 123 133 95 pint:PI1994|5end_hypothetical_protein_1949360..1949590_POSITIVE 260 77 31 217 173 pint:PI1452|5end_possible_nicotinamide_mononucleotide_transporter_1375353..1375583_POSITIVE 259 72 32 156 119 pint:PI0701|5end_hypothetical_protein_638356..638586_POSITIVE 255 91 53 96 59 pint:PI0797|5end_tRNA_pseudouridine_synthase_A_(pseudouridylate_synthase)_735016..735246_POSITIVE 255 73 31 225 162 pint:PI0384|5end_probable_radical_SAM_domain_protein_352884..353114_POSITIVE 255 79 31 219 163 pint:PI0362|5end_hypothetical_protein_333397..333627_POSITIVE 254 159 112 117 65 pint:PI1439|5end_hypothetical_protein_1360009..1360239_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 378 84 48 65 29 pint:PI1399|3end_hypothetical_protein_1320844..1320994_POSITIVE 339 172 135 41 3 pint:PI2042|3end_cation-transporting_ATPase_1996138..1996288_POSITIVE 308 74 31 109 65 pint:PI0377|3end_DNA_primase/mobilizable_transposon,_excision_protein_347823..347973_POSITIVE 298 50 3 53 4 pint:PI1555|3end_conserved_hypothetical_protein_1471754..1471904_POSITIVE 290 71 35 116 71 pint:PI0575|3end_hypothetical_protein_520228..520378_POSITIVE 284 79 31 113 59 pint:PI1622|3end_hypothetical_protein_1547230..1547380_POSITIVE 282 79 31 138 88 pint:PI1227|3end_conserved_hypothetical_protein;_possible_DNA-binding_protein,_histone-like_family_1148974..1149124_POSITIVE 276 76 34 92 42 pint:PI0683|3end_hypothetical_protein_619797..619947_POSITIVE 269 170 121 148 94 pint:PI0923|3end_6-phosphofructokinase_855051..855201_POSITIVE 265 68 45 112 79 pint:PI0247|3end_conjugative_transposon_protein,_TraA_246232..246382_POSITIVE 264 72 31 143 112 pint:PI0750|3end_zinc_protease_680633..680783_POSITIVE 260 77 31 149 105 pint:PI1451|3end_outer_membrane_receptor_proteins,_tonB_dependent_(possibly_iron_transport_related)_1375365..1375515_POSITIVE 259 72 32 133 96 pint:PI0700|3end_UDP-glucose_4-epimerase_638413..638563_POSITIVE 255 70 27 75 29 pint:PI0583|3end_hypothetical_protein_526276..526426_POSITIVE 251 195 155 95 36 pint:PI0809|3end_hypothetical_protein_747108..747258_POSITIVE 249 72 31 83 28 pint:PI0027|3end_aminopeptidase_C_31756..31906_POSITIVE 248 79 31 145 95 pint:PI2132|3end_hypothetical_protein_2081139..2081289_POSITIVE 247 193 152 74 35 pint:PI0704|3end_conserved_hypothetical_protein_641364..641514_POSITIVE 246 73 35 145 92 pint:PI0365|3end_hypothetical_protein_336118..336268_POSITIVE 244 80 32 83 32 pint:PI1627|3end_hypothetical_protein_1551157..1551307_POSITIVE