Origin IGS: taataagacaatatcgggtctattaacgattacgaaaagaagaacacacacttgattattcataatccaaaagagggcaggccattgctggcttgccctctttttttttataaaggaacctctcattctatacatatctgagcaatataacttctctcacatttcgtattttacagccagaaacaaagcaacaagactgtaaagaatttttcagaatatccatatcacctaaccagcttgttaccaacgcattacaaaaccta .........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 taggttttgtaatgcgttggtaacaagctggttaggtgatatggatattctgaaaaattctttacagtcttgttgctttgtttctggctgtaaaatacgaaatgtgagagaagttatattgctcagatatgtatagaatgagaggttcctttataaaaaaaaagagggcaagccagcaatggcctgccctcttttggattatgaataatcaagtgtgtgttcttcttttcgtaatcgttaatagacccgatattgtcttatta Mask Tandem Repeat Region ================================================ taataagacaatatcgggtctattaacgattacgaaaagaagaacacacacttgattattcataatccaaaagagggcaggccattgctggcttgccctctttttttttataaaggaacctctcattctatacatatctgagcaatataacttctctcacatttcgtattttacagccagaaacaaagcaacaagactgtaaagaatttttcagaatatccatatcacctaaccagcttgttaccaacgcattacaaaaccta Find is-nt database================================================ Query_seq: PI2001:PI2002|PI2001:PI2002:hypothetical protein:hypothetical protein:->->:1960539..1960801 263 taataagacaatatcgggtctattaacgattacgaaaagaagaacacacacttgattattcataatccaaaagagggcaggccattgctggcttgccctctttttttttataaaggaacctctcattctatacatatctgagcaatataacttctctcacatttcgtattttacagccagaaacaaagcaacaagactgtaaagaatttttcagaatatccatatcacctaaccagcttgttaccaacgcattacaaaaccta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI2001:PI2002|PI2001:PI2002:hypothetical protein:hypothetical protein:->->:1960539..1960801 263 taataagacaatatcgggtctattaacgattacgaaaagaagaacacacacttgattattcataatccaaaagagggcaggccattgctggcttgccctctttttttttataaaggaacctctcattctatacatatctgagcaatataacttctctcacatttcgtattttacagccagaaacaaagcaacaagactgtaaagaatttttcagaatatccatatcacctaaccagcttgttaccaacgcattacaaaaccta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI2001:PI2002|PI2001:PI2002:hypothetical protein:hypothetical protein:->->:1960539..1960801 263 taataagacaatatcgggtctattaacgattacgaaaagaagaacacacacttgattattcataatccaaaagagggcaggccattgctggcttgccctctttttttttataaaggaacctctcattctatacatatctgagcaatataacttctctcacatttcgtattttacagccagaaacaaagcaacaagactgtaaagaatttttcagaatatccatatcacctaaccagcttgttaccaacgcattacaaaaccta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taataagacaatatcgggtctattaacgattacgaaaagaagaacacacacttgattattcataatccaaaagagggcaggccattgctggcttgccctctttttttttataaaggaacctctcattctatacatatctgagcaatataacttctctcacatttcgtattttacagccagaaacaaagcaacaagactgtaaagaatttttcagaatatccatatcacctaaccagcttgttaccaacgcattacaaaaccta Predict ORF larger than 30AA ================================================ Protein_Len: 42 Strand: + Start: 13 End: 138 ............ M G S I N D Y E K K N T H L I I H N P K E G R P L L A C P L F F Y K G T S H S I H I ............................................................................................................................. Protein_Len: 46 Strand: + Start: 62 End: 199 ............................................................. M I Q K R A G H C W L A L F F F I K E P L I L Y I S E Q Y N F S H I S Y F T A R N K A T R L ................................................................ Protein_Len: 42 Strand: + Start: 138 End: 263 ......................................................................................................................................... M S N I T S L T F R I L Q P E T K Q Q D C K E F F R I S I S P N Q L V T N A L Q N L Protein_Len: 39 Strand: - Start: 131 End: 247 .................................................................................................................................. V Y R L L I V E R V N R I K C G S V F C C S Q L S N K L I D M D G L W S T V M ................ Protein_Len: 45 Strand: - Start: 1 End: 135 L L V I D P R N V I V F L L V C V Q N N M I W F L A P W Q Q S A R K K K I F S G R M R Y M ................................................................................................................................ taataagacaatatcgggtctattaacgattacgaaaagaagaacacacacttgattattcataatccaaaagagggcaggccattgctggcttgccctctttttttttataaaggaacctctcattctatacatatctgagcaatataacttctctcacatttcgtattttacagccagaaacaaagcaacaagactgtaaagaatttttcagaatatccatatcacctaaccagcttgttaccaacgcattacaaaaccta 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================================================ taataagacaatatcgggtctattaacgattacgaaaagaagaacacacacttgattattcataatccaaaagagggcaggccattgctggcttgccctctttttttttataaaggaacctctcattctatacatatctgagcaatataacttctctcacatttcgtattttacagccagaaacaaagcaacaagactgtaaagaatttttcagaatatccatatcacctaaccagcttgttaccaacgcattacaaaaccta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 100 HP_score: -17.8 Tail_Score: -6.22802 Start: 73 End: 100 Full_Region: ATTCATAATCCAAAA GAGGGCAGGCCA TTGC TGGCTTGCCCTC TTTTTTTTTATAAAG ........................................................................GAGGGCAGGCCATTGCTGGCTTGCCCTC................................................................................................................................................................... TransTerm Strand: - Conf: 100 HP_score: -15.6 Tail_Score: -4.32482 Start: 73 End: 100 Full_Region: ctttataaaaaaaaa gagggcaagcca gcaa tggcctgccctc ttttggattatgaat ........................................................................gagggcaagccagcaatggcctgccctc................................................................................................................................................................... Find igs database================================================ Query_seq: PI2001:PI2002|PI2001:PI2002:hypothetical protein:hypothetical protein:->->:1960539..1960801 263 taataagacaatatcgggtctattaacgattacgaaaagaagaacacacacttgattattcataatccaaaagagggcaggccattgctggcttgccctctttttttttataaaggaacctctcattctatacatatctgagcaatataacttctctcacatttcgtattttacagccagaaacaaagcaacaagactgtaaagaatttttcagaatatccatatcacctaaccagcttgttaccaacgcattacaaaaccta Intra-Species Hit: Count: 1 Min: 1 Max: 263 Len: 263 Subject: pint_PI2001_PI2002|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[1960539,1960801]|263 HSP 1 e-value: 1.0E-131 bit: 468.0 Len: 263 Query Start:1 Query End:263 Subject Strand: POSITIVE Subject Start: 1 Subject End: 263 taataagacaatatcgggtctattaacgattacgaaaagaagaacacacacttgattattcataatccaaaagagggcaggccattgctggcttgccctcnnnnnnnnnataaaggaacctctcattctatacatatctgagcaatataacttctctcacatttcgtattttacagccagaaacaaagcaacaagactgtaaagaatttttcagaatatccatatcacctaaccagcttgttaccaacgcattacaaaaccta taataagacaatatcgggtctattaacgattacgaaaagaagaacacacacttgattattcataatccaaaagagggcaggccattgctggcttgccctctttttttttataaaggaacctctcattctatacatatctgagcaatataacttctctcacatttcgtattttacagccagaaacaaagcaacaagactgtaaagaatttttcagaatatccatatcacctaaccagcttgttaccaacgcattacaaaaccta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUAAGACAAUAUCGGGUCUAUUAACGAUUACGAAAAGAAGAACACACACUUGAUUAUUCAUAAUCCAAAAGAGGGCAGGCCAUUGCUGGCUUGCCCUCUUUUUUUUUAUAAAGGAACCUCUCAUUCUAUACAUAUCUGAGCAAUAUAACUUCUCUCACAUUUCGUAUUUUACAGCCAGAAACAAAGCAACAAGACUGUAAAGAAUUUUUCAGAAUAUCCAUAUCACCUAACCAGCUUGUUACCAACGCAUUACAAAACCUA (((((((........((((...........((((((((((((...................((((...((((((((((((((((....))))))))))))))))...))))..........((((.............))))........)))))......)))))))((((((((.(................).))))))))......................))))......))))))).................... (-49.75) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGGUUUUGUAAUGCGUUGGUAACAAGCUGGUUAGGUGAUAUGGAUAUUCUGAAAAAUUCUUUACAGUCUUGUUGCUUUGUUUCUGGCUGUAAAAUACGAAAUGUGAGAGAAGUUAUAUUGCUCAGAUAUGUAUAGAAUGAGAGGUUCCUUUAUAAAAAAAAAGAGGGCAAGCCAGCAAUGGCCUGCCCUCUUUUGGAUUAUGAAUAAUCAAGUGUGUGUUCUUCUUUUCGUAAUCGUUAAUAGACCCGAUAUUGUCUUAUUA ..(((((..(((((....((((((((((((...(((......((.....)).......)))...))).)))))))))..................(((((((...((.((((..((((((.((((..((....))...)))).((((..(((((((...(((((((((((.((((....)))).)))))))))))...))))))).)))).))))))..)))))).)))))))..)))))..)))))................ (-68.42) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 432 260 211 114 67 pint:PI0211|5end_hypothetical_protein_204067..204297_POSITIVE 349 97 72 164 137 pint:PI1543|5end_hypothetical_protein_1462773..1463003_POSITIVE 315 110 64 167 116 pint:PI0161|5end_possible_TonB_receptor_153364..153594_POSITIVE 306 109 64 63 7 pint:PI1653|5end_hypothetical_protein_1565158..1565388_POSITIVE 305 200 156 51 5 pint:PI0994|5end_glutaminyl-tRNA_synthetase_918411..918641_POSITIVE 295 106 72 204 160 pint:PI1671|5end_hypothetical_protein_1586397..1586627_POSITIVE 295 104 69 101 57 pint:PI1314|5end_hypothetical_protein_1231188..1231418_POSITIVE 293 96 73 189 164 pint:PI0736|5end_transcriptional_regulator,_TetR_family_670580..670810_POSITIVE 293 260 225 152 117 pint:PI0653|5end_hypothetical_protein_596046..596276_POSITIVE 281 92 73 161 140 pint:PI1644|5end_hypothetical_protein_1560372..1560602_POSITIVE 280 97 72 26 3 pint:PI2062|5end_type_I_restriction-modification_system_2021658..2021888_POSITIVE 276 260 230 133 103 pint:PI0196|5end_hypothetical_protein_188435..188665_POSITIVE 275 260 224 132 104 pint:PI0991|5end_conserved_hypothetical_protein_915309..915539_POSITIVE 274 95 70 64 38 pint:PI0347|5end_hypothetical_protein_321267..321497_POSITIVE 274 104 65 165 123 pint:PI0177|5end_2-oxoglutarate_synthase,_subunit_korB_168499..168729_POSITIVE 273 99 75 41 11 pint:PI0265|5end_conjugative_transposon_protein,_TraO_257296..257526_POSITIVE 270 97 69 114 85 pint:PI1292|5end_conserved_hypothetical_protein_1206106..1206336_POSITIVE 270 110 69 211 174 pint:PI0327|5end_hypothetical_protein_308791..309021_POSITIVE 269 120 72 190 137 pint:PI0375|5end_hypothetical_protein_345634..345864_POSITIVE 268 104 69 196 156 pint:PI0574|5end_hypothetical_protein_519260..519490_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 360 260 211 87 39 pint:PI0815|3end_hypothetical_protein_754677..754827_POSITIVE 360 110 71 130 83 pint:PI0173|3end_hypothetical_protein_165558..165708_POSITIVE 355 260 230 126 96 pint:PI0069|3end_hypothetical_protein_67379..67529_POSITIVE 310 100 55 105 61 pint:PI0242|3end_hypothetical_protein_240227..240377_POSITIVE 307 120 75 110 60 pint:PI1971|3end_possible_IS1249-related_transposase_1928949..1929099_POSITIVE 306 109 64 60 4 pint:PI1652|3end_hypothetical_protein_1565235..1565385_POSITIVE 295 104 69 74 30 pint:PI1313|3end_possible_POT_family_(proton-dependent_oligopeptide_transport_family)_1231241..1231391_POSITIVE 293 96 73 120 95 pint:PI0735|3end_ABC_transporter,_ATP-binding_/_permease_670591..670741_POSITIVE 284 97 54 52 2 pint:PI0618|3end_acyl-CoA_dehydrogenase_family_protein_569213..569363_POSITIVE 281 92 73 148 127 pint:PI1642|3end_conserved_hypothetical_protein_1560439..1560589_POSITIVE 274 95 70 47 21 pint:PI0346|3end_hypothetical_protein_321330..321480_POSITIVE 273 99 75 36 6 pint:PI0264|3end_transfer_region-related_protein,_TraN_257371..257521_POSITIVE 269 96 56 118 82 pint:PI0943|3end_conserved_hypothetical_protein_875991..876141_POSITIVE 268 104 69 75 35 pint:PI0573|3end_aminopeptidase_C_(bleomycin_hydrolase)_519219..519369_POSITIVE 267 100 53 141 83 pint:PI2075|3end_conserved_hypothetical_protein_2035355..2035505_POSITIVE 263 96 61 134 103 pint:PI0860|3end_amidophosphoribosyltransferase_796276..796426_POSITIVE 261 115 71 77 30 pint:PI0447|3end_DNA-directed_RNA_polymerase,_beta'_subunit_421755..421905_POSITIVE 259 260 229 60 29 pint:PI0905|3end_hypothetical_protein_834697..834847_POSITIVE 256 104 87 22 3 pint:PI2001|3end_hypothetical_protein_1960478..1960628_POSITIVE 256 97 61 75 38 pint:PI0754|3end_possible_outer_membrane_receptor_686424..686574_POSITIVE