Origin IGS: tagtaagttcgatacgattcaagaataacagagaaagaggcagaatacggttgctgctgctttctctgttttttattagaagcagccgaaactgtttgttggaaacgaaaagagggcacatcaaaaacaatttgatgtgccctcttgggtttcaacggttaagggataacgctta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taagcgttatcccttaaccgttgaaacccaagagggcacatcaaattgtttttgatgtgccctcttttcgtttccaacaaacagtttcggctgcttctaataaaaaacagagaaagcagcagcaaccgtattctgcctctttctctgttattcttgaatcgtatcgaacttacta Mask Tandem Repeat Region ================================================ tagtaagttcgatacgattcaagaataacagagaaagaggcagaatacggttgctgctgctttctctgttttttattagaagcagccgaaactgtttgttggaaacgaaaagagggcacatcaaaaacaatttgatgtgccctcttgggtttcaacggttaagggataacgctta Find is-nt database================================================ Query_seq: PI0160:PI0161|PI0160:PI0161:conserved hypothetical protein:possible TonB receptor:->->:153329..153503 175 tagtaagttcgatacgattcaagaataacagagaaagaggcagaatacggttgctgctgctttctctgttttttattagaagcagccgaaactgtttgttggaaacgaaaagagggcacatcaaaaacaatttgatgtgccctcttgggtttcaacggttaagggataacgctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0160:PI0161|PI0160:PI0161:conserved hypothetical protein:possible TonB receptor:->->:153329..153503 175 tagtaagttcgatacgattcaagaataacagagaaagaggcagaatacggttgctgctgctttctctgttttttattagaagcagccgaaactgtttgttggaaacgaaaagagggcacatcaaaaacaatttgatgtgccctcttgggtttcaacggttaagggataacgctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0160:PI0161|PI0160:PI0161:conserved hypothetical protein:possible TonB receptor:->->:153329..153503 175 tagtaagttcgatacgattcaagaataacagagaaagaggcagaatacggttgctgctgctttctctgttttttattagaagcagccgaaactgtttgttggaaacgaaaagagggcacatcaaaaacaatttgatgtgccctcttgggtttcaacggttaagggataacgctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tagtaagttcgatacgattcaagaataacagagaaagaggcagaatacggttgctgctgctttctctgttttttattagaagcagccgaaactgtttgttggaaacgaaaagagggcacatcaaaaacaatttgatgtgccctcttgggtttcaacggttaagggataacgctta Predict ORF larger than 30AA ================================================ Protein_Len: 36 Strand: + Start: 25 End: 132 ........................ M T E K E A E Y G C C C F L C F L L E A A E T V C W K R K E G T S K T I ........................................... Protein_Len: 54 Strand: + Start: 12 End: 173 ........... M R F K N N R E R G R I R L L L L S L F F I R S S R N C L L E T K R G H I K N N L M C P L G F Q R L R D N A .. Protein_Len: 51 Strand: - Start: 3 End: 155 .. Y T R Y S E L I V S F S A S Y P Q Q Q K R Q K K N S A A S V T Q Q F R F S P V D F V I Q H A R K P K M .................... Protein_Len: 45 Strand: - Start: 2 End: 136 . T L E I R N L F L L S L P L I R N S S S E R N K I L L L R F Q K N S V F L P C M L F L K M ....................................... tagtaagttcgatacgattcaagaataacagagaaagaggcagaatacggttgctgctgctttctctgttttttattagaagcagccgaaactgtttgttggaaacgaaaagagggcacatcaaaaacaatttgatgtgccctcttgggtttcaacggttaagggataacgctta 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================================================ tagtaagttcgatacgattcaagaataacagagaaagaggcagaatacggttgctgctgctttctctgttttttattagaagcagccgaaactgtttgttggaaacgaaaagagggcacatcaaaaacaatttgatgtgccctcttgggtttcaacggttaagggataacgctta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 100 HP_score: -10.2 Tail_Score: -5.4505 Start: 29 End: 68 Full_Region: ACGATTCAAGAATAA CAGAGAAAGAGGCAGAAT ACG GTTGCTGCTGCTTTCTCTG TTTTTTATTAGAAGC ............................CAGAGAAAGAGGCAGAATACGGTTGCTGCTGCTTTCTCTG........................................................................................................... TransTerm Strand: - Conf: 75 HP_score: -7.9 Tail_Score: -3.97709 Start: 29 End: 68 Full_Region: gcttctaataaaaaa cagagaaagcagcagca accgta ttctgcctctttctctg ttattcttgaatcgt ............................cagagaaagcagcagcaaccgtattctgcctctttctctg........................................................................................................... TransTerm Strand: + Conf: 82 HP_score: -10.7 Tail_Score: -3.57561 Start: 107 End: 149 Full_Region: CTGTTTGTTGGAAAC GAAAAGAGGGCACATCAAA AACAA TTTGATGTGCCCTCTTGGG TTTCAACGGTTAAGG ..........................................................................................................GAAAAGAGGGCACATCAAAAACAATTTGATGTGCCCTCTTGGG.......................... TransTerm Strand: - Conf: 100 HP_score: -19.4 Tail_Score: -4.54727 Start: 112 End: 144 Full_Region: accgttgaaacccaa gagggcacatcaaa ttgtt tttgatgtgccctc ttttcgtttccaaca ...............................................................................................................gagggcacatcaaattgtttttgatgtgccctc............................... Find igs database================================================ Query_seq: PI0160:PI0161|PI0160:PI0161:conserved hypothetical protein:possible TonB receptor:->->:153329..153503 175 tagtaagttcgatacgattcaagaataacagagaaagaggcagaatacggttgctgctgctttctctgttttttattagaagcagccgaaactgtttgttggaaacgaaaagagggcacatcaaaaacaatttgatgtgccctcttgggtttcaacggttaagggataacgctta Intra-Species Hit: Count: 1 Min: 1 Max: 175 Len: 175 Subject: pint_PI0160_PI0161|conserved hypothetical protein:possible TonB receptor|POSITIVE:POSITIVE|[153329,153503]|175 HSP 1 e-value: 8.0E-95 bit: 347.0 Len: 175 Query Start:1 Query End:175 Subject Strand: POSITIVE Subject Start: 1 Subject End: 175 tagtaagttcgatacgattcaagaataacagagaaagaggcagaatacggttgctgctgctttctctgttttttattagaagcagccgaaactgtttgttggaaacgaaaagagggcacatcaaaaacaatttgatgtgccctcttgggtttcaacggttaagggataacgctta tagtaagttcgatacgattcaagaataacagagaaagaggcagaatacggttgctgctgctttctctgttttttattagaagcagccgaaactgtttgttggaaacgaaaagagggcacatcaaaaacaatttgatgtgccctcttgggtttcaacggttaagggataacgctta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGUAAGUUCGAUACGAUUCAAGAAUAACAGAGAAAGAGGCAGAAUACGGUUGCUGCUGCUUUCUCUGUUUUUUAUUAGAAGCAGCCGAAACUGUUUGUUGGAAACGAAAAGAGGGCACAUCAAAAACAAUUUGAUGUGCCCUCUUGGGUUUCAACGGUUAAGGGAUAACGCUUA ...(((((..............(((.(((((((((((.(((((..........))))).))))))))))).)))...........((..(((((((.....(((((...((((((((((((((((.....))))))))))))))))..))))))))))))..))......))))) (-64.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGCGUUAUCCCUUAACCGUUGAAACCCAAGAGGGCACAUCAAAUUGUUUUUGAUGUGCCCUCUUUUCGUUUCCAACAAACAGUUUCGGCUGCUUCUAAUAAAAAACAGAGAAAGCAGCAGCAACCGUAUUCUGCCUCUUUCUCUGUUAUUCUUGAAUCGUAUCGAACUUACUA .....((((.....)))).((((((((..((((((((((((((((.....))))))))))))))))...)))).))))....((((((((.((((((........(((((((((((..((((..........))))..)))))))))))......)))..))))))))...))). (-57.94) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 371 69 27 212 157 pint:PI1671|5end_hypothetical_protein_1586397..1586627_POSITIVE 336 146 112 157 122 pint:PI1086|5end_pyruvate:ferredoxin_oxidoreductase_1006602..1006832_POSITIVE 331 107 61 227 175 pint:PI1826|5end_ATP-dependent_DNA_helicase_1765650..1765880_POSITIVE 331 78 38 129 92 pint:PI0989|5end_mannose-1-phosphate_guanylyltransferase_912833..913063_POSITIVE 331 68 28 183 145 pint:PI0404|5end_integrase_371295..371525_POSITIVE 324 89 45 173 133 pint:PI0889|5end_pyruvate_kinase_818758..818988_POSITIVE 324 89 46 91 45 pint:PI0176|5end_hypothetical_protein_168230..168460_POSITIVE 322 58 11 123 64 pint:PI0272|5end_conserved_hypothetical_protein_262621..262851_POSITIVE 319 169 132 219 171 pint:PI1929|5end_conserved_hypothetical_protein;_possible_ankyrin_repeat_protein_(eukaryotic-like)_1873387..1873617_POSITIVE 312 69 27 189 142 pint:PI0661|5end_hypothetical_protein_603956..604186_POSITIVE 310 160 111 171 114 pint:PI1463|5end_fumarate_hydratase,_class_I_1385349..1385579_POSITIVE 309 130 81 69 13 pint:PI0280|5end_conserved_hypothetical_protein_266001..266231_POSITIVE 303 160 111 170 120 pint:PI0799|5end_alpha-amylase_family_protein_737083..737313_POSITIVE 288 50 8 113 79 pint:PI1056|5end_cell-division_ATP-binding_protein_976247..976477_POSITIVE 288 146 103 205 164 pint:PI0489|5end_probable_cardiolipin_synthetase_447610..447840_POSITIVE 286 147 102 118 72 pint:PI2082|5end_hypothetical_protein_2039878..2040108_POSITIVE 286 120 73 198 146 pint:PI1675|5end_TonB-dependent_outer_membrane_receptor_1588107..1588337_POSITIVE 286 69 28 101 59 pint:PI0018|5end_hypothetical_protein_23022..23252_POSITIVE 285 61 21 122 77 pint:PI0082|5end_conserved_hypothetical_protein_(possible_phosphoglycerol_transferase)_80775..81005_POSITIVE 281 72 35 126 93 pint:PI0038|5end_transcriptional_regulator,_LysR_family_39578..39808_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 401 70 27 64 21 pint:PI0160|3end_conserved_hypothetical_protein_153268..153418_POSITIVE 320 74 39 128 85 pint:PI0674|3end_conserved_hypothetical_protein_616154..616304_POSITIVE 317 163 132 150 108 pint:PI1928|3end_conserved_hypothetical_protein_1873404..1873554_POSITIVE 316 67 30 58 16 pint:PI0618|3end_acyl-CoA_dehydrogenase_family_protein_569213..569363_POSITIVE 312 69 27 150 103 pint:PI0660|3end_conserved_hypothetical_protein_603997..604147_POSITIVE 310 160 111 125 68 pint:PI1462|3end_hypothetical_protein_1385383..1385533_POSITIVE 309 130 81 69 13 pint:PI0279|3end_hypothetical_protein_266081..266231_POSITIVE 305 69 25 64 21 pint:PI0141|3end_glutamine_amidotransferase_involved_in_pyridoxine_biosynthesis_133308..133458_POSITIVE 288 50 8 88 54 pint:PI1055|3end_aspartokinase_976302..976452_POSITIVE 288 146 103 52 11 pint:PI0488|3end_conserved_hypothetical_protein_447537..447687_POSITIVE 285 59 11 148 93 pint:PI0155|3end_conserved_hypothetical_protein_148687..148837_POSITIVE 281 72 35 84 51 pint:PI0037|3end_hypothetical_protein_39616..39766_POSITIVE 275 63 25 147 106 pint:PI1271|3end_transcriptional_regulator,__AraC/XylS_family_1191284..1191434_POSITIVE 267 89 41 80 41 pint:PI1366|3end_conserved_hypothetical_protein;_possible_hydrolase,_HAD_superfamily_1286647..1286797_POSITIVE 266 117 77 55 11 pint:PI1204|3end_hypothetical_protein_1124635..1124785_POSITIVE 264 56 28 141 114 pint:PI0724|3end_DNA_polymerase_III,_delta_subunit_658601..658751_POSITIVE 261 70 30 48 4 pint:PI2093|3end_hypothetical_protein_2049440..2049590_POSITIVE 261 70 28 66 23 pint:PI1467|3end_conserved_hypothetical_protein_1393909..1394059_POSITIVE 261 72 31 145 99 pint:PI0698|3end_conserved_hypothetical_protein_636711..636861_POSITIVE 259 117 78 58 23 pint:PI1640|3end_hypothetical_protein_1558558..1558708_POSITIVE