Origin IGS: aagcaagaaaaagaaaatctatcccccgactaaccttccattgaactcgttgctttatcaaaataaaactaagcagacaagttgttatacccaaacaaaaaggcactcccgatgtaggagtgcctttttatttatatgcgaacgaaaggttta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaacctttcgttcgcatataaataaaaaggcactcctacatcgggagtgcctttttgtttgggtataacaacttgtctgcttagttttattttgataaagcaacgagttcaatggaaggttagtcgggggatagattttctttttcttgctt Mask Tandem Repeat Region ================================================ aagcaagaaaaagaaaatctatcccccgactaaccttccattgaactcgttgctttatcaaaataaaactaagcagacaagttgttatacccaaacaaaaaggcactcccgatgtaggagtgcctttttatttatatgcgaacgaaaggttta Find is-nt database================================================ Query_seq: PI1679:PI1680|PI1679:PI1680:hypothetical protein:conserved hypothetical protein:->->:1595025..1595177 153 aagcaagaaaaagaaaatctatcccccgactaaccttccattgaactcgttgctttatcaaaataaaactaagcagacaagttgttatacccaaacaaaaaggcactcccgatgtaggagtgcctttttatttatatgcgaacgaaaggttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1679:PI1680|PI1679:PI1680:hypothetical protein:conserved hypothetical protein:->->:1595025..1595177 153 aagcaagaaaaagaaaatctatcccccgactaaccttccattgaactcgttgctttatcaaaataaaactaagcagacaagttgttatacccaaacaaaaaggcactcccgatgtaggagtgcctttttatttatatgcgaacgaaaggttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1679:PI1680|PI1679:PI1680:hypothetical protein:conserved hypothetical protein:->->:1595025..1595177 153 aagcaagaaaaagaaaatctatcccccgactaaccttccattgaactcgttgctttatcaaaataaaactaagcagacaagttgttatacccaaacaaaaaggcactcccgatgtaggagtgcctttttatttatatgcgaacgaaaggttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aagcaagaaaaagaaaatctatcccccgactaaccttccattgaactcgttgctttatcaaaataaaactaagcagacaagttgttatacccaaacaaaaaggcactcccgatgtaggagtgcctttttatttatatgcgaacgaaaggttta Predict ORF larger than 30AA ================================================ Protein_Len: 45 Strand: + Start: 17 End: 151 ................ M Y P P T N L P L N S L L Y Q N K T K Q T S C Y T Q T K R H S R C R S A F L F I C E R K V .. Protein_Len: 32 Strand: + Start: 57 End: 152 ........................................................ M K I K L S R Q V V I P K Q K G T P D V G V P F Y L Y A N E R F . Protein_Len: 35 Strand: - Start: 2 End: 106 . A L F L F D I G R S V K W Q V R Q K I L I F S L L C T T I G L C F P M ............................................... aagcaagaaaaagaaaatctatcccccgactaaccttccattgaactcgttgctttatcaaaataaaactaagcagacaagttgttatacccaaacaaaaaggcactcccgatgtaggagtgcctttttatttatatgcgaacgaaaggttta 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================================================ aagcaagaaaaagaaaatctatcccccgactaaccttccattgaactcgttgctttatcaaaataaaactaagcagacaagttgttatacccaaacaaaaaggcactcccgatgtaggagtgcctttttatttatatgcgaacgaaaggttta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 100 HP_score: -10.6 Tail_Score: -5.42975 Start: 102 End: 124 Full_Region: ATACCCAAACAAAAA GGCACTCC CGATGTA GGAGTGCC TTTTTATTTATATGC .....................................................................................................GGCACTCCCGATGTAGGAGTGCC............................. Find igs database================================================ Query_seq: PI1679:PI1680|PI1679:PI1680:hypothetical protein:conserved hypothetical protein:->->:1595025..1595177 153 aagcaagaaaaagaaaatctatcccccgactaaccttccattgaactcgttgctttatcaaaataaaactaagcagacaagttgttatacccaaacaaaaaggcactcccgatgtaggagtgcctttttatttatatgcgaacgaaaggttta Intra-Species Hit: Count: 1 Min: 1 Max: 153 Len: 153 Subject: pint_PI1679_PI1680|hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[1595025,1595177]|153 HSP 1 e-value: 9.0E-82 bit: 303.0 Len: 153 Query Start:1 Query End:153 Subject Strand: POSITIVE Subject Start: 1 Subject End: 153 aagcaagaaaaagaaaatctatcccccgactaaccttccattgaactcgttgctttatcaaaataaaactaagcagacaagttgttatacccaaacaaaaaggcactcccgatgtaggagtgcctttttatttatatgcgaacgaaaggttta aagcaagaaaaagaaaatctatcccccgactaaccttccattgaactcgttgctttatcaaaataaaactaagcagacaagttgttatacccaaacaaaaaggcactcccgatgtaggagtgcctttttatttatatgcgaacgaaaggttta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAGCAAGAAAAAGAAAAUCUAUCCCCCGACUAACCUUCCAUUGAACUCGUUGCUUUAUCAAAAUAAAACUAAGCAGACAAGUUGUUAUACCCAAACAAAAAGGCACUCCCGAUGUAGGAGUGCCUUUUUAUUUAUAUGCGAACGAAAGGUUUA ...............................((((((.(....((((.(((((((...............))))).)).)))).........(((.(((((((((((((.......))))))))))))).)))..........).)))))).. (-32.06) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAACCUUUCGUUCGCAUAUAAAUAAAAAGGCACUCCUACAUCGGGAGUGCCUUUUUGUUUGGGUAUAACAACUUGUCUGCUUAGUUUUAUUUUGAUAAAGCAACGAGUUCAAUGGAAGGUUAGUCGGGGGAUAGAUUUUCUUUUUCUUGCUU ..(((((((((((.((...(((((((((((((((((((.....))))))))))))))))))).)).....(((((((.(((((.(((.......))).)))))))))))).))))))))))).(.((((..(.((.....)).)..))))).. (-56.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 315 128 90 193 145 pint:PI0815|5end_hypothetical_protein_754475..754705_POSITIVE 311 139 102 214 175 pint:PI0223|5end_topoisomerase_IA_218377..218607_POSITIVE 300 148 101 215 169 pint:PI0167|5end_hypothetical_protein_163164..163394_POSITIVE 294 150 109 228 189 pint:PI1870|5end_hypothetical_protein_1815302..1815532_POSITIVE 294 150 109 57 18 pint:PI1869|5end_hypothetical_protein_1815131..1815361_POSITIVE 283 150 109 153 95 pint:PI0235|5end_hypothetical_protein_234938..235168_POSITIVE 281 149 101 65 5 pint:PI0024|5end_hypothetical_protein_28378..28608_POSITIVE 278 112 72 139 96 pint:PI0791|5end_conserved_hypothetical_protein_728361..728591_POSITIVE 278 150 102 215 150 pint:PI0146|5end_transcription_elongation_factor_140338..140568_POSITIVE 275 118 81 48 8 pint:PI1749|5end_conserved_hypothetical_protein_1671039..1671269_POSITIVE 273 148 101 161 110 pint:PI2015|5end_D-alanine--D-alanine_ligase_1972724..1972954_POSITIVE 271 85 46 98 63 pint:PI0525|5end_transcriptional_regulator,_Arac_family_481332..481562_POSITIVE 269 150 103 97 40 pint:PI0797|5end_tRNA_pseudouridine_synthase_A_(pseudouridylate_synthase)_735016..735246_POSITIVE 266 146 101 168 129 pint:PI0890|5end_ribose_5-phosphate_isomerase_B_820417..820647_POSITIVE 265 135 93 159 102 pint:PI1092|5end_conserved_hypothetical_protein_1016780..1017010_POSITIVE 264 117 71 74 21 pint:PI1066|5end_dihydrofolate_reductase_983427..983657_POSITIVE 253 147 101 222 169 pint:PI0963|5end_hypothetical_protein_893198..893428_POSITIVE 253 127 82 55 1 pint:PI0260|5end_conjugative_transposon_protein,_TraJ_253023..253253_POSITIVE 253 149 101 163 109 pint:PI0164|5end_conserved_hypothetical_protein_158478..158708_POSITIVE 249 150 113 179 148 pint:PI0977|5end_riboflavin_synthase,_alpha_subunit_904043..904273_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 315 128 90 64 16 pint:PI0814|3end_conserved_hypothetical_protein_754426..754576_POSITIVE 303 149 101 83 39 pint:PI1892|3end_UDP-N-acetylmuramoylalanine--D-glutamate_ligase_1835547..1835697_POSITIVE 286 115 73 122 78 pint:PI0024|3end_hypothetical_protein_28559..28709_POSITIVE 283 150 109 116 58 pint:PI0234|3end_integrase_234981..235131_POSITIVE 279 127 81 60 3 pint:PI0932|3end_conserved_hypothetical_protein;_possible_hemin_receptor_865364..865514_POSITIVE 278 112 72 83 40 pint:PI0789|3end_NAD-utilizing_dehydrogenase_728385..728535_POSITIVE 273 148 101 146 95 pint:PI2013|3end_hypothetical_protein_1972789..1972939_POSITIVE 260 124 96 151 121 pint:PI1062|3end_TPR_repeat_protein_980780..980930_POSITIVE 256 148 101 128 92 pint:PI0494|3end_hypothetical_protein_455170..455320_POSITIVE 253 150 103 84 23 pint:PI1469|3end_hypothetical_protein_1395344..1395494_POSITIVE 252 130 92 65 24 pint:PI0447|3end_DNA-directed_RNA_polymerase,_beta'_subunit_421755..421905_POSITIVE 245 120 71 85 51 pint:PI2074|3end_conserved_hypothetical_protein_2034375..2034525_POSITIVE 243 118 71 86 37 pint:PI1676|3end_phosphatidate_cytidylyltransferase_1591773..1591923_POSITIVE 242 140 109 96 67 pint:PI1664|3end_conserved_hypothetical_protein_1578090..1578240_POSITIVE 242 52 22 121 96 pint:PI0513|3end_ion_transporter_472371..472521_POSITIVE 240 144 101 125 64 pint:PI0778|3end_hypothetical_protein_714885..715035_POSITIVE 239 135 101 53 5 pint:PI1091|3end_transcriptional_regulator,_AsnC_family_1016754..1016904_POSITIVE 239 84 42 75 32 pint:PI0404|3end_integrase_372526..372676_POSITIVE 236 149 108 110 75 pint:PI1924|3end_cytidine_deaminase_1866495..1866645_POSITIVE 233 52 18 127 94 pint:PI1979|3end_conserved_hypothetical_protein_1937327..1937477_POSITIVE