Origin IGS: taatgacattataacaccattgtaatatgcttctaacgctatttgacagatacggaaatgtaaaggcggaaatagagcctgacaacagcagcacgcaagagaaggagattcagggagacaacctgctgaagctctctttcacc .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ggtgaaagagagcttcagcaggttgtctccctgaatctccttctcttgcgtgctgctgttgtcaggctctatttccgcctttacatttccgtatctgtcaaatagcgttagaagcatattacaatggtgttataatgtcatta Mask Tandem Repeat Region ================================================ taatgacattataacaccattgtaatatgcttctaacgctatttgacagatacggaaatgtaaaggcggaaatagagcctgacaacagcagcacgcaagagaaggagattcagggagacaacctgctgaagctctctttcacc Find is-nt database================================================ Query_seq: PI0362:PI0364|PI0362:PI0364:hypothetical protein:hypothetical protein:->->:333999..334141 143 taatgacattataacaccattgtaatatgcttctaacgctatttgacagatacggaaatgtaaaggcggaaatagagcctgacaacagcagcacgcaagagaaggagattcagggagacaacctgctgaagctctctttcacc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0362:PI0364|PI0362:PI0364:hypothetical protein:hypothetical protein:->->:333999..334141 143 taatgacattataacaccattgtaatatgcttctaacgctatttgacagatacggaaatgtaaaggcggaaatagagcctgacaacagcagcacgcaagagaaggagattcagggagacaacctgctgaagctctctttcacc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0362:PI0364|PI0362:PI0364:hypothetical protein:hypothetical protein:->->:333999..334141 143 taatgacattataacaccattgtaatatgcttctaacgctatttgacagatacggaaatgtaaaggcggaaatagagcctgacaacagcagcacgcaagagaaggagattcagggagacaacctgctgaagctctctttcacc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taatgacattataacaccattgtaatatgcttctaacgctatttgacagatacggaaatgtaaaggcggaaatagagcctgacaacagcagcacgcaagagaaggagattcagggagacaacctgctgaagctctctttcacc Predict ORF larger than 30AA ================================================ Protein_Len: 39 Strand: + Start: 27 End: 143 .......................... M L L T L F D R Y G N V K A E I E P D N S S T Q E K E I Q G D N L L K L S F T Protein_Len: 36 Strand: - Start: 2 End: 109 . I V N Y C W Q L I S R V S N S L Y P F T F A S I S G S L L L V C S F S M .................................. taatgacattataacaccattgtaatatgcttctaacgctatttgacagatacggaaatgtaaaggcggaaatagagcctgacaacagcagcacgcaagagaaggagattcagggagacaacctgctgaagctctctttcacc Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: - Score: 81 Start: 8 End: 37 .......GTTAGAAGCATATTACAATGGTGTTATAAT.......................................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ taatgacattataacaccattgtaatatgcttctaacgctatttgacagatacggaaatgtaaaggcggaaatagagcctgacaacagcagcacgcaagagaaggagattcagggagacaacctgctgaagctctctttcacc Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI0362:PI0364|PI0362:PI0364:hypothetical protein:hypothetical protein:->->:333999..334141 143 taatgacattataacaccattgtaatatgcttctaacgctatttgacagatacggaaatgtaaaggcggaaatagagcctgacaacagcagcacgcaagagaaggagattcagggagacaacctgctgaagctctctttcacc Intra-Species Hit: Count: 1 Min: 1 Max: 143 Len: 143 Subject: pint_PI0362_PI0364|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[333999,334141]|143 HSP 1 e-value: 8.0E-76 bit: 283.0 Len: 143 Query Start:1 Query End:143 Subject Strand: POSITIVE Subject Start: 1 Subject End: 143 taatgacattataacaccattgtaatatgcttctaacgctatttgacagatacggaaatgtaaaggcggaaatagagcctgacaacagcagcacgcaagagaaggagattcagggagacaacctgctgaagctctctttcacc taatgacattataacaccattgtaatatgcttctaacgctatttgacagatacggaaatgtaaaggcggaaatagagcctgacaacagcagcacgcaagagaaggagattcagggagacaacctgctgaagctctctttcacc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUGACAUUAUAACACCAUUGUAAUAUGCUUCUAACGCUAUUUGACAGAUACGGAAAUGUAAAGGCGGAAAUAGAGCCUGACAACAGCAGCACGCAAGAGAAGGAGAUUCAGGGAGACAACCUGCUGAAGCUCUCUUUCACC ...................((((....((((.....((.((((.....))))))....(((..((((.........)))).)))..))))....))))..(((((((((((((((......))..)))))..))))))))... (-28.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GGUGAAAGAGAGCUUCAGCAGGUUGUCUCCCUGAAUCUCCUUCUCUUGCGUGCUGCUGUUGUCAGGCUCUAUUUCCGCCUUUACAUUUCCGUAUCUGUCAAAUAGCGUUAGAAGCAUAUUACAAUGGUGUUAUAAUGUCAUUA (((((((.(((((((((((((..(((......(((.....)))....)))..)))))).....))))))).))).)))).....................(((..(((((..(((((.........))))).)))))..))). (-30.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 354 119 74 121 65 pint:PI1199|5end_possible_acetyltransferase_1115139..1115369_POSITIVE 346 119 73 229 191 pint:PI2138|5end_nicotinate_phosphoribosyltransferase_2083836..2084066_POSITIVE 342 100 51 130 84 pint:PI1823|5end_inorganic_polyphosphate/ATP-NAD_kinase_(Poly(P)/ATP_NAD_kinase)_1763238..1763468_POSITIVE 334 108 65 63 21 pint:PI0224|5end_conserved_hypothetical_protein_220541..220771_POSITIVE 322 128 83 80 22 pint:PI0519|5end_5'-nucleotidase/2',3'-cyclic_phosphodiesterase_477953..478183_POSITIVE 319 129 88 75 25 pint:PI1362|5end_60Kd_inner_membrane_protein_1279820..1280050_POSITIVE 318 95 54 116 85 pint:PI0375|5end_hypothetical_protein_345634..345864_POSITIVE 317 136 91 217 170 pint:PI2094|5end_hypothetical_protein_2049540..2049770_POSITIVE 317 95 54 116 85 pint:PI1543|5end_hypothetical_protein_1462773..1463003_POSITIVE 316 119 75 198 147 pint:PI0421|5end_hypothetical_protein_387503..387733_POSITIVE 316 119 75 101 50 pint:PI0422|5end_conserved_hypothetical_protein_387406..387636_POSITIVE 315 109 63 184 132 pint:PI0222|5end_conserved_hypothetical_protein_217808..218038_POSITIVE 313 118 74 147 108 pint:PI1187|5end_conserved_hypothetical_protein_1106692..1106922_POSITIVE 312 118 77 219 175 pint:PI1549|5end_conserved_hypothetical_protein_1467021..1467251_POSITIVE 312 107 65 55 20 pint:PI0185|5end_conserved_hypothetical_protein_176992..177222_POSITIVE 310 120 72 172 123 pint:PI1865|5end_chromate_transport_protein_1810935..1811165_POSITIVE 307 127 87 185 150 pint:PI0979|5end_transcriptional_regulator,_tetR_family_905044..905274_POSITIVE 306 110 65 106 52 pint:PI1854|5end_possible_glycosyl_transferase_1800925..1801155_POSITIVE 306 116 74 62 15 pint:PI0120|5end_glutamate_racemase_111778..112008_POSITIVE 299 130 86 79 27 pint:PI1729|5end_FKBP-type_peptidyl-prolyl_cis-trans_isomerase,_trigger_factor_1648416..1648646_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 354 119 74 121 65 pint:PI1198|3end_acetyltransferase_1115219..1115369_POSITIVE 346 119 73 120 82 pint:PI2137|3end_RNA_methylase_SpoU_family_2083807..2083957_POSITIVE 345 121 83 83 38 pint:PI0422|3end_conserved_hypothetical_protein_388025..388175_POSITIVE 342 100 51 77 31 pint:PI1822|3end_ABC_transporter,_ATP-binding_/_permease_1763265..1763415_POSITIVE 335 132 91 60 19 pint:PI2167|3end_hypothetical_protein_2111891..2112041_POSITIVE 319 129 88 68 18 pint:PI1361|3end_CTP_synthase_(UTP-ammonia_lyase)_1279893..1280043_POSITIVE 318 95 54 129 98 pint:PI0374|3end_MbpB_protein_345727..345877_POSITIVE 317 95 54 129 98 pint:PI1542|3end_mobilization_protein_1462866..1463016_POSITIVE 316 119 75 76 25 pint:PI0419|3end_conserved_hypothetical_protein_387461..387611_POSITIVE 315 109 63 92 40 pint:PI0221|3end_DNA_methylase,_site-specific_DNA-methyltransferase_(adenine-specific)_217796..217946_POSITIVE 313 118 74 147 108 pint:PI1186|3end_conserved_hypothetical_protein_1106772..1106922_POSITIVE 299 100 74 143 111 pint:PI1572|3end_hypothetical_protein_1498215..1498365_POSITIVE 297 110 63 112 62 pint:PI0553|3end_recombination_protein_504383..504533_POSITIVE 296 97 53 149 99 pint:PI1788|3end_hypothetical_protein_1718707..1718857_POSITIVE 296 128 84 61 14 pint:PI1159|3end_1,4-alpha-glucan_branching_enzyme,_N-terminal_region_1084757..1084907_POSITIVE 288 140 93 89 33 pint:PI1897|3end_conserved_hypothetical_protein_1841235..1841385_POSITIVE 287 109 63 58 14 pint:PI1204|3end_hypothetical_protein_1124635..1124785_POSITIVE 287 105 69 67 27 pint:PI0188|3end_phosphomethylpyrimidine_kinase_179670..179820_POSITIVE 286 107 65 58 10 pint:PI1237|3end_ATP-dependent_DNA_helicase_1161480..1161630_POSITIVE 285 100 51 51 6 pint:PI0877|3end_hypothetical_protein_812810..812960_POSITIVE