Origin IGS: tagcggttttaggtgctgattattataccatcgtatagtttcgcttattggttttcccacataattggttgccactcttatgcagaaattcctcttgtgcaactcctatcaagggcataaatagatta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taatctatttatgcccttgataggagttgcacaagaggaatttctgcataagagtggcaaccaattatgtgggaaaaccaataagcgaaactatacgatggtataataatcagcacctaaaaccgcta Mask Tandem Repeat Region ================================================ tagcggttttaggtgctgattattataccatcgtatagtttcgcttattggttttcccacataattggttgccactcttatgcagaaattcctcttgtgcaactcctatcaagggcataaatagatta Find is-nt database================================================ Query_seq: PI1604:PI1605|PI1604:PI1605:hypothetical protein:conserved hypothetical protein:->->:1534256..1534383 128 tagcggttttaggtgctgattattataccatcgtatagtttcgcttattggttttcccacataattggttgccactcttatgcagaaattcctcttgtgcaactcctatcaagggcataaatagatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1604:PI1605|PI1604:PI1605:hypothetical protein:conserved hypothetical protein:->->:1534256..1534383 128 tagcggttttaggtgctgattattataccatcgtatagtttcgcttattggttttcccacataattggttgccactcttatgcagaaattcctcttgtgcaactcctatcaagggcataaatagatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1604:PI1605|PI1604:PI1605:hypothetical protein:conserved hypothetical protein:->->:1534256..1534383 128 tagcggttttaggtgctgattattataccatcgtatagtttcgcttattggttttcccacataattggttgccactcttatgcagaaattcctcttgtgcaactcctatcaagggcataaatagatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tagcggttttaggtgctgattattataccatcgtatagtttcgcttattggttttcccacataattggttgccactcttatgcagaaattcctcttgtgcaactcctatcaagggcataaatagatta Predict ORF larger than 30AA ================================================ Protein_Len: 35 Strand: + Start: 13 End: 117 ............ M L I I I P S Y S F A Y W F S H I I G C H S Y A E I P L V Q L L S R A ........... Protein_Len: 31 Strand: - Start: 26 End: 118 ......................... V M T Y N R K N T K G C L Q N G S K H L F E E Q A V G I L P M .......... Protein_Len: 34 Strand: - Start: 1 End: 102 L P K L H Q N N Y W R I T E S I P K G V Y N T A V R I C F N R K H M .......................... tagcggttttaggtgctgattattataccatcgtatagtttcgcttattggttttcccacataattggttgccactcttatgcagaaattcctcttgtgcaactcctatcaagggcataaatagatta 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================================================ tagcggttttaggtgctgattattataccatcgtatagtttcgcttattggttttcccacataattggttgccactcttatgcagaaattcctcttgtgcaactcctatcaagggcataaatagatta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI1604:PI1605|PI1604:PI1605:hypothetical protein:conserved hypothetical protein:->->:1534256..1534383 128 tagcggttttaggtgctgattattataccatcgtatagtttcgcttattggttttcccacataattggttgccactcttatgcagaaattcctcttgtgcaactcctatcaagggcataaatagatta Intra-Species Hit: Count: 1 Min: 1 Max: 128 Len: 128 Subject: pint_PI1604_PI1605|hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[1534256,1534383]|128 HSP 1 e-value: 6.0E-67 bit: 254.0 Len: 128 Query Start:1 Query End:128 Subject Strand: POSITIVE Subject Start: 1 Subject End: 128 tagcggttttaggtgctgattattataccatcgtatagtttcgcttattggttttcccacataattggttgccactcttatgcagaaattcctcttgtgcaactcctatcaagggcataaatagatta tagcggttttaggtgctgattattataccatcgtatagtttcgcttattggttttcccacataattggttgccactcttatgcagaaattcctcttgtgcaactcctatcaagggcataaatagatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGCGGUUUUAGGUGCUGAUUAUUAUACCAUCGUAUAGUUUCGCUUAUUGGUUUUCCCACAUAAUUGGUUGCCACUCUUAUGCAGAAAUUCCUCUUGUGCAACUCCUAUCAAGGGCAUAAAUAGAUUA ..(((....((((((......(((((((....)))))))..)))))).((((....(((......)))..))))......)))...........((((((....(((....)))))))))........ (-20.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUCUAUUUAUGCCCUUGAUAGGAGUUGCACAAGAGGAAUUUCUGCAUAAGAGUGGCAACCAAUUAUGUGGGAAAACCAAUAAGCGAAACUAUACGAUGGUAUAAUAAUCAGCACCUAAAACCGCUA ........(((((((.(((((((...((((......((..((((..(((((..(.(....))..)))))..))))..)).....))))..)))).))).))))))).....(((..........))). (-31.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 333 88 41 225 181 pint:PI2126|5end_conserved_hypothetical_protein_2074907..2075137_POSITIVE 315 58 13 203 151 pint:PI0528|5end_hypothetical_protein_482791..483021_POSITIVE 292 117 82 169 131 pint:PI0781|5end_UDP-glucose/GDP-mannose_dehydrogenase_family;_probable__UDP-glucose_6-dehydrogenase_719260..719490_POSITIVE 283 100 60 138 98 pint:PI0387|5end_hypothetical_protein_354631..354861_POSITIVE 280 100 51 149 98 pint:PI1706|5end_GTP-binding_protein_1622770..1623000_POSITIVE 278 83 41 144 97 pint:PI1684|5end_dimethyladenosine_transferase_1601073..1601303_POSITIVE 275 117 72 64 11 pint:PI1403|5end_conserved_hypothetical_protein_1323920..1324150_POSITIVE 269 77 31 59 19 pint:PI0356|5end_hypothetical_protein_326642..326872_POSITIVE 267 77 42 107 69 pint:PI0727|5end_integrase_659261..659491_POSITIVE 267 73 31 53 1 pint:PI0198|5end_hypothetical_protein_190719..190949_POSITIVE 265 110 67 226 181 pint:PI0697|5end_5'-nucleotidase_family_protein_633560..633790_POSITIVE 263 118 71 178 113 pint:PI0068|5end_arginine_repressor_66586..66816_POSITIVE 261 107 64 62 17 pint:PI0097|5end_aspartate_aminotransferase_93235..93465_POSITIVE 259 109 66 131 78 pint:PI1341|5end_hypothetical_protein_1257568..1257798_POSITIVE 257 106 66 62 6 pint:PI2051|5end_hypothetical_protein_2007567..2007797_POSITIVE 250 74 31 211 170 pint:PI0052|5end_hypothetical_protein_52312..52542_POSITIVE 246 54 12 64 16 pint:PI1354|5end_UDP-N-acetylglucosamine_2-epimerase_1270900..1271130_POSITIVE 244 103 65 64 17 pint:PI1191|5end_phosphoribosyl_pyrophosphate_synthetase_1109464..1109694_POSITIVE 244 60 37 202 175 pint:PI0543|5end_adenylate_kinase_495073..495303_POSITIVE 244 77 31 124 81 pint:PI0155|5end_conserved_hypothetical_protein_148290..148520_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 303 50 4 104 51 pint:PI0225|3end_conserved_hypothetical_protein_222759..222909_POSITIVE 299 76 37 89 48 pint:PI0874|3end_conserved_hypothetical_protein_810281..810431_POSITIVE 283 100 60 67 27 pint:PI0386|3end_integrase_354640..354790_POSITIVE 277 53 12 100 60 pint:PI1623|3end_hypothetical_protein_1549261..1549411_POSITIVE 263 118 71 98 33 pint:PI0067|3end_hypothetical_protein_66586..66736_POSITIVE 261 107 64 52 7 pint:PI0096|3end_glycerol-3-phosphate_cytidylyltransferase_93305..93455_POSITIVE 254 69 29 68 29 pint:PI1000|3end_conserved_hypothetical_protein_923672..923822_POSITIVE 248 86 43 44 6 pint:PI0355|3end_probable__N-acetylmuramoyl-L-alanine_amidase_326698..326848_POSITIVE 244 60 37 58 31 pint:PI0541|3end_GTP-binding_protein,_GTP1/OBG_family_495009..495159_POSITIVE 244 53 13 130 91 pint:PI0331|3end_hypothetical_protein_312575..312725_POSITIVE 244 53 13 100 61 pint:PI0330|3end_hypothetical_protein_312545..312695_POSITIVE 244 77 31 65 22 pint:PI0154|3end_possible_UDP-2,3-diacylglucosamine_hydrolase_148311..148461_POSITIVE 239 57 11 151 107 pint:PI0199|3end_phosphate_acetyltransferase_190923..191073_POSITIVE 238 103 61 132 84 pint:PI0760|3end_ATP-dependent_RNA_helicase,_DEAD/DEAH_box_family_695989..696139_POSITIVE 236 46 4 116 78 pint:PI2141|3end_hypothetical_protein_2087557..2087707_POSITIVE 235 104 69 128 96 pint:PI1705|3end_3-oxoacyl-(acyl-carrier-protein)_synthase_III_1622706..1622856_POSITIVE 234 74 32 133 88 pint:PI0654|3end_K+-dependent_Na+/Ca+_exchanger_related-protein_597223..597373_POSITIVE 233 35 1 65 34 pint:PI1681|3end_Mg2+/Co2+_transporter_1598129..1598279_POSITIVE 232 107 65 103 68 pint:PI1734|3end_possible_carboxyl-terminal_protease-related_protein_1653829..1653979_POSITIVE 232 83 42 86 43 pint:PI1424|3end_probable_peptidase_family_M48_1344044..1344194_POSITIVE