Origin IGS: agcgtagttatcactttttaacagaattatctttacaaagttaaactaaaaatctctcactattttattagcgaagaatacttgaaacatctgagaaatgcctgcttgaactgctttcttatactgacctctcgcctcgttgtactgcaagtataaccgcattgtgctaaaatgtttgttttgcttcgagtgtcttttcctgcttttgccagatacctctggtaggtattcaacttgtttgtatagtgcacaaaaaatccctacaagcagcattgagtctgtttgtagggattttattatgttgccttagcagcttttcagcgacttgctgctgtgggtttagcgttgctta .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 taagcaacgctaaacccacagcagcaagtcgctgaaaagctgctaaggcaacataataaaatccctacaaacagactcaatgctgcttgtagggattttttgtgcactatacaaacaagttgaatacctaccagaggtatctggcaaaagcaggaaaagacactcgaagcaaaacaaacattttagcacaatgcggttatacttgcagtacaacgaggcgagaggtcagtataagaaagcagttcaagcaggcatttctcagatgtttcaagtattcttcgctaataaaatagtgagagatttttagtttaactttgtaaagataattctgttaaaaagtgataactacgct Mask Tandem Repeat Region ================================================ agcgtagttatcactttttaacagaattatctttacaaagttaaactaaaaatctctcactattttattagcgaagaatacttgaaacatctgagaaatgcctgcttgaactgctttcttatactgacctctcgcctcgttgtactgcaagtataaccgcattgtgctaaaatgtttgttttgcttcgagtgtcttttcctgcttttgccagatacctctggtaggtattcaacttgtttgtatagtgcacaaaaaatccctacaagcagcattgagtctgtttgtagggattttattatgttgccttagcagcttttcagcgacttgctgctgtgggtttagcgttgctta Find is-nt database================================================ Query_seq: PI0061:PI0062|PI0061:PI0062:hypothetical protein:endopeptidase:->->:60751..61102 352 agcgtagttatcactttttaacagaattatctttacaaagttaaactaaaaatctctcactattttattagcgaagaatacttgaaacatctgagaaatgcctgcttgaactgctttcttatactgacctctcgcctcgttgtactgcaagtataaccgcattgtgctaaaatgtttgttttgcttcgagtgtcttttcctgcttttgccagatacctctggtaggtattcaacttgtttgtatagtgcacaaaaaatccctacaagcagcattgagtctgtttgtagggattttattatgttgccttagcagcttttcagcgacttgctgctgtgggtttagcgttgctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI0061:PI0062|PI0061:PI0062:hypothetical protein:endopeptidase:->->:60751..61102 352 agcgtagttatcactttttaacagaattatctttacaaagttaaactaaaaatctctcactattttattagcgaagaatacttgaaacatctgagaaatgcctgcttgaactgctttcttatactgacctctcgcctcgttgtactgcaagtataaccgcattgtgctaaaatgtttgttttgcttcgagtgtcttttcctgcttttgccagatacctctggtaggtattcaacttgtttgtatagtgcacaaaaaatccctacaagcagcattgagtctgtttgtagggattttattatgttgccttagcagcttttcagcgacttgctgctgtgggtttagcgttgctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI0061:PI0062|PI0061:PI0062:hypothetical protein:endopeptidase:->->:60751..61102 352 agcgtagttatcactttttaacagaattatctttacaaagttaaactaaaaatctctcactattttattagcgaagaatacttgaaacatctgagaaatgcctgcttgaactgctttcttatactgacctctcgcctcgttgtactgcaagtataaccgcattgtgctaaaatgtttgttttgcttcgagtgtcttttcctgcttttgccagatacctctggtaggtattcaacttgtttgtatagtgcacaaaaaatccctacaagcagcattgagtctgtttgtagggattttattatgttgccttagcagcttttcagcgacttgctgctgtgggtttagcgttgctta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 agcgtagttatcactttttaacagaattatctttacaaagttaaactaaaaatctctcactattttattagcgaagaatacttgaaacatctgagaaatgcctgcttgaactgctttcttatactgacctctcgcctcgttgtactgcaagtataaccgcattgtgctaaaatgtttgttttgcttcgagtgtcttttcctgcttttgccagatacctctggtaggtattcaacttgtttgtatagtgcacaaaaaatccctacaagcagcattgagtctgtttgtagggattttattatgttgccttagcagcttttcagcgacttgctgctgtgggtttagcgttgctta Predict ORF larger than 30AA ================================================ Protein_Len: 34 Strand: + Start: 52 End: 153 ................................................... M S H Y F I S E E Y L K H L R N A C L N C F L I L T S R L V V L Q V ....................................................................................................................................................................................................... Protein_Len: 30 Strand: + Start: 78 End: 167 ............................................................................. M L E T S E K C L L E L L S Y T D L S P R C T A S I T A L C ......................................................................................................................................................................................... Protein_Len: 56 Strand: + Start: 140 End: 307 ........................................................................................................................................... M Y C K Y N R I V L K C L F C F E C L F L L L P D T S G R Y S T C L Y S A Q K I P T S S I E S V C R D F I M L P ............................................. Protein_Len: 46 Strand: + Start: 213 End: 350 .................................................................................................................................................................................................................... M P L V G I Q L V C I V H K K S L Q A A L S L F V G I L L C C L S S F S A T C C C G F S V A .. Protein_Len: 60 Strand: - Start: 63 End: 251 .............................................................. S S Y K F C R L F A Q K F Q K R I S V E R R T T S C T Y G C Q A L I N T K S R T D K G A K A L Y R Q Y T N L K N T Y H M ..................................................................................................... Protein_Len: 60 Strand: - Start: 49 End: 300 ................................................ Y Q G R A E N Y Q L Y L R M T S F H K N Q K S H R K R S K G S V E P L Y E V Q K Y L A C F I G V L L M S D T Q L S K I M .................................................... agcgtagttatcactttttaacagaattatctttacaaagttaaactaaaaatctctcactattttattagcgaagaatacttgaaacatctgagaaatgcctgcttgaactgctttcttatactgacctctcgcctcgttgtactgcaagtataaccgcattgtgctaaaatgtttgttttgcttcgagtgtcttttcctgcttttgccagatacctctggtaggtattcaacttgtttgtatagtgcacaaaaaatccctacaagcagcattgagtctgtttgtagggattttattatgttgccttagcagcttttcagcgacttgctgctgtgggtttagcgttgctta 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================================================ agcgtagttatcactttttaacagaattatctttacaaagttaaactaaaaatctctcactattttattagcgaagaatacttgaaacatctgagaaatgcctgcttgaactgctttcttatactgacctctcgcctcgttgtactgcaagtataaccgcattgtgctaaaatgtttgttttgcttcgagtgtcttttcctgcttttgccagatacctctggtaggtattcaacttgtttgtatagtgcacaaaaaatccctacaagcagcattgagtctgtttgtagggattttattatgttgccttagcagcttttcagcgacttgctgctgtgggtttagcgttgctta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 93 HP_score: -12.0 Tail_Score: -3.71686 Start: 253 End: 296 Full_Region: TTTGTATAGTGCACA AAAAATCCCTACAAGCAG CATTGAGT CTGTTTGTAGGGATTTTA TTATGTTGCCTTAGC ............................................................................................................................................................................................................................................................AAAAATCCCTACAAGCAGCATTGAGTCTGTTTGTAGGGATTTTA........................................................ TransTerm Strand: + Conf: 100 HP_score: -11.9 Tail_Score: -4.90381 Start: 258 End: 291 Full_Region: ATAGTGCACAAAAAA TCCCTACAAGCAG CATTGAGT CTGTTTGTAGGGA TTTTATTATGTTGCC .................................................................................................................................................................................................................................................................TCCCTACAAGCAGCATTGAGTCTGTTTGTAGGGA............................................................. TransTerm Strand: - Conf: 100 HP_score: -9.7 Tail_Score: -5.26918 Start: 258 End: 291 Full_Region: ggcaacataataaaa tccctacaaacag actcaatg ctgcttgtaggga ttttttgtgcactat .................................................................................................................................................................................................................................................................tccctacaaacagactcaatgctgcttgtaggga............................................................. TransTerm Strand: + Conf: 41 HP_score: -2.5 Tail_Score: -2.66326 Start: 319 End: 334 Full_Region: GCCTTAGCAGCTTTT CAGCG ACTTGC TGCTG TGGGTTTAGCGTTGC ..............................................................................................................................................................................................................................................................................................................................CAGCGACTTGCTGCTG.................. Find igs database================================================ Query_seq: PI0061:PI0062|PI0061:PI0062:hypothetical protein:endopeptidase:->->:60751..61102 352 agcgtagttatcactttttaacagaattatctttacaaagttaaactaaaaatctctcactattttattagcgaagaatacttgaaacatctgagaaatgcctgcttgaactgctttcttatactgacctctcgcctcgttgtactgcaagtataaccgcattgtgctaaaatgtttgttttgcttcgagtgtcttttcctgcttttgccagatacctctggtaggtattcaacttgtttgtatagtgcacaaaaaatccctacaagcagcattgagtctgtttgtagggattttattatgttgccttagcagcttttcagcgacttgctgctgtgggtttagcgttgctta Intra-Species Hit: Count: 2 Min: 1 Max: 352 Len: 352 Subject: pint_PI0061_PI0062|hypothetical protein:endopeptidase|POSITIVE:POSITIVE|[60751, 61102]|352 HSP 1 e-value: 0.0 bit: 698.0 Len: 352 Query Start:1 Query End:352 Subject Strand: POSITIVE Subject Start: 1 Subject End: 352 agcgtagttatcactttttaacagaattatctttacaaagttaaactaaaaatctctcactattttattagcgaagaatacttgaaacatctgagaaatgcctgcttgaactgctttcttatactgacctctcgcctcgttgtactgcaagtataaccgcattgtgctaaaatgtttgttttgcttcgagtgtcttttcctgcttttgccagatacctctggtaggtattcaacttgtttgtatagtgcacaaaaaatccctacaagcagcattgagtctgtttgtagggattttattatgttgccttagcagcttttcagcgacttgctgctgtgggtttagcgttgctta agcgtagttatcactttttaacagaattatctttacaaagttaaactaaaaatctctcactattttattagcgaagaatacttgaaacatctgagaaatgcctgcttgaactgctttcttatactgacctctcgcctcgttgtactgcaagtataaccgcattgtgctaaaatgtttgttttgcttcgagtgtcttttcctgcttttgccagatacctctggtaggtattcaacttgtttgtatagtgcacaaaaaatccctacaagcagcattgagtctgtttgtagggattttattatgttgccttagcagcttttcagcgacttgctgctgtgggtttagcgttgctta Subject: pint_PI1499_PI1500|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[1420241,1420765]|525 HSP 1 e-value: 6.0E-20 bit: 99.6 Len: 118 Query Start:7 Query End:124 Subject Strand: NEGATIVE Subject Start: 64 Subject End: 181 ......gttatcactttttaacagaattatctttacaaagttaaactaaaaatctctcactattttattagcgaagaatacttgaaacatctgagaaatgcctgcttgaactgctttcttatac.................................................................................................................................................................................................................................... ......gttatcactttttaacggaattatctttacaaagttaaacctaaaaactctcattattctattagagaagaatgccaaaaatacctaagagatgcctacttgaaccgctttcttatac.................................................................................................................................................................................................................................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGCGUAGUUAUCACUUUUUAACAGAAUUAUCUUUACAAAGUUAAACUAAAAAUCUCUCACUAUUUUAUUAGCGAAGAAUACUUGAAACAUCUGAGAAAUGCCUGCUUGAACUGCUUUCUUAUACUGACCUCUCGCCUCGUUGUACUGCAAGUAUAACCGCAUUGUGCUAAAAUGUUUGUUUUGCUUCGAGUGUCUUUUCCUGCUUUUGCCAGAUACCUCUGGUAGGUAUUCAACUUGUUUGUAUAGUGCACAAAAAAUCCCUACAAGCAGCAUUGAGUCUGUUUGUAGGGAUUUUAUUAUGUUGCCUUAGCAGCUUUUCAGCGACUUGCUGCUGUGGGUUUAGCGUUGCUUA (((.(((((...(((((.(((.(((....)))))).)))))..))))).........((((((......(((((.((((((..((((....(((((((.((..(......).)))))))))....((((((..((...(((((((.....))))))).)).....((.(((((....)))))))...))).))).)))).......(((((((....))))))).))))))...)))))...)))))).....((((((((((((((((((.....).)))))))))))))))))...((((((((((((((((.............))))))).))))..))))).))).. (-90.72) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGCAACGCUAAACCCACAGCAGCAAGUCGCUGAAAAGCUGCUAAGGCAACAUAAUAAAAUCCCUACAAACAGACUCAAUGCUGCUUGUAGGGAUUUUUUGUGCACUAUACAAACAAGUUGAAUACCUACCAGAGGUAUCUGGCAAAAGCAGGAAAAGACACUCGAAGCAAAACAAACAUUUUAGCACAAUGCGGUUAUACUUGCAGUACAACGAGGCGAGAGGUCAGUAUAAGAAAGCAGUUCAAGCAGGCAUUUCUCAGAUGUUUCAAGUAUUCUUCGCUAAUAAAAUAGUGAGAGAUUUUUAGUUUAACUUUGUAAAGAUAAUUCUGUUAAAAAGUGAUAACUACGCU ..(((...(((.......((((........))))...(((((((...(((.((....(((((((((((((.(((.(.....)))).))))))))))))).)))))..(((((......(((..((((((.....))))))..))).............(((.(((...((...............((.....)).(((.(((.....))).)))...))..)))))).)))))....)))))))..)))....((((((((..(((((..(((.......)))....))))).))))))))...(((((..(((((....(((....))).....)))))...))))).))) (-88.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 573 41 1 132 92 pint:PI1702|5end_hypothetical_protein_1620587..1620817_POSITIVE 447 44 1 62 19 pint:PI1540|5end_hypothetical_protein_1461362..1461592_POSITIVE 447 38 1 191 154 pint:PI1371|5end_hypothetical_protein_1292359..1292589_POSITIVE 435 39 1 72 34 pint:PI1041|5end_hypothetical_protein_960443..960673_POSITIVE 435 329 281 52 2 pint:PI0705|5end_conserved_hypothetical_protein;_possible_lipoprotein_641274..641504_POSITIVE 410 41 1 172 132 pint:PI0867|5end_hypothetical_protein_803859..804089_POSITIVE 410 41 1 89 49 pint:PI0866|5end_hypothetical_protein_803776..804006_POSITIVE 380 41 1 118 78 pint:PI0659|5end_hypothetical_protein_603203..603433_POSITIVE 376 41 1 113 73 pint:PI0089|5end_hypothetical_protein_88162..88392_POSITIVE 371 42 7 36 1 pint:PI1308|5end_hypothetical_protein_1223419..1223649_POSITIVE 366 32 1 231 200 pint:PI0211|5end_hypothetical_protein_204067..204297_POSITIVE 353 39 1 78 40 pint:PI1064|5end_hypothetical_protein_983071..983301_POSITIVE 348 43 1 134 92 pint:PI2022|5end_hypothetical_protein_1978631..1978861_POSITIVE 348 43 1 88 46 pint:PI2023|5end_hypothetical_protein_1978585..1978815_POSITIVE 348 236 191 208 157 pint:PI0363|5end_hypothetical_protein_332832..333062_POSITIVE 338 148 101 103 46 pint:PI1637|5end_hypothetical_protein_1554500..1554730_POSITIVE 338 348 304 167 124 pint:PI0094|5end_protoporphyrinogen_oxidase_89571..89801_POSITIVE 338 348 304 93 50 pint:PI0091|5end_hypothetical_protein_89497..89727_POSITIVE 337 350 301 227 161 pint:PI0838|5end_DNA_replication_and_repair_protein_772699..772929_POSITIVE 336 347 306 58 20 pint:PI1189|5end_conserved_hypothetical_protein_1107114..1107344_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 528 47 1 49 2 pint:PI0010|3end_conserved_hypothetical_protein_11679..11829_POSITIVE 492 80 32 57 9 pint:PI1881|3end_ISPg3-related_transposase_1824530..1824680_POSITIVE 474 140 98 38 1 pint:PI1499|3end_hypothetical_protein_1420180..1420330_POSITIVE 435 329 281 62 12 pint:PI0704|3end_conserved_hypothetical_protein_641364..641514_POSITIVE 421 350 304 151 103 pint:PI0948|3end_hypothetical_protein_881978..882128_POSITIVE 391 294 252 70 33 pint:PI1503|3end_30S_ribosomal_protein_S15_1423780..1423930_POSITIVE 378 350 301 149 101 pint:PI0835|3end_conserved_hypothetical_protein;_possible_protein-export_membrane_protein_771859..772009_POSITIVE 359 40 11 32 3 pint:PI1379|3end_hypothetical_protein_1302292..1302442_POSITIVE 349 349 303 104 52 pint:PI1227|3end_conserved_hypothetical_protein;_possible_DNA-binding_protein,_histone-like_family_1148974..1149124_POSITIVE 348 43 1 54 12 pint:PI2021|3end_DNA_repair_protein_1978631..1978781_POSITIVE 346 140 98 128 91 pint:PI2085|3end_conserved_hypothetical_protein_2041803..2041953_POSITIVE 337 350 301 129 63 pint:PI0837|3end_conserved_hypothetical_protein_772681..772831_POSITIVE 336 347 306 109 71 pint:PI1187|3end_conserved_hypothetical_protein_1107245..1107395_POSITIVE 335 334 301 142 102 pint:PI2074|3end_conserved_hypothetical_protein_2034375..2034525_POSITIVE 331 337 300 68 39 pint:PI0033|3end_peptidylprolyl_isomerase_37101..37251_POSITIVE 330 307 263 140 96 pint:PI1440|3end_conserved_hypothetical_protein_1363009..1363159_POSITIVE 326 168 124 101 48 pint:PI0026|3end_two-component_system_response_regulator_30537..30687_POSITIVE 325 42 10 33 1 pint:PI1307|3end_possible_Fe-S_oxidoreductase_1223496..1223646_POSITIVE 323 349 301 138 83 pint:PI1504|3end_non-specific_DNA-binding_protein_1424904..1425054_POSITIVE 323 39 1 137 98 pint:PI0567|3end_hypothetical_protein_513055..513205_POSITIVE