Origin IGS: tgaatgggaacgggtgaatcgttgagtgcttgtgcatcggtgttgcacaaaacgaatgttacgtcgtgtatgccttcgcgatacatatggttcacggcgttgccgccgccgccgccaacaccgataaccttgatgatgctgttctgttcagcttcgccgaagtcgagtatttctcttttcatattattatctgccatagccgtatttcctttgtcttgttttttatttcctacgcctttgaaaatgttttcttta .........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 taaagaaaacattttcaaaggcgtaggaaataaaaaacaagacaaaggaaatacggctatggcagataataatatgaaaagagaaatactcgacttcggcgaagctgaacagaacagcatcatcaaggttatcggtgttggcggcggcggcggcaacgccgtgaaccatatgtatcgcgaaggcatacacgacgtaacattcgttttgtgcaacaccgatgcacaagcactcaacgattcacccgttcccattca Mask Tandem Repeat Region ================================================ tgaatgggaacgggtgaatcgttgagtgcttgtgcatcggtgttgcacaaaacgaatgttacgtcgtgtatgccttcgcgatacatatggttcacggcgttgccgccgccgccgccaacaccgataaccttgatgatgctgttctgttcagcttcgccgaagtcgagtatttctcttttcatattattatctgccatagccgtatttcctttgtcttgttttttatttcctacgcctttgaaaatgttttcttta Find is-nt database================================================ Query_seq: PI1884:PI1886|PI1884:PI1886:conserved hypothetical protein:cell division protein:->->:1827518..1827772 255 tgaatgggaacgggtgaatcgttgagtgcttgtgcatcggtgttgcacaaaacgaatgttacgtcgtgtatgccttcgcgatacatatggttcacggcgttgccgccgccgccgccaacaccgataaccttgatgatgctgttctgttcagcttcgccgaagtcgagtatttctcttttcatattattatctgccatagccgtatttcctttgtcttgttttttatttcctacgcctttgaaaatgttttcttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1884:PI1886|PI1884:PI1886:conserved hypothetical protein:cell division protein:->->:1827518..1827772 255 tgaatgggaacgggtgaatcgttgagtgcttgtgcatcggtgttgcacaaaacgaatgttacgtcgtgtatgccttcgcgatacatatggttcacggcgttgccgccgccgccgccaacaccgataaccttgatgatgctgttctgttcagcttcgccgaagtcgagtatttctcttttcatattattatctgccatagccgtatttcctttgtcttgttttttatttcctacgcctttgaaaatgttttcttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1884:PI1886|PI1884:PI1886:conserved hypothetical protein:cell division protein:->->:1827518..1827772 255 tgaatgggaacgggtgaatcgttgagtgcttgtgcatcggtgttgcacaaaacgaatgttacgtcgtgtatgccttcgcgatacatatggttcacggcgttgccgccgccgccgccaacaccgataaccttgatgatgctgttctgttcagcttcgccgaagtcgagtatttctcttttcatattattatctgccatagccgtatttcctttgtcttgttttttatttcctacgcctttgaaaatgttttcttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgaatgggaacgggtgaatcgttgagtgcttgtgcatcggtgttgcacaaaacgaatgttacgtcgtgtatgccttcgcgatacatatggttcacggcgttgccgccgccgccgccaacaccgataaccttgatgatgctgttctgttcagcttcgccgaagtcgagtatttctcttttcatattattatctgccatagccgtatttcctttgtcttgttttttatttcctacgcctttgaaaatgttttcttta Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: + Start: 26 End: 124 ......................... M L V H R C C T K R M L R R V C L R D T Y G S R R C R R R R Q H R ................................................................................................................................... Protein_Len: 60 Strand: + Start: 18 End: 254 ................. M V E C L C I G V A Q N E C Y V V Y A F A I H M V H G V A A A A A N T D N L D D A V L F S F A E V E Y F S F H I I I C H . Protein_Len: 60 Strand: + Start: 4 End: 255 ... M G T G E S L S A C A S V L H K T N V T S C M P S R Y I W F T A L P P P P P T P I T L M M L F C S A S P K S S I S L F I Protein_Len: 60 Strand: - Start: 3 End: 245 .. H I G E R Y M H N V A N G G G G G V G I V K I I S N Q E A E G F D L I E R K M N N D A M A T N G K D Q K K N G V G K F M .......... tgaatgggaacgggtgaatcgttgagtgcttgtgcatcggtgttgcacaaaacgaatgttacgtcgtgtatgccttcgcgatacatatggttcacggcgttgccgccgccgccgccaacaccgataaccttgatgatgctgttctgttcagcttcgccgaagtcgagtatttctcttttcatattattatctgccatagccgtatttcctttgtcttgttttttatttcctacgcctttgaaaatgttttcttta 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================================================ tgaatgggaacgggtgaatcgttgagtgcttgtgcatcggtgttgcacaaaacgaatgttacgtcgtgtatgccttcgcgatacatatggttcacggcgttgccgccgccgccgccaacaccgataaccttgatgatgctgttctgttcagcttcgccgaagtcgagtatttctcttttcatattattatctgccatagccgtatttcctttgtcttgttttttatttcctacgcctttgaaaatgttttcttta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI1884:PI1886|PI1884:PI1886:conserved hypothetical protein:cell division protein:->->:1827518..1827772 255 tgaatgggaacgggtgaatcgttgagtgcttgtgcatcggtgttgcacaaaacgaatgttacgtcgtgtatgccttcgcgatacatatggttcacggcgttgccgccgccgccgccaacaccgataaccttgatgatgctgttctgttcagcttcgccgaagtcgagtatttctcttttcatattattatctgccatagccgtatttcctttgtcttgttttttatttcctacgcctttgaaaatgttttcttta Intra-Species Hit: Count: 1 Min: 1 Max: 255 Len: 255 Subject: pint_PI1884_PI1886|conserved hypothetical protein:cell division protein|POSITIVE:POSITIVE|[1827518,1827772]|255 HSP 1 e-value: 1.0E-142 bit: 505.0 Len: 255 Query Start:1 Query End:255 Subject Strand: POSITIVE Subject Start: 1 Subject End: 255 tgaatgggaacgggtgaatcgttgagtgcttgtgcatcggtgttgcacaaaacgaatgttacgtcgtgtatgccttcgcgatacatatggttcacggcgttgccgccgccgccgccaacaccgataaccttgatgatgctgttctgttcagcttcgccgaagtcgagtatttctcttttcatattattatctgccatagccgtatttcctttgtcttgttttttatttcctacgcctttgaaaatgttttcttta tgaatgggaacgggtgaatcgttgagtgcttgtgcatcggtgttgcacaaaacgaatgttacgtcgtgtatgccttcgcgatacatatggttcacggcgttgccgccgccgccgccaacaccgataaccttgatgatgctgttctgttcagcttcgccgaagtcgagtatttctcttttcatattattatctgccatagccgtatttcctttgtcttgttttttatttcctacgcctttgaaaatgttttcttta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAAUGGGAACGGGUGAAUCGUUGAGUGCUUGUGCAUCGGUGUUGCACAAAACGAAUGUUACGUCGUGUAUGCCUUCGCGAUACAUAUGGUUCACGGCGUUGCCGCCGCCGCCGCCAACACCGAUAACCUUGAUGAUGCUGUUCUGUUCAGCUUCGCCGAAGUCGAGUAUUUCUCUUUUCAUAUUAUUAUCUGCCAUAGCCGUAUUUCCUUUGUCUUGUUUUUUAUUUCCUACGCCUUUGAAAAUGUUUUCUUUA .....(..(((..(((((..(..(((((((((...((((((((((..........((((...((((((........))))))))))..(((...(((((....)))))..)))..)))))))))).((.(((.(((.((((.......)))).))).))).)))))))))))..)..)))))............((.((.((((..........................)))).)).)).....)))..).... (-62.97) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAGAAAACAUUUUCAAAGGCGUAGGAAAUAAAAAACAAGACAAAGGAAAUACGGCUAUGGCAGAUAAUAAUAUGAAAAGAGAAAUACUCGACUUCGGCGAAGCUGAACAGAACAGCAUCAUCAAGGUUAUCGGUGUUGGCGGCGGCGGCGGCAACGCCGUGAACCAUAUGUAUCGCGAAGGCAUACACGACGUAACAUUCGUUUUGUGCAACACCGAUGCACAAGCACUCAACGAUUCACCCGUUCCCAUUCA ....(((...((((((.........))))))...............(((...((((........((((((...((((............(((.(....)))).((((.......)))).))))....))))))..((((((..((.((((((....))))))........(((((((.....(((((.((((........))))..))))).....)))))))...))..))))))......)))))))..))). (-62.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 528 140 91 73 23 pint:PI1586|5end_possible_HesA/MoeB/ThiF_family_protein_1514372..1514602_POSITIVE 440 118 71 80 15 pint:PI2017|5end_conserved_hypothetical_protein_1974862..1975092_POSITIVE 426 125 87 69 27 pint:PI1651|5end_hypothetical_protein_1563845..1564075_POSITIVE 422 125 92 69 34 pint:PI0356|5end_hypothetical_protein_326642..326872_POSITIVE 421 115 71 152 92 pint:PI0337|5end_hypothetical_protein_314732..314962_POSITIVE 419 139 96 226 169 pint:PI0092|5end_regulatory_protein_RecX_89080..89310_POSITIVE 411 150 101 141 87 pint:PI1475|5end_possible_short_chain_dehydrogenase_1397142..1397372_POSITIVE 411 117 71 210 161 pint:PI0529|5end_hypothetical_protein_483026..483256_POSITIVE 407 120 72 78 20 pint:PI1720|5end_conserved_hypothetical_protein_1636146..1636376_POSITIVE 403 125 88 55 6 pint:PI1865|5end_chromate_transport_protein_1810935..1811165_POSITIVE 402 114 73 47 7 pint:PI1636|5end_hypothetical_protein_1554246..1554476_POSITIVE 394 117 71 212 166 pint:PI1653|5end_hypothetical_protein_1565158..1565388_POSITIVE 388 116 72 70 11 pint:PI0545|5end_sugar_kinase_496411..496641_POSITIVE 386 132 95 102 57 pint:PI1768|5end_conserved_hypothetical_protein_1695456..1695686_POSITIVE 385 99 52 52 8 pint:PI1707|5end_GTP-binding_protein_1623795..1624025_POSITIVE 383 116 71 156 120 pint:PI1575|5end_LemA_protein_1501143..1501373_POSITIVE 383 110 61 221 158 pint:PI0601|5end_hypothetical_protein_548758..548988_POSITIVE 378 109 61 174 111 pint:PI0737|5end_hypothetical_protein_671182..671412_POSITIVE 375 140 95 196 148 pint:PI2121|5end_glucose_inhibited_division_protein_A_2069889..2070119_POSITIVE 375 140 95 51 3 pint:PI2122|5end_conserved_hypothetical_protein_2069744..2069974_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 440 118 71 71 6 pint:PI2016|3end_ribosomal_large_subunit_pseudouridine_synthase_D_1974933..1975083_POSITIVE 426 125 87 45 3 pint:PI1650|3end_N-acetylmuramoyl-L-alanine_amidase_1563901..1564051_POSITIVE 424 139 96 85 42 pint:PI0005|3end_hypothetical_protein_7450..7600_POSITIVE 422 125 92 45 10 pint:PI0355|3end_probable__N-acetylmuramoyl-L-alanine_amidase_326698..326848_POSITIVE 421 115 71 146 86 pint:PI0336|3end_hypothetical_protein_314806..314956_POSITIVE 416 115 73 50 1 pint:PI1924|3end_cytidine_deaminase_1866495..1866645_POSITIVE 407 120 72 59 1 pint:PI1719|3end_conserved_hypothetical_protein_1636207..1636357_POSITIVE 400 140 94 149 80 pint:PI1712|3end_hypothetical_protein_1627774..1627924_POSITIVE 391 125 95 49 8 pint:PI1864|3end_chromate_transport_protein_1811009..1811159_POSITIVE 373 146 101 130 89 pint:PI1574|3end_conserved_hypothetical_protein_1501226..1501376_POSITIVE 370 149 102 114 67 pint:PI1065|3end_hypothetical_protein_983650..983800_POSITIVE 367 160 112 66 11 pint:PI1636|3end_hypothetical_protein_1554823..1554973_POSITIVE 363 132 96 84 22 pint:PI0838|3end_DNA_replication_and_repair_protein_773927..774077_POSITIVE 361 115 74 73 28 pint:PI1136|3end_conserved_hypothetical_protein_1062541..1062691_POSITIVE 361 150 101 118 62 pint:PI0734|3end_ABC_transporter,_ATP-binding_/_permease_668760..668910_POSITIVE 352 109 65 73 31 pint:PI0300|3end_transposase_285761..285911_POSITIVE 351 48 2 55 2 pint:PI1048|3end_1,4-dihydroxy-2-naphthoate_octaprenyltransferase_967193..967343_POSITIVE 349 140 95 43 7 pint:PI1635|3end_hypothetical_protein_1554306..1554456_POSITIVE 344 116 71 59 19 pint:PI0261|3end_conjugative_transposon_protein,_TraK_254765..254915_POSITIVE 341 170 122 76 20 pint:PI1850|3end_prenyltransferase,_UbiA_family_1796922..1797072_POSITIVE