Origin IGS: taagtatgcctacatcgaaaacaacaacgctgaattccatgaagaaaagcacaacattgctttcgttgcagccaacttccaactcgacctcctctcctacttccgcggatacaacgctaaccgcctatggaacgtagccctgtacgcaggccctgccatcggtattcagacaaacaaaccgcacaacaaggacgctgccattaacttaggtttgactgcaagccaccaaatatcgaagcatatctcggctttctacaaccacaacatctacctaatgggcttcttgggacaagaaagtctgctgccaggcacaaaccttatgggaaggctaacagcattaaactgcatcaatttcggcttgatgtacaacttatagaactactgaaacatacgaaaggagcgaatgccgcaacggcattcgctcctttttgtatatcgttgaagtccgaatta .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taattcggacttcaacgatatacaaaaaggagcgaatgccgttgcggcattcgctcctttcgtatgtttcagtagttctataagttgtacatcaagccgaaattgatgcagtttaatgctgttagccttcccataaggtttgtgcctggcagcagactttcttgtcccaagaagcccattaggtagatgttgtggttgtagaaagccgagatatgcttcgatatttggtggcttgcagtcaaacctaagttaatggcagcgtccttgttgtgcggtttgtttgtctgaataccgatggcagggcctgcgtacagggctacgttccataggcggttagcgttgtatccgcggaagtaggagaggaggtcgagttggaagttggctgcaacgaaagcaatgttgtgcttttcttcatggaattcagcgttgttgttttcgatgtaggcatactta Mask Tandem Repeat Region ================================================ taagtatgcctacatcgaaaacaacaacgctgaattccatgaagaaaagcacaacattgctttcgttgcagccaacttccaactcgacctcctctcctacttccgcggatacaacgctaaccgcctatggaacgtagccctgtacgcaggccctgccatcggtattcagacaaacaaaccgcacaacaaggacgctgccattaacttaggtttgactgcaagccaccaaatatcgaagcatatctcggctttctacaaccacaacatctacctaatgggcttcttgggacaagaaagtctgctgccaggcacaaaccttatgggaaggctaacagcattaaactgcatcaatttcggcttgatgtacaacttatagaactactgaaacatacgaaaggagcgaatgccgcaacggcattcgctcctttttgtatatcgttgaagtccgaatta Find is-nt database================================================ Query_seq: PI1671:PI1672|PI1671:PI1672:hypothetical protein:conserved hypothetical protein; possible DNA-binding protein, histone-like family:->->:1586714..1587166 453 taagtatgcctacatcgaaaacaacaacgctgaattccatgaagaaaagcacaacattgctttcgttgcagccaacttccaactcgacctcctctcctacttccgcggatacaacgctaaccgcctatggaacgtagccctgtacgcaggccctgccatcggtattcagacaaacaaaccgcacaacaaggacgctgccattaacttaggtttgactgcaagccaccaaatatcgaagcatatctcggctttctacaaccacaacatctacctaatgggcttcttgggacaagaaagtctgctgccaggcacaaaccttatgggaaggctaacagcattaaactgcatcaatttcggcttgatgtacaacttatagaactactgaaacatacgaaaggagcgaatgccgcaacggcattcgctcctttttgtatatcgttgaagtccgaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1671:PI1672|PI1671:PI1672:hypothetical protein:conserved hypothetical protein; possible DNA-binding protein, histone-like family:->->:1586714..1587166 453 taagtatgcctacatcgaaaacaacaacgctgaattccatgaagaaaagcacaacattgctttcgttgcagccaacttccaactcgacctcctctcctacttccgcggatacaacgctaaccgcctatggaacgtagccctgtacgcaggccctgccatcggtattcagacaaacaaaccgcacaacaaggacgctgccattaacttaggtttgactgcaagccaccaaatatcgaagcatatctcggctttctacaaccacaacatctacctaatgggcttcttgggacaagaaagtctgctgccaggcacaaaccttatgggaaggctaacagcattaaactgcatcaatttcggcttgatgtacaacttatagaactactgaaacatacgaaaggagcgaatgccgcaacggcattcgctcctttttgtatatcgttgaagtccgaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1671:PI1672|PI1671:PI1672:hypothetical protein:conserved hypothetical protein; possible DNA-binding protein, histone-like family:->->:1586714..1587166 453 taagtatgcctacatcgaaaacaacaacgctgaattccatgaagaaaagcacaacattgctttcgttgcagccaacttccaactcgacctcctctcctacttccgcggatacaacgctaaccgcctatggaacgtagccctgtacgcaggccctgccatcggtattcagacaaacaaaccgcacaacaaggacgctgccattaacttaggtttgactgcaagccaccaaatatcgaagcatatctcggctttctacaaccacaacatctacctaatgggcttcttgggacaagaaagtctgctgccaggcacaaaccttatgggaaggctaacagcattaaactgcatcaatttcggcttgatgtacaacttatagaactactgaaacatacgaaaggagcgaatgccgcaacggcattcgctcctttttgtatatcgttgaagtccgaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taagtatgcctacatcgaaaacaacaacgctgaattccatgaagaaaagcacaacattgctttcgttgcagccaacttccaactcgacctcctctcctacttccgcggatacaacgctaaccgcctatggaacgtagccctgtacgcaggccctgccatcggtattcagacaaacaaaccgcacaacaaggacgctgccattaacttaggtttgactgcaagccaccaaatatcgaagcatatctcggctttctacaaccacaacatctacctaatgggcttcttgggacaagaaagtctgctgccaggcacaaaccttatgggaaggctaacagcattaaactgcatcaatttcggcttgatgtacaacttatagaactactgaaacatacgaaaggagcgaatgccgcaacggcattcgctcctttttgtatatcgttgaagtccgaatta Predict ORF larger than 30AA ================================================ Protein_Len: 43 Strand: + Start: 6 End: 134 ..... M P T S K T T T L N S M K K S T T L L S L Q P T S N S T S S P T S A D T T L T A Y G T ............................................................................................................................................................................................................................................................................................................................... Protein_Len: 60 Strand: + Start: 14 End: 373 ............. M E N N N A E F H E E K H N I A F V A A N F Q L D L L S Y F R G Y N A N R L W N V A L Y A G P A I G I Q T N K P H N K D ................................................................................ Protein_Len: 60 Strand: + Start: 232 End: 453 ....................................................................................................................................................................................................................................... M E A Y L G F L Q P Q H L P N G L L G T R K S A A R H K P Y G K A N S I K L H Q F R L D V Q L I E L L K H T K G A N A A Protein_Len: 33 Strand: - Start: 271 End: 369 .............................................................................................................................................................................................................................................................................. R I P K K P C S L R S G P V F R I P L S V A N F Q M L K P K I Y M .................................................................................... Protein_Len: 37 Strand: - Start: 204 End: 314 ........................................................................................................................................................................................................... S L N S Q L G G F I S A Y R P K R C G C C R G L P S R P V L F D A A L C M ........................................................................................................................................... Protein_Len: 36 Strand: - Start: 3 End: 110 .. T H R C R F C C R Q I G H L F A C C Q K R Q L W S G V R G G R R S G R M ....................................................................................................................................................................................................................................................................................................................................................... taagtatgcctacatcgaaaacaacaacgctgaattccatgaagaaaagcacaacattgctttcgttgcagccaacttccaactcgacctcctctcctacttccgcggatacaacgctaaccgcctatggaacgtagccctgtacgcaggccctgccatcggtattcagacaaacaaaccgcacaacaaggacgctgccattaacttaggtttgactgcaagccaccaaatatcgaagcatatctcggctttctacaaccacaacatctacctaatgggcttcttgggacaagaaagtctgctgccaggcacaaaccttatgggaaggctaacagcattaaactgcatcaatttcggcttgatgtacaacttatagaactactgaaacatacgaaaggagcgaatgccgcaacggcattcgctcctttttgtatatcgttgaagtccgaatta 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================================================ taagtatgcctacatcgaaaacaacaacgctgaattccatgaagaaaagcacaacattgctttcgttgcagccaacttccaactcgacctcctctcctacttccgcggatacaacgctaaccgcctatggaacgtagccctgtacgcaggccctgccatcggtattcagacaaacaaaccgcacaacaaggacgctgccattaacttaggtttgactgcaagccaccaaatatcgaagcatatctcggctttctacaaccacaacatctacctaatgggcttcttgggacaagaaagtctgctgccaggcacaaaccttatgggaaggctaacagcattaaactgcatcaatttcggcttgatgtacaacttatagaactactgaaacatacgaaaggagcgaatgccgcaacggcattcgctcctttttgtatatcgttgaagtccgaatta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 100 HP_score: -23.3 Tail_Score: -5.06505 Start: 397 End: 425 Full_Region: CTGAAACATACGAAA GGAGCGAATGCCG CAA CGGCATTCGCTCC TTTTTGTATATCGTT ............................................................................................................................................................................................................................................................................................................................................................................................................GGAGCGAATGCCGCAACGGCATTCGCTCC............................ Find igs database================================================ Query_seq: PI1671:PI1672|PI1671:PI1672:hypothetical protein:conserved hypothetical protein; possible DNA-binding protein, histone-like family:->->:1586714..1587166 453 taagtatgcctacatcgaaaacaacaacgctgaattccatgaagaaaagcacaacattgctttcgttgcagccaacttccaactcgacctcctctcctacttccgcggatacaacgctaaccgcctatggaacgtagccctgtacgcaggccctgccatcggtattcagacaaacaaaccgcacaacaaggacgctgccattaacttaggtttgactgcaagccaccaaatatcgaagcatatctcggctttctacaaccacaacatctacctaatgggcttcttgggacaagaaagtctgctgccaggcacaaaccttatgggaaggctaacagcattaaactgcatcaatttcggcttgatgtacaacttatagaactactgaaacatacgaaaggagcgaatgccgcaacggcattcgctcctttttgtatatcgttgaagtccgaatta Intra-Species Hit: Count: 1 Min: 1 Max: 453 Len: 453 Subject: pint_PI1671_PI1672|hypothetical protein:conserved hypothetical protein; possible DNA-binding protein, histone-like family|POSITIVE:POSITIVE|[1586714,1587166]|453 HSP 1 e-value: 0.0 bit: 898.0 Len: 453 Query Start:1 Query End:453 Subject Strand: POSITIVE Subject Start: 1 Subject End: 453 taagtatgcctacatcgaaaacaacaacgctgaattccatgaagaaaagcacaacattgctttcgttgcagccaacttccaactcgacctcctctcctacttccgcggatacaacgctaaccgcctatggaacgtagccctgtacgcaggccctgccatcggtattcagacaaacaaaccgcacaacaaggacgctgccattaacttaggtttgactgcaagccaccaaatatcgaagcatatctcggctttctacaaccacaacatctacctaatgggcttcttgggacaagaaagtctgctgccaggcacaaaccttatgggaaggctaacagcattaaactgcatcaatttcggcttgatgtacaacttatagaactactgaaacatacgaaaggagcgaatgccgcaacggcattcgctcctttttgtatatcgttgaagtccgaatta taagtatgcctacatcgaaaacaacaacgctgaattccatgaagaaaagcacaacattgctttcgttgcagccaacttccaactcgacctcctctcctacttccgcggatacaacgctaaccgcctatggaacgtagccctgtacgcaggccctgccatcggtattcagacaaacaaaccgcacaacaaggacgctgccattaacttaggtttgactgcaagccaccaaatatcgaagcatatctcggctttctacaaccacaacatctacctaatgggcttcttgggacaagaaagtctgctgccaggcacaaaccttatgggaaggctaacagcattaaactgcatcaatttcggcttgatgtacaacttatagaactactgaaacatacgaaaggagcgaatgccgcaacggcattcgctcctttttgtatatcgttgaagtccgaatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGUAUGCCUACAUCGAAAACAACAACGCUGAAUUCCAUGAAGAAAAGCACAACAUUGCUUUCGUUGCAGCCAACUUCCAACUCGACCUCCUCUCCUACUUCCGCGGAUACAACGCUAACCGCCUAUGGAACGUAGCCCUGUACGCAGGCCCUGCCAUCGGUAUUCAGACAAACAAACCGCACAACAAGGACGCUGCCAUUAACUUAGGUUUGACUGCAAGCCACCAAAUAUCGAAGCAUAUCUCGGCUUUCUACAACCACAACAUCUACCUAAUGGGCUUCUUGGGACAAGAAAGUCUGCUGCCAGGCACAAACCUUAUGGGAAGGCUAACAGCAUUAAACUGCAUCAAUUUCGGCUUGAUGUACAACUUAUAGAACUACUGAAACAUACGAAAGGAGCGAAUGCCGCAACGGCAUUCGCUCCUUUUUGUAUAUCGUUGAAGUCCGAAUUA (((((.((..((((((((..........((((((....(((.((.((((((......)))))).((((.((((...(((((...............((((((((((((.((......)).))))....)))).)))).((((....))))...((((...((((..(((((...(.....).....((((((.((..((((((.....((((((....))))))..........(((((........)))))....................))))))))))))))..........))))).)))).)))).........))))).))))..))))......)).)))....))))))))))))))))))))).......(((..((((((((((((((((((((((((...))))))))))))).))))))))...)))..)))........ (-120.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUUCGGACUUCAACGAUAUACAAAAAGGAGCGAAUGCCGUUGCGGCAUUCGCUCCUUUCGUAUGUUUCAGUAGUUCUAUAAGUUGUACAUCAAGCCGAAAUUGAUGCAGUUUAAUGCUGUUAGCCUUCCCAUAAGGUUUGUGCCUGGCAGCAGACUUUCUUGUCCCAAGAAGCCCAUUAGGUAGAUGUUGUGGUUGUAGAAAGCCGAGAUAUGCUUCGAUAUUUGGUGGCUUGCAGUCAAACCUAAGUUAAUGGCAGCGUCCUUGUUGUGCGGUUUGUUUGUCUGAAUACCGAUGGCAGGGCCUGCGUACAGGGCUACGUUCCAUAGGCGGUUAGCGUUGUAUCCGCGGAAGUAGGAGAGGAGGUCGAGUUGGAAGUUGGCUGCAACGAAAGCAAUGUUGUGCUUUUCUUCAUGGAAUUCAGCGUUGUUGUUUUCGAUGUAGGCAUACUUA (((((((..((((..(((.......((((((((((((((((...)))))))))))))))).(((((((((.((..((((((((.(...(((((..(((...........((((...(((((((((((...((....))...).).)))))))))))))((((((...))))))........))).)))))...).)))))))).)).))))))))).)))...(((.((((..(((((...((((...((..((((.(((((((((((..(.((((..((((....)))))))))..))))))((((....))))...)))))))))..))))))....))))).)))).)))........))))..))))))).((((((.(((((.((((((((((..(((....((((....))))....)))..)))))))))).))))).)).)))). (-157.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 404 159 113 126 76 pint:PI1136|5end_conserved_hypothetical_protein_1062195..1062425_POSITIVE 402 100 52 118 67 pint:PI0762|5end_mannose-6-phosphate_isomerase,_class_I_696420..696650_POSITIVE 399 98 52 135 86 pint:PI1863|5end_phosphoribosylformylglycinamidine_synthase_1806674..1806904_POSITIVE 399 226 181 164 117 pint:PI1639|5end_conserved_hypothetical_protein_1556725..1556955_POSITIVE 392 156 111 157 96 pint:PI1010|5end_conserved_hypothetical_protein_930922..931152_POSITIVE 371 166 121 220 181 pint:PI1980|5end_conserved_hypothetical_protein_1937470..1937700_POSITIVE 360 170 123 68 30 pint:PI1651|5end_hypothetical_protein_1563845..1564075_POSITIVE 358 438 392 78 33 pint:PI0266|5end_DNA_primase_(bacterial_type)_257931..258161_POSITIVE 357 164 122 174 112 pint:PI2121|5end_glucose_inhibited_division_protein_A_2069889..2070119_POSITIVE 357 221 181 129 82 pint:PI0906|5end_hypothetical_protein_835653..835883_POSITIVE 356 163 121 118 76 pint:PI1705|5end_3-oxoacyl-(acyl-carrier-protein)_synthase_III_1621781..1622011_POSITIVE 355 161 121 69 31 pint:PI2014|5end_conserved_hypothetical_protein_1971471..1971701_POSITIVE 354 157 115 129 88 pint:PI1931|5end_alpha_glycan_phosphorylase,_maltodextrin_phosphorylase_1875456..1875686_POSITIVE 354 440 396 68 6 pint:PI0262|5end_conserved_hypothetical_protein_254685..254915_POSITIVE 353 158 114 69 19 pint:PI2017|5end_conserved_hypothetical_protein_1974862..1975092_POSITIVE 353 147 110 69 26 pint:PI1586|5end_possible_HesA/MoeB/ThiF_family_protein_1514372..1514602_POSITIVE 353 150 102 130 69 pint:PI0985|5end_aspartyl-tRNA_synthetase_910174..910404_POSITIVE 353 149 104 173 121 pint:PI0667|5end_hypothetical_protein_610113..610343_POSITIVE 351 150 103 58 14 pint:PI0005|5end_hypothetical_protein_6984..7214_POSITIVE 347 150 104 86 36 pint:PI1497|5end_LuxS_protein,_autoinducer_AI-2_production_protein_1417571..1417801_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 645 434 391 75 32 pint:PI1670|3end_hypothetical_protein_1587026..1587176_POSITIVE 404 159 113 54 4 pint:PI1135|3end_hypothetical_protein_1062203..1062353_POSITIVE 364 117 73 87 28 pint:PI0683|3end_hypothetical_protein_619797..619947_POSITIVE 360 170 123 44 6 pint:PI1650|3end_N-acetylmuramoyl-L-alanine_amidase_1563901..1564051_POSITIVE 355 161 121 73 35 pint:PI2012|3end_hypothetical_protein_1971555..1971705_POSITIVE 354 440 396 68 6 pint:PI0261|3end_conjugative_transposon_protein,_TraK_254765..254915_POSITIVE 353 158 114 60 10 pint:PI2016|3end_ribosomal_large_subunit_pseudouridine_synthase_D_1974933..1975083_POSITIVE 353 149 104 151 99 pint:PI0666|3end_chorismate_synthase_610171..610321_POSITIVE 343 434 391 57 8 pint:PI0685|3end_elongation_factor_G_623048..623198_POSITIVE 343 449 402 117 65 pint:PI0300|3end_transposase_285761..285911_POSITIVE 340 199 152 105 38 pint:PI0056|3end_conserved_hypothetical_protein;_possible_DNA_uptake_protein_55907..56057_POSITIVE 334 157 111 76 21 pint:PI1734|3end_possible_carboxyl-terminal_protease-related_protein_1653829..1653979_POSITIVE 334 162 121 134 84 pint:PI1606|3end_conserved_hypothetical_protein_1535565..1535715_POSITIVE 333 167 121 86 42 pint:PI1807|3end_hypothetical_protein_1742481..1742631_POSITIVE 327 108 65 122 75 pint:PI1651|3end_hypothetical_protein_1564512..1564662_POSITIVE 326 430 398 141 102 pint:PI1855|3end_lipopolysaccharide_biosynthesis_protein_1803168..1803318_POSITIVE 325 175 133 151 105 pint:PI0816|3end_glycogen_debranching_enzyme_756920..757070_POSITIVE 323 429 397 56 16 pint:PI1652|3end_hypothetical_protein_1565235..1565385_POSITIVE 320 160 112 68 10 pint:PI0603|3end_3-dehydroquinate_synthase_550841..550991_POSITIVE 318 157 115 151 106 pint:PI1087|3end_conserved_hypothetical_protein_1011557..1011707_POSITIVE