Origin IGS: taagtccttatttatgggaagggaagatatatacgacaaacgtttccaaacctatatatctatgaggtttggaaacgtgaaacaagtgcgtgtatagcactaaaagtaggtgtcgataacacggaaaaagaagataagcaatctgtatta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taatacagattgcttatcttctttttccgtgttatcgacacctacttttagtgctatacacgcacttgtttcacgtttccaaacctcatagatatataggtttggaaacgtttgtcgtatatatcttcccttcccataaataaggactta Mask Tandem Repeat Region ================================================ taagtccttatttatgggaagggaagatatatacgacaaacgtttccaaacctatatatctatgaggtttggaaacgtgaaacaagtgcgtgtatagcactaaaagtaggtgtcgataacacggaaaaagaagataagcaatctgtatta Find is-nt database================================================ Query_seq: PI1182:PI1183|PI1182:PI1183:hypothetical protein:conserved hypothetical protein:->->:1104432..1104581 150 taagtccttatttatgggaagggaagatatatacgacaaacgtttccaaacctatatatctatgaggtttggaaacgtgaaacaagtgcgtgtatagcactaaaagtaggtgtcgataacacggaaaaagaagataagcaatctgtatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1182:PI1183|PI1182:PI1183:hypothetical protein:conserved hypothetical protein:->->:1104432..1104581 150 taagtccttatttatgggaagggaagatatatacgacaaacgtttccaaacctatatatctatgaggtttggaaacgtgaaacaagtgcgtgtatagcactaaaagtaggtgtcgataacacggaaaaagaagataagcaatctgtatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1182:PI1183|PI1182:PI1183:hypothetical protein:conserved hypothetical protein:->->:1104432..1104581 150 taagtccttatttatgggaagggaagatatatacgacaaacgtttccaaacctatatatctatgaggtttggaaacgtgaaacaagtgcgtgtatagcactaaaagtaggtgtcgataacacggaaaaagaagataagcaatctgtatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taagtccttatttatgggaagggaagatatatacgacaaacgtttccaaacctatatatctatgaggtttggaaacgtgaaacaagtgcgtgtatagcactaaaagtaggtgtcgataacacggaaaaagaagataagcaatctgtatta Predict ORF larger than 30AA ================================================ Protein_Len: 47 Strand: + Start: 10 End: 150 ......... M Y G K G R Y I R Q T F P N L Y I Y E V W K R E T S A C I A L K V G V D N T E K E D K Q S V L Protein_Len: 46 Strand: - Start: 11 End: 148 .......... K H S P F I Y V V F T E L G I Y R H P K S V H F L H T Y L V L L L H R Y C P F L L Y A I Q M .. taagtccttatttatgggaagggaagatatatacgacaaacgtttccaaacctatatatctatgaggtttggaaacgtgaaacaagtgcgtgtatagcactaaaagtaggtgtcgataacacggaaaaagaagataagcaatctgtatta 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================================================ taagtccttatttatgggaagggaagatatatacgacaaacgtttccaaacctatatatctatgaggtttggaaacgtgaaacaagtgcgtgtatagcactaaaagtaggtgtcgataacacggaaaaagaagataagcaatctgtatta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 100 HP_score: -14.8 Tail_Score: -4.05389 Start: 41 End: 77 Full_Region: cacgcacttgtttca cgtttccaaacctcata gata tataggtttggaaacg tttgtcgtatatatc ........................................cgtttccaaacctcatagatatataggtttggaaacg......................................................................... Find igs database================================================ Query_seq: PI1182:PI1183|PI1182:PI1183:hypothetical protein:conserved hypothetical protein:->->:1104432..1104581 150 taagtccttatttatgggaagggaagatatatacgacaaacgtttccaaacctatatatctatgaggtttggaaacgtgaaacaagtgcgtgtatagcactaaaagtaggtgtcgataacacggaaaaagaagataagcaatctgtatta Intra-Species Hit: Count: 1 Min: 1 Max: 150 Len: 150 Subject: pint_PI1182_PI1183|hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[1104432,1104581]|150 HSP 1 e-value: 5.0E-80 bit: 297.0 Len: 150 Query Start:1 Query End:150 Subject Strand: POSITIVE Subject Start: 1 Subject End: 150 taagtccttatttatgggaagggaagatatatacgacaaacgtttccaaacctatatatctatgaggtttggaaacgtgaaacaagtgcgtgtatagcactaaaagtaggtgtcgataacacggaaaaagaagataagcaatctgtatta taagtccttatttatgggaagggaagatatatacgacaaacgtttccaaacctatatatctatgaggtttggaaacgtgaaacaagtgcgtgtatagcactaaaagtaggtgtcgataacacggaaaaagaagataagcaatctgtatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGUCCUUAUUUAUGGGAAGGGAAGAUAUAUACGACAAACGUUUCCAAACCUAUAUAUCUAUGAGGUUUGGAAACGUGAAACAAGUGCGUGUAUAGCACUAAAAGUAGGUGUCGAUAACACGGAAAAAGAAGAUAAGCAAUCUGUAUUA ....((((.......))))......(((((.(((.....(((((((((((((((((....))).))))))))))))))......(((((.......)))))....))).)))))......(((((................))))).... (-39.79) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUACAGAUUGCUUAUCUUCUUUUUCCGUGUUAUCGACACCUACUUUUAGUGCUAUACACGCACUUGUUUCACGUUUCCAAACCUCAUAGAUAUAUAGGUUUGGAAACGUUUGUCGUAUAUAUCUUCCCUUCCCAUAAAUAAGGACUUA ((((((.((................)).)))))).(((((.........(((((.......)))))......((((((((((((((.(((....))))))))))))))))).)))))...........((((.........))))..... (-35.69) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 306 110 62 64 4 pint:PI1314|5end_hypothetical_protein_1231188..1231418_POSITIVE 299 146 105 227 186 pint:PI0379|5end_conserved_hypothetical_protein_349872..350102_POSITIVE 298 88 42 168 121 pint:PI0634|5end_conserved_hypothetical_protein_580082..580312_POSITIVE 285 42 14 156 121 pint:PI1273|5end_anthranilate_synthase_component_II_1192285..1192515_POSITIVE 282 108 66 35 1 pint:PI2149|5end_3-oxoacyl-acyl-carrier-protein_synthase_2095454..2095684_POSITIVE 275 147 103 58 17 pint:PI0518|5end_5'-nucleotidase_precursor_477076..477306_POSITIVE 273 123 86 198 155 pint:PI1311|5end_large_protein_related_to_C.hutchinsonii_large_proteins_1226625..1226855_POSITIVE 272 99 61 212 175 pint:PI1098|5end_conserved_hypothetical_protein_1022261..1022491_POSITIVE 265 140 97 103 57 pint:PI1823|5end_inorganic_polyphosphate/ATP-NAD_kinase_(Poly(P)/ATP_NAD_kinase)_1763238..1763468_POSITIVE 265 115 75 53 6 pint:PI1582|5end_cell_shape-determining_protein_1509391..1509621_POSITIVE 265 98 51 224 178 pint:PI1435|5end_D12_class_N6_adenine-specific_DNA_methyltransferase_1354559..1354789_POSITIVE 258 109 63 195 142 pint:PI0016|5end_magnesium_chelatase,_subunit_ChlI_20191..20421_POSITIVE 257 138 91 191 142 pint:PI0077|5end_hypothetical_protein_76244..76474_POSITIVE 256 128 81 117 72 pint:PI1858|5end_conserved_hypothetical_protein_1804400..1804630_POSITIVE 255 125 82 100 48 pint:PI1935|5end_possible__internalin-related_protein_1883324..1883554_POSITIVE 254 118 71 80 36 pint:PI0156|5end_conserved_hypothetical_protein_148716..148946_POSITIVE 253 124 85 63 29 pint:PI1424|5end_probable_peptidase_family_M48_1343149..1343379_POSITIVE 247 128 83 84 29 pint:PI2015|5end_D-alanine--D-alanine_ligase_1972724..1972954_POSITIVE 247 130 82 126 78 pint:PI1681|5end_Mg2+/Co2+_transporter_1597126..1597356_POSITIVE 247 79 34 40 1 pint:PI0792|5end_conserved_hypothetical_protein_729068..729298_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 403 78 40 51 13 pint:PI1182|3end_hypothetical_protein_1104371..1104521_POSITIVE 334 108 62 42 4 pint:PI2148|3end_ribonuclease_III_2095541..2095691_POSITIVE 298 88 42 86 39 pint:PI0633|3end_possible_preprotein_translocase,_YajC_subunit_580080..580230_POSITIVE 294 54 16 151 115 pint:PI1314|3end_hypothetical_protein_1231423..1231573_POSITIVE 285 42 14 133 98 pint:PI1272|3end_possible_transcriptional_regulator_1192342..1192492_POSITIVE 274 79 32 98 57 pint:PI0790|3end_hypothetical_protein_729206..729356_POSITIVE 273 123 86 98 55 pint:PI1309|3end_excinuclease_ABC,_A_subunit_1226605..1226755_POSITIVE 265 140 97 50 4 pint:PI1822|3end_ABC_transporter,_ATP-binding_/_permease_1763265..1763415_POSITIVE 264 46 2 59 15 pint:PI0057|3end_conserved_hypothetical_protein_56512..56662_POSITIVE 260 116 71 82 31 pint:PI0665|3end_dihydroorotate_dehydrogenase_608799..608949_POSITIVE 258 109 63 74 21 pint:PI0015|3end_possible__transport_protein_20150..20300_POSITIVE 257 138 91 59 10 pint:PI0076|3end_conserved_hypothetical_protein_76192..76342_POSITIVE 251 147 105 114 70 pint:PI1796|3end_2-hydroxyhepta-2,4-diene-1,7-dioate_isomerase,_fumarylacetoacetate_hydrolase_family_protein_1731086..1731236_POSITIVE 249 93 51 151 109 pint:PI1434|3end_hypothetical_protein_1354570..1354720_POSITIVE 247 128 83 69 14 pint:PI2013|3end_hypothetical_protein_1972789..1972939_POSITIVE 242 136 92 122 75 pint:PI1414|3end_conserved_hypothetical_protein_1334436..1334586_POSITIVE 241 108 62 78 27 pint:PI1481|3end_hypothetical_protein_1404232..1404382_POSITIVE 238 127 86 72 19 pint:PI2111|3end_conserved_hypothetical_protein_2063258..2063408_POSITIVE 238 110 61 151 99 pint:PI0554|3end_hypothetical_protein_504599..504749_POSITIVE 226 129 86 71 24 pint:PI0264|3end_transfer_region-related_protein,_TraN_257371..257521_POSITIVE