Origin IGS: tgattacacttttgtgtaatatttcagacaacaaattcagaattacacaaaagtgtaacgatataatttggagatataaatatatttgcaacagaaataatcaagtcgacaagattataaaacagacctaactgttaaaaggagcaatgccggaagctataagatggcaataaataataaaaat .........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 atttttattatttattgccatcttatagcttccggcattgctccttttaacagttaggtctgttttataatcttgtcgacttgattatttctgttgcaaatatatttatatctccaaattatatcgttacacttttgtgtaattctgaatttgttgtctgaaatattacacaaaagtgtaatca Mask Tandem Repeat Region ================================================ tgattacacttttgtgtaatatttcagacaacaaattcagaattacacaaaagtgtaacgatataatttggagatataaatatatttgcaacagaaataatcaagtcgacaagattataaaacagacctaactgttaaaaggagcaatgccggaagctataagatggcaataaataataaaaat Find is-nt database================================================ Query_seq: PI1553:PI1554|PI1553:PI1554:hypothetical protein:hypothetical protein:->->:1470231..1470414 184 tgattacacttttgtgtaatatttcagacaacaaattcagaattacacaaaagtgtaacgatataatttggagatataaatatatttgcaacagaaataatcaagtcgacaagattataaaacagacctaactgttaaaaggagcaatgccggaagctataagatggcaataaataataaaaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1553:PI1554|PI1553:PI1554:hypothetical protein:hypothetical protein:->->:1470231..1470414 184 tgattacacttttgtgtaatatttcagacaacaaattcagaattacacaaaagtgtaacgatataatttggagatataaatatatttgcaacagaaataatcaagtcgacaagattataaaacagacctaactgttaaaaggagcaatgccggaagctataagatggcaataaataataaaaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1553:PI1554|PI1553:PI1554:hypothetical protein:hypothetical protein:->->:1470231..1470414 184 tgattacacttttgtgtaatatttcagacaacaaattcagaattacacaaaagtgtaacgatataatttggagatataaatatatttgcaacagaaataatcaagtcgacaagattataaaacagacctaactgttaaaaggagcaatgccggaagctataagatggcaataaataataaaaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgattacacttttgtgtaatatttcagacaacaaattcagaattacacaaaagtgtaacgatataatttggagatataaatatatttgcaacagaaataatcaagtcgacaagattataaaacagacctaactgttaaaaggagcaatgccggaagctataagatggcaataaataataaaaat Predict ORF larger than 30AA ================================================ Protein_Len: 42 Strand: + Start: 3 End: 128 .. M T L L C N I S D N K F R I T Q K C N D I I W R Y K Y I C N R N N Q V D K I I K Q T ........................................................ Protein_Len: 33 Strand: - Start: 27 End: 125 .......................... V V F E S N C L L T V I Y N P S I F I N A V S I I L D V L N Y F M ........................................................... Protein_Len: 31 Strand: - Start: 2 End: 94 . I V S K H L I E S L L N L I V C F H L S I I Q L Y L Y I Q L M .......................................................................................... tgattacacttttgtgtaatatttcagacaacaaattcagaattacacaaaagtgtaacgatataatttggagatataaatatatttgcaacagaaataatcaagtcgacaagattataaaacagacctaactgttaaaaggagcaatgccggaagctataagatggcaataaataataaaaat 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================================================ tgattacacttttgtgtaatatttcagacaacaaattcagaattacacaaaagtgtaacgatataatttggagatataaatatatttgcaacagaaataatcaagtcgacaagattataaaacagacctaactgttaaaaggagcaatgccggaagctataagatggcaataaataataaaaat Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI1553:PI1554|PI1553:PI1554:hypothetical protein:hypothetical protein:->->:1470231..1470414 184 tgattacacttttgtgtaatatttcagacaacaaattcagaattacacaaaagtgtaacgatataatttggagatataaatatatttgcaacagaaataatcaagtcgacaagattataaaacagacctaactgttaaaaggagcaatgccggaagctataagatggcaataaataataaaaat Intra-Species Hit: Count: 1 Min: 1 Max: 184 Len: 184 Subject: pint_PI1553_PI1554|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[1470231,1470414]|184 HSP 1 e-value: 1.0E-100 bit: 365.0 Len: 184 Query Start:1 Query End:184 Subject Strand: POSITIVE Subject Start: 1 Subject End: 184 tgattacacttttgtgtaatatttcagacaacaaattcagaattacacaaaagtgtaacgatataatttggagatataaatatatttgcaacagaaataatcaagtcgacaagattataaaacagacctaactgttaaaaggagcaatgccggaagctataagatggcaataaataataaaaat tgattacacttttgtgtaatatttcagacaacaaattcagaattacacaaaagtgtaacgatataatttggagatataaatatatttgcaacagaaataatcaagtcgacaagattataaaacagacctaactgttaaaaggagcaatgccggaagctataagatggcaataaataataaaaat Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAUUACACUUUUGUGUAAUAUUUCAGACAACAAAUUCAGAAUUACACAAAAGUGUAACGAUAUAAUUUGGAGAUAUAAAUAUAUUUGCAACAGAAAUAAUCAAGUCGACAAGAUUAUAAAACAGACCUAACUGUUAAAAGGAGCAAUGCCGGAAGCUAUAAGAUGGCAAUAAAUAAUAAAAAU ...(((((((((((((((((...((.((........)).)))))))))))))))))))((((.....(((.((((((....)))))).)))..((.....))..)))).....(((((..(((((......)))))...........(((((....(.....).)))))....)))))...... (-35.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUUUUAUUAUUUAUUGCCAUCUUAUAGCUUCCGGCAUUGCUCCUUUUAACAGUUAGGUCUGUUUUAUAAUCUUGUCGACUUGAUUAUUUCUGUUGCAAAUAUAUUUAUAUCUCCAAAUUAUAUCGUUACACUUUUGUGUAAUUCUGAAUUUGUUGUCUGAAAUAUUACACAAAAGUGUAAUCA ...............((((..............))))((((.......(((((......)))))..((((((..(....)..)))))).......))))..........................((((((((((((((((((((.((........)).))...)))))))))))))))))).. (-34.54) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 361 168 141 226 190 pint:PI1641|5end_hypothetical_protein_1558495..1558725_POSITIVE 361 168 141 226 190 pint:PI0347|5end_hypothetical_protein_321267..321497_POSITIVE 310 170 122 70 26 pint:PI0313|5end_conserved_hypothetical_protein_294833..295063_POSITIVE 286 170 126 80 20 pint:PI2166|5end_hypothetical_protein_2111394..2111624_POSITIVE 274 176 133 226 173 pint:PI1319|5end_possible_OmpA_,_outer_membrane_protein-related_protein_1235655..1235885_POSITIVE 272 168 131 83 50 pint:PI1980|5end_conserved_hypothetical_protein_1937470..1937700_POSITIVE 264 169 125 206 166 pint:PI1675|5end_TonB-dependent_outer_membrane_receptor_1588107..1588337_POSITIVE 261 168 126 204 168 pint:PI2008|5end__ABC_transporter,_ATP-binding_protein_1967123..1967353_POSITIVE 259 179 134 121 66 pint:PI0346|5end_hypothetical_protein_320834..321064_POSITIVE 248 168 140 52 25 pint:PI1137|5end_hypothetical_protein_1062970..1063200_POSITIVE 248 170 121 57 17 pint:PI0652|5end_conserved_hypothetical_protein_592878..593108_POSITIVE 245 169 123 219 167 pint:PI0429|5end_hypothetical_protein_396418..396648_POSITIVE 244 170 124 135 80 pint:PI2136|5end_hypothetical_protein_2082605..2082835_POSITIVE 243 168 121 143 90 pint:PI0936|5end_conserved_hypothetical_protein_868329..868559_POSITIVE 242 171 131 70 18 pint:PI0964|5end_conserved_hypothetical_protein_893238..893468_POSITIVE 242 169 143 119 83 pint:PI0654|5end_K+-dependent_Na+/Ca+_exchanger_related-protein_596283..596513_POSITIVE 241 48 4 166 123 pint:PI0049|5end_outer_membrane_receptor_protein_(iron_transport)_48605..48835_POSITIVE 240 169 130 67 29 pint:PI0736|5end_transcriptional_regulator,_TetR_family_670580..670810_POSITIVE 238 165 124 162 131 pint:PI0454|5end_hypothetical_protein_426653..426883_POSITIVE 235 169 121 211 160 pint:PI0790|5end_hypothetical_protein_728953..729183_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 310 170 122 125 81 pint:PI0311|3end_hypothetical_protein_294968..295118_POSITIVE 310 170 122 97 53 pint:PI0312|3end_hypothetical_protein_294940..295090_POSITIVE 278 166 126 136 102 pint:PI1805|3end_TPR_repeat_containing_protein_1740533..1740683_POSITIVE 271 170 124 89 51 pint:PI1736|3end_topoisomerase_IV,_subunit_A_1657090..1657240_POSITIVE 270 129 85 114 59 pint:PI0227|3end_ABC_transporter,_ATP-binding/permease_protein_225632..225782_POSITIVE 266 176 137 46 1 pint:PI1318|3end_hypothetical_protein_1235555..1235705_POSITIVE 266 156 122 150 113 pint:PI0533|3end_ABC_transporter,_permease_protein_488421..488571_POSITIVE 264 169 126 114 68 pint:PI1952|3end_hypothetical_protein_1907039..1907189_POSITIVE 250 170 123 78 30 pint:PI1380|3end_conserved_hypothetical_protein_1303242..1303392_POSITIVE 243 168 121 54 1 pint:PI0935|3end_collagenase,_protease_868320..868470_POSITIVE 239 168 121 128 73 pint:PI1012|3end_DNA-binding_protein,_histone-like_family_933544..933694_POSITIVE 239 167 123 103 48 pint:PI0375|3end_hypothetical_protein_346082..346232_POSITIVE 238 168 121 146 102 pint:PI0667|3end_hypothetical_protein_610477..610627_POSITIVE 229 170 123 143 107 pint:PI0955|3end_conserved_hypothetical_protein_886084..886234_POSITIVE 226 172 133 101 64 pint:PI1965|3end_hypothetical_protein_1922906..1923056_POSITIVE 226 172 133 48 11 pint:PI1964|3end_conserved_hypothetical_protein_1922853..1923003_POSITIVE 224 167 129 52 2 pint:PI1013|3end_probable_transcriptional_regulator_934368..934518_POSITIVE 224 167 139 46 7 pint:PI0221|3end_DNA_methylase,_site-specific_DNA-methyltransferase_(adenine-specific)_217796..217946_POSITIVE 223 165 123 105 71 pint:PI0891|3end_transketolase_822905..823055_POSITIVE 221 169 140 50 20 pint:PI1528|3end_hypothetical_protein_1449878..1450028_POSITIVE