Origin IGS: taagaaacaacttttcgttcgattattaggtctattgccacagtttcagtcttggcaaacagcaagaaattatacacaaaaaaataggggcagtcccacataaaggaactgcccctgattatattttttaatttgctgttatgttctcgctaatta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taattagcgagaacataacagcaaattaaaaaatataatcaggggcagttcctttatgtgggactgcccctatttttttgtgtataatttcttgctgtttgccaagactgaaactgtggcaatagacctaataatcgaacgaaaagttgtttctta Mask Tandem Repeat Region ================================================ taagaaacaacttttcgttcgattattaggtctattgccacagtttcagtcttggcaaacagcaagaaattatacacaaaaaaataggggcagtcccacataaaggaactgcccctgattatattttttaatttgctgttatgttctcgctaatta Find is-nt database================================================ Query_seq: PI1773:PI1774|PI1773:PI1774:alpha-amylase (neopullulanase):hypothetical protein:->->:1706168..1706323 156 taagaaacaacttttcgttcgattattaggtctattgccacagtttcagtcttggcaaacagcaagaaattatacacaaaaaaataggggcagtcccacataaaggaactgcccctgattatattttttaatttgctgttatgttctcgctaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1773:PI1774|PI1773:PI1774:alpha-amylase (neopullulanase):hypothetical protein:->->:1706168..1706323 156 taagaaacaacttttcgttcgattattaggtctattgccacagtttcagtcttggcaaacagcaagaaattatacacaaaaaaataggggcagtcccacataaaggaactgcccctgattatattttttaatttgctgttatgttctcgctaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1773:PI1774|PI1773:PI1774:alpha-amylase (neopullulanase):hypothetical protein:->->:1706168..1706323 156 taagaaacaacttttcgttcgattattaggtctattgccacagtttcagtcttggcaaacagcaagaaattatacacaaaaaaataggggcagtcccacataaaggaactgcccctgattatattttttaatttgctgttatgttctcgctaatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taagaaacaacttttcgttcgattattaggtctattgccacagtttcagtcttggcaaacagcaagaaattatacacaaaaaaataggggcagtcccacataaaggaactgcccctgattatattttttaatttgctgttatgttctcgctaatta Predict ORF larger than 30AA ================================================ Protein_Len: 40 Strand: - Start: 3 End: 122 .. S V V K R E I I L D I A V T E T K A F L L F N Y V F F Y P C D W M F S S G R I M .................................. taagaaacaacttttcgttcgattattaggtctattgccacagtttcagtcttggcaaacagcaagaaattatacacaaaaaaataggggcagtcccacataaaggaactgcccctgattatattttttaatttgctgttatgttctcgctaatta 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================================================ taagaaacaacttttcgttcgattattaggtctattgccacagtttcagtcttggcaaacagcaagaaattatacacaaaaaaataggggcagtcccacataaaggaactgcccctgattatattttttaatttgctgttatgttctcgctaatta Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 76 HP_score: -3.5 Tail_Score: -5.40004 Start: 79 End: 123 Full_Region: AAGAAATTATACACA AAAAAATAGGGGCAGTCCC ACATAAA GGAACTGCCCCTGATTATA TTTTTTAATTTGCTG ..............................................................................AAAAAATAGGGGCAGTCCCACATAAAGGAACTGCCCCTGATTATA................................. TransTerm Strand: + Conf: 69 HP_score: -6.1 Tail_Score: -4.31698 Start: 81 End: 121 Full_Region: GAAATTATACACAAA AAAATAGGGGCAGTCCC ACATAAA GGAACTGCCCCTGATTA TATTTTTTAATTTGC ................................................................................AAAATAGGGGCAGTCCCACATAAAGGAACTGCCCCTGATTA................................... TransTerm Strand: + Conf: 78 HP_score: -7.8 Tail_Score: -4.22231 Start: 84 End: 118 Full_Region: ATTATACACAAAAAA ATAGGGGCAGTCCC ACATAAA GGAACTGCCCCTGA TTATATTTTTTAATT ...................................................................................ATAGGGGCAGTCCCACATAAAGGAACTGCCCCTGA...................................... TransTerm Strand: - Conf: 100 HP_score: -11.3 Tail_Score: -5.76633 Start: 85 End: 117 Full_Region: attaaaaaatataat caggggcagttcc tttatgt gggactgccccta tttttttgtgtataa ....................................................................................caggggcagttcctttatgtgggactgccccta....................................... TransTerm Strand: - Conf: 100 HP_score: -13.9 Tail_Score: -4.51477 Start: 87 End: 115 Full_Region: taaaaaatataatca ggggcagttcc tttatgt gggactgcccc tatttttttgtgtat ......................................................................................ggggcagttcctttatgtgggactgcccc......................................... Find igs database================================================ Query_seq: PI1773:PI1774|PI1773:PI1774:alpha-amylase (neopullulanase):hypothetical protein:->->:1706168..1706323 156 taagaaacaacttttcgttcgattattaggtctattgccacagtttcagtcttggcaaacagcaagaaattatacacaaaaaaataggggcagtcccacataaaggaactgcccctgattatattttttaatttgctgttatgttctcgctaatta Intra-Species Hit: Count: 1 Min: 1 Max: 156 Len: 156 Subject: pint_PI1773_PI1774|alpha-amylase (neopullulanase):hypothetical protein|POSITIVE:POSITIVE|[1706168,1706323]|156 HSP 1 e-value: 5.0E-71 bit: 268.0 Len: 156 Query Start:1 Query End:156 Subject Strand: POSITIVE Subject Start: 1 Subject End: 156 taagaaacaacttttcgttcgattattaggtctattgccacagtttcagtcttggcaaacagcaagaaattatacacnnnnnnntaggggcagtcccacataaaggaactgcccctgattatattttttaatttgctgttatgttctcgctaatta taagaaacaacttttcgttcgattattaggtctattgccacagtttcagtcttggcaaacagcaagaaattatacacaaaaaaataggggcagtcccacataaaggaactgcccctgattatattttttaatttgctgttatgttctcgctaatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGAAACAACUUUUCGUUCGAUUAUUAGGUCUAUUGCCACAGUUUCAGUCUUGGCAAACAGCAAGAAAUUAUACACAAAAAAAUAGGGGCAGUCCCACAUAAAGGAACUGCCCCUGAUUAUAUUUUUUAAUUUGCUGUUAUGUUCUCGCUAAUUA ...(((((......((....))......(((.....)))...))))).((...((((((((((((...((((............((((((((((.((.......)).))))))))))...........)))))))))))).))))...))...... (-38.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUUAGCGAGAACAUAACAGCAAAUUAAAAAAUAUAAUCAGGGGCAGUUCCUUUAUGUGGGACUGCCCCUAUUUUUUUGUGUAUAAUUUCUUGCUGUUUGCCAAGACUGAAACUGUGGCAAUAGACCUAAUAAUCGAACGAAAAGUUGUUUCUUA ....(((((((((.......(((....(((((((......((((((((((((.......)))))))))))))))))))..))).....))))))))).((((((((.......)).))))))..............((((((....)))))).... (-44.00) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 336 114 73 203 157 pint:PI1058|5end_possible_FHA_domain_protein_977577..977807_POSITIVE 276 138 94 216 164 pint:PI0715|5end_hypothetical_protein_652311..652541_POSITIVE 273 64 28 231 192 pint:PI1780|5end_1-deoxy-D-xylulose_5-phosphate_reductoisomerase_1711866..1712096_POSITIVE 272 58 31 65 42 pint:PI0837|5end_conserved_hypothetical_protein_772308..772538_POSITIVE 264 56 15 230 194 pint:PI0441|5end_50S_ribosomal_protein_L11_411182..411412_POSITIVE 263 77 35 52 12 pint:PI2112|5end_phosphopantetheine_adenylyltransferase_2063194..2063424_POSITIVE 262 55 16 107 70 pint:PI1684|5end_dimethyladenosine_transferase_1601073..1601303_POSITIVE 258 130 87 90 44 pint:PI1767|5end_fructokinase,_pfkB_family_1694285..1694515_POSITIVE 257 57 11 74 20 pint:PI2163|5end_conserved_hypothetical_protein_2109445..2109675_POSITIVE 255 65 34 210 177 pint:PI2073|5end_mobilization_protein_2031995..2032225_POSITIVE 254 123 89 227 194 pint:PI0128|5end_dipeptidase,_pathogenicity_island-encoded_protein_D_120532..120762_POSITIVE 249 72 33 197 162 pint:PI0207|5end_conserved_hypothetical_protein_199797..200027_POSITIVE 247 76 32 60 2 pint:PI1812|5end_possible_alpha-amylase_1750759..1750989_POSITIVE 247 66 31 53 24 pint:PI0847|5end_thiamine_biosynthesis_lipoprotein,_ApbE_781130..781360_POSITIVE 247 144 109 175 136 pint:PI0665|5end_dihydroorotate_dehydrogenase_607865..608095_POSITIVE 246 60 11 62 16 pint:PI0321|5end_conserved_hypothetical_protein_302598..302828_POSITIVE 245 58 15 193 133 pint:PI0600|5end_bifunctional_purine_biosynthesis_protein,_5-aminoimidazole-4-carboxamide_ribonucleotide(AICAR)_transformylase/IMP_cyclohydrolase_547482..547712_POSITIVE 245 58 15 87 27 pint:PI0599|5end_hypothetical_protein_547376..547606_POSITIVE 245 56 11 177 132 pint:PI0551|5end_hypothetical_protein_502328..502558_POSITIVE 243 100 53 65 15 pint:PI2084|5end_hypothetical_protein_2040387..2040617_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 336 114 73 94 48 pint:PI1057|3end_hypothetical_protein_977548..977698_POSITIVE 300 65 28 38 1 pint:PI0831|3end_hypothetical_protein_768448..768598_POSITIVE 276 57 14 78 26 pint:PI0343|3end_hypothetical_protein_317920..318070_POSITIVE 272 58 31 50 27 pint:PI0836|3end_conserved_hypothetical_protein_772373..772523_POSITIVE 267 58 12 140 91 pint:PI0888|3end_hypothetical_protein_818613..818763_POSITIVE 258 130 87 75 29 pint:PI1766|3end_sugar_transporter,_possible_glucose/galactose_transporter_1694350..1694500_POSITIVE 254 68 27 139 99 pint:PI1612|3end_hypothetical_protein_1539945..1540095_POSITIVE 247 144 109 49 10 pint:PI0664|3end_dihydroorotate_dehydrogenase,_electron_transfer_subunit_607819..607969_POSITIVE 247 120 84 121 95 pint:PI0362|3end_hypothetical_protein_333938..334088_POSITIVE 242 121 81 57 16 pint:PI0585|3end_conserved_hypothetical_protein_533258..533408_POSITIVE 240 115 86 151 125 pint:PI0088|3end_S-adenosylmethionine_synthetase_88032..88182_POSITIVE 239 138 93 59 15 pint:PI0355|3end_probable__N-acetylmuramoyl-L-alanine_amidase_326698..326848_POSITIVE 236 66 28 55 16 pint:PI1237|3end_ATP-dependent_DNA_helicase_1161480..1161630_POSITIVE 235 122 84 150 109 pint:PI0407|3end_tryptophanyl-tRNA_synthetase_(tryptophan--tRNA_ligase)_374147..374297_POSITIVE 232 57 11 116 63 pint:PI0683|3end_hypothetical_protein_619797..619947_POSITIVE 229 57 12 151 77 pint:PI0479|3end_50S_ribosomal_protein_L15_441648..441798_POSITIVE 227 59 11 112 52 pint:PI2001|3end_hypothetical_protein_1960478..1960628_POSITIVE 227 99 85 32 18 pint:PI1756|3end_conserved_hypothetical_protein_1683150..1683300_POSITIVE 226 118 86 121 81 pint:PI0639|3end_small_heat_shock_protein_583165..583315_POSITIVE 226 65 21 54 10 pint:PI0199|3end_phosphate_acetyltransferase_190923..191073_POSITIVE