Origin IGS: gaaaacaagaccctgataagggaaaagcagggggagccggcatgtggtcggcccccccttttctttttggggaggttattgtttgtctcgatgctctatggagactcaaacaggtattgcagatacgactgtcccatcaaaggcggagcatttacttagctgtggaatgtctatatttggaaggttctaaaaaacagactgcaaa .........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 tttgcagtctgttttttagaaccttccaaatatagacattccacagctaagtaaatgctccgcctttgatgggacagtcgtatctgcaatacctgtttgagtctccatagagcatcgagacaaacaataacctccccaaaaagaaaagggggggccgaccacatgccggctccccctgcttttcccttatcagggtcttgttttc Mask Tandem Repeat Region ================================================ gaaaacaagaccctgataagggaaaagcagggggagccggcatgtggtcggcccccccttttctttttggggaggttattgtttgtctcgatgctctatggagactcaaacaggtattgcagatacgactgtcccatcaaaggcggagcatttacttagctgtggaatgtctatatttggaaggttctaaaaaacagactgcaaa Find is-nt database================================================ Query_seq: PG1630:PG1632|PG1630:PG1632:hypothetical protein:aldose 1-epimerase:->->:1712203..1712407 205 gaaaacaagaccctgataagggaaaagcagggggagccggcatgtggtcggcccccccttttctttttggggaggttattgtttgtctcgatgctctatggagactcaaacaggtattgcagatacgactgtcccatcaaaggcggagcatttacttagctgtggaatgtctatatttggaaggttctaaaaaacagactgcaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG1630:PG1632|PG1630:PG1632:hypothetical protein:aldose 1-epimerase:->->:1712203..1712407 205 gaaaacaagaccctgataagggaaaagcagggggagccggcatgtggtcggcccccccttttctttttggggaggttattgtttgtctcgatgctctatggagactcaaacaggtattgcagatacgactgtcccatcaaaggcggagcatttacttagctgtggaatgtctatatttggaaggttctaaaaaacagactgcaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG1630:PG1632|PG1630:PG1632:hypothetical protein:aldose 1-epimerase:->->:1712203..1712407 205 gaaaacaagaccctgataagggaaaagcagggggagccggcatgtggtcggcccccccttttctttttggggaggttattgtttgtctcgatgctctatggagactcaaacaggtattgcagatacgactgtcccatcaaaggcggagcatttacttagctgtggaatgtctatatttggaaggttctaaaaaacagactgcaaa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gaaaacaagaccctgataagggaaaagcagggggagccggcatgtggtcggcccccccttttctttttggggaggttattgtttgtctcgatgctctatggagactcaaacaggtattgcagatacgactgtcccatcaaaggcggagcatttacttagctgtggaatgtctatatttggaaggttctaaaaaacagactgcaaa Predict ORF larger than 30AA ================================================ Protein_Len: 48 Strand: + Start: 13 End: 156 ............ M I R E K Q G E P A C G R P P L F F L G R L L F V S M L Y G D S N R Y C R Y D C P I K G G A F T ................................................. Protein_Len: 48 Strand: + Start: 44 End: 187 ........................................... M V G P P F S F W G G Y C L S R C S M E T Q T G I A D T T V P S K A E H L L S C G M S I F G R F .................. Protein_Len: 54 Strand: + Start: 42 End: 203 ......................................... M W S A P P F L F G E V I V C L D A L W R L K Q V L Q I R L S H Q R R S I Y L A V E C L Y L E G S K K Q T A .. Protein_Len: 30 Strand: - Start: 3 End: 92 .. F L V R I L S F C P S G A H P R G G R K K K P L N N N T E M ................................................................................................................. Protein_Len: 41 Strand: - Start: 2 End: 124 . F C S G S L P F A P P A P M H D A G G K R K P S T I T Q R S A R H L S L C T N C M ................................................................................. gaaaacaagaccctgataagggaaaagcagggggagccggcatgtggtcggcccccccttttctttttggggaggttattgtttgtctcgatgctctatggagactcaaacaggtattgcagatacgactgtcccatcaaaggcggagcatttacttagctgtggaatgtctatatttggaaggttctaaaaaacagactgcaaa 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================================================ gaaaacaagaccctgataagggaaaagcagggggagccggcatgtggtcggcccccccttttctttttggggaggttattgtttgtctcgatgctctatggagactcaaacaggtattgcagatacgactgtcccatcaaaggcggagcatttacttagctgtggaatgtctatatttggaaggttctaaaaaacagactgcaaa Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 90 HP_score: -8.9 Tail_Score: -4.58283 Start: 22 End: 63 Full_Region: AAGACCCTGATAAGG GAAAAGCAGGGGGAGCCGGC ATGTG GTCGGCCCCCCCTTTTC TTTTTGGGGAGGTTA .....................GAAAAGCAGGGGGAGCCGGCATGTGGTCGGCCCCCCCTTTTC.............................................................................................................................................. TransTerm Strand: - Conf: 83 HP_score: -9.1 Tail_Score: -4.3208 Start: 27 End: 61 Full_Region: acctccccaaaaaga aaagggggggccgac cacat gccggctccccctgc ttttcccttatcagg ..........................aaagggggggccgaccacatgccggctccccctgc................................................................................................................................................ TransTerm Strand: - Conf: 84 HP_score: -12.6 Tail_Score: -3.18766 Start: 28 End: 60 Full_Region: cctccccaaaaagaa aagggggggccgac cacat gccggctccccctg cttttcccttatcag ...........................aagggggggccgaccacatgccggctccccctg................................................................................................................................................. TransTerm Strand: - Conf: 100 HP_score: -15.2 Tail_Score: -3.14977 Start: 30 End: 58 Full_Region: tccccaaaaagaaaa gggggggccgac cacat gccggctccccc tgcttttcccttatc .............................gggggggccgaccacatgccggctccccc................................................................................................................................................... Find igs database================================================ Query_seq: PG1630:PG1632|PG1630:PG1632:hypothetical protein:aldose 1-epimerase:->->:1712203..1712407 205 gaaaacaagaccctgataagggaaaagcagggggagccggcatgtggtcggcccccccttttctttttggggaggttattgtttgtctcgatgctctatggagactcaaacaggtattgcagatacgactgtcccatcaaaggcggagcatttacttagctgtggaatgtctatatttggaaggttctaaaaaacagactgcaaa Intra-Species Hit: Count: 1 Min: 1 Max: 205 Len: 205 Subject: NC_002950_PG1630_PG1632|hypothetical protein:aldose 1-epimerase|POSITIVE:POSITIVE|[1712203,1712407]|205 HSP 1 e-value: 1.0E-100 bit: 365.0 Len: 205 Query Start:1 Query End:205 Subject Strand: POSITIVE Subject Start: 1 Subject End: 205 gaaaacaagaccctgataagggaaaagcagggggagccggcatgtggtcggnnnnnnnttttctttttggggaggttattgtttgtctcgatgctctatggagactcaaacaggtattgcagatacgactgtcccatcaaaggcggagcatttacttagctgtggaatgtctatatttggaaggttctaaaaaacagactgcaaa gaaaacaagaccctgataagggaaaagcagggggagccggcatgtggtcggcccccccttttctttttggggaggttattgtttgtctcgatgctctatggagactcaaacaggtattgcagatacgactgtcccatcaaaggcggagcatttacttagctgtggaatgtctatatttggaaggttctaaaaaacagactgcaaa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAAAACAAGACCCUGAUAAGGGAAAAGCAGGGGGAGCCGGCAUGUGGUCGGCCCCCCCUUUUCUUUUUGGGGAGGUUAUUGUUUGUCUCGAUGCUCUAUGGAGACUCAAACAGGUAUUGCAGAUACGACUGUCCCAUCAAAGGCGGAGCAUUUACUUAGCUGUGGAAUGUCUAUAUUUGGAAGGUUCUAAAAAACAGACUGCAAA ..........(((..(..(((((((((..(((((.((((((.....)))))))))))))))))))))..)))......(((((((((((.(((...))).)))))..))))))...((((((....(((....((((....(((.(((......))).)))))))...)))....((((((....)))))).......)))))). (-67.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUGCAGUCUGUUUUUUAGAACCUUCCAAAUAUAGACAUUCCACAGCUAAGUAAAUGCUCCGCCUUUGAUGGGACAGUCGUAUCUGCAAUACCUGUUUGAGUCUCCAUAGAGCAUCGAGACAAACAAUAACCUCCCCAAAAAGAAAAGGGGGGGCCGACCACAUGCCGGCUCCCCCUGCUUUUCCCUUAUCAGGGUCUUGUUUUC .((((((((((.....))))..............(((.(((((((((..(((....)))..))...)).)))))..)))....))))))..((((.....(((((.((.....)).))))).................(((((...(((((((((((.........))))))))))).))))).......))))........... (-55.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 430 75 35 202 151 NC_002950:PG0339|5end_hypothetical_protein_375062..375292_POSITIVE 424 70 29 207 140 NC_002950:PG0538|5end_outer_membrane_efflux_protein_589142..589372_POSITIVE 421 56 19 188 151 NC_002950:PG1481|5end_conjugative_transposon_protein_TraG_1558447..1558677_NEGATIVE 406 72 38 202 159 NC_002950:PG0165|5end_heat_shock_protein_15_187807..188037_NEGATIVE 403 51 12 182 132 NC_002950:PG0349|5end_hydrolase,_haloacid_dehalogenase-like_family_384459..384689_POSITIVE 393 52 21 148 113 NC_002950:PG1110|5end_hypothetical_protein_1182741..1182971_POSITIVE 391 59 12 163 109 NC_002950:PG1967|5end_TPR_domain_protein_2057168..2057398_POSITIVE 377 69 27 119 64 NC_002950:PG1964|5end_bacterial_sugar_transferase_2052910..2053140_POSITIVE 376 56 27 230 191 NC_002950:PG2208|5end_hypothetical_protein_2320586..2320816_NEGATIVE 376 59 12 68 4 NC_002950:PG2159|5end_protoporphyrinogen_oxidase_2264397..2264627_POSITIVE 375 59 18 133 92 NC_002950:PG1871|5end_hypothetical_protein_1966859..1967089_NEGATIVE 372 70 29 51 9 NC_002950:PG0718|5end_hypothetical_protein_771573..771803_NEGATIVE 368 58 12 197 135 NC_002950:PG0934|5end_hypothetical_protein_994318..994548_NEGATIVE 367 66 27 82 37 NC_002950:PG1022|5end_hypothetical_protein_1083537..1083767_POSITIVE 366 51 11 206 161 NC_002950:PG2201|5end_peptide_deformylase_2309412..2309642_NEGATIVE 366 69 27 122 69 NC_002950:PG1671|5end_hypothetical_protein_1757658..1757888_NEGATIVE 366 69 27 122 69 NC_002950:PG0101|5end_hypothetical_protein_119198..119428_POSITIVE 365 60 11 227 172 NC_002950:PG1269|5end_delta-1-pyrroline-5-carboxylate_dehydrogenase_1349201..1349431_NEGATIVE 360 74 31 55 10 NC_002950:PG1459|5end_hypothetical_protein_1539769..1539999_NEGATIVE 360 70 26 195 154 NC_002950:PG0598|5end_hypothetical_protein_654477..654707_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 797 63 21 66 23 NC_002950:PG1226|3end_peptidyl-prolyl_cis-trans_isomerase,_cyclophilin-type_1304048..1304198_POSITIVE 541 59 11 62 19 NC_002950:PG1630|3end_hypothetical_protein_1712142..1712292_POSITIVE 444 56 11 140 98 NC_002950:PG1711|3end_alpha-1,2-mannosidase_family_protein_1796652..1796802_NEGATIVE 384 54 17 56 15 NC_002950:PG2010|3end_phosphomannomutase,_putative_2100952..2101102_POSITIVE 383 55 12 113 64 NC_002950:PG1218|3end_hypothetical_protein_1296475..1296625_POSITIVE 377 69 27 122 67 NC_002950:PG1963|3end_Sua5/YciO/YrdC/YwlC_family_protein_2052993..2053143_POSITIVE 376 56 27 142 103 NC_002950:PG2209|3end_hypothetical_protein_2320674..2320824_NEGATIVE 375 59 18 60 19 NC_002950:PG1872|3end_urocanate_hydratase_1966932..1967082_NEGATIVE 371 59 12 64 10 NC_002950:PG2158|3end_hypothetical_protein_2264473..2264623_POSITIVE 371 69 25 69 30 NC_002950:PG0231|3end_hypothetical_protein_267409..267559_POSITIVE 367 181 141 114 69 NC_002950:PG0744|3end_RNA_methyltransferase,_TrmH_family_791133..791283_NEGATIVE 366 51 11 101 56 NC_002950:PG2202|3end_Holliday_junction_resolvase-like_protein_2309517..2309667_NEGATIVE 365 56 11 86 26 NC_002950:PG2050|3end_hypothetical_protein_2149159..2149309_NEGATIVE 365 60 11 150 95 NC_002950:PG1270|3end_hypothetical_protein_1349278..1349428_NEGATIVE 364 52 11 63 28 NC_002950:PG2094|3end_hypothetical_protein_2193321..2193471_NEGATIVE 362 77 34 76 18 NC_002950:PG1133|3end_hypothetical_protein_1214103..1214253_POSITIVE 359 55 23 41 1 NC_002950:PG0432|3end_NOL1/NOP2/sun_family_protein_469273..469423_NEGATIVE 359 58 19 148 103 NC_002950:PG0199|3end_TatD_family_protein_237424..237574_NEGATIVE 353 75 38 43 8 NC_002950:PG1675|3end_hypothetical_protein_1760360..1760510_POSITIVE 353 70 21 115 65 NC_002950:PG1324|3end_Holliday_junction_resolvase_1402862..1403012_NEGATIVE