Origin IGS: agcagcctagtcgttctcccaatcctttatacattctacaggaggatagaactctattttgtccggataatctttatcacagtcagcatagagaaccgaacttaatagaccgaaaagcctat .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ataggcttttcggtctattaagttcggttctctatgctgactgtgataaagattatccggacaaaatagagttctatcctcctgtagaatgtataaaggattgggagaacgactaggctgct Mask Tandem Repeat Region ================================================ agcagcctagtcgttctcccaatcctttatacattctacaggaggatagaactctattttgtccggataatctttatcacagtcagcatagagaaccgaacttaatagaccgaaaagcctat Find is-nt database================================================ Query_seq: PG1510:PG1511|PG1510:PG1511:hypothetical protein:hypothetical protein:<-->:1587627..1587748 122 agcagcctagtcgttctcccaatcctttatacattctacaggaggatagaactctattttgtccggataatctttatcacagtcagcatagagaaccgaacttaatagaccgaaaagcctat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG1510:PG1511|PG1510:PG1511:hypothetical protein:hypothetical protein:<-->:1587627..1587748 122 agcagcctagtcgttctcccaatcctttatacattctacaggaggatagaactctattttgtccggataatctttatcacagtcagcatagagaaccgaacttaatagaccgaaaagcctat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG1510:PG1511|PG1510:PG1511:hypothetical protein:hypothetical protein:<-->:1587627..1587748 122 agcagcctagtcgttctcccaatcctttatacattctacaggaggatagaactctattttgtccggataatctttatcacagtcagcatagagaaccgaacttaatagaccgaaaagcctat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 agcagcctagtcgttctcccaatcctttatacattctacaggaggatagaactctattttgtccggataatctttatcacagtcagcatagagaaccgaacttaatagaccgaaaagcctat Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: + Start: 33 End: 122 ................................ M L Q E D R T L F C P D N L Y H S Q H R E P N L I D R K A Y agcagcctagtcgttctcccaatcctttatacattctacaggaggatagaactctattttgtccggataatctttatcacagtcagcatagagaaccgaacttaatagaccgaaaagcctat 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================================================ agcagcctagtcgttctcccaatcctttatacattctacaggaggatagaactctattttgtccggataatctttatcacagtcagcatagagaaccgaacttaatagaccgaaaagcctat Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG1510:PG1511|PG1510:PG1511:hypothetical protein:hypothetical protein:<-->:1587627..1587748 122 agcagcctagtcgttctcccaatcctttatacattctacaggaggatagaactctattttgtccggataatctttatcacagtcagcatagagaaccgaacttaatagaccgaaaagcctat Intra-Species Hit: Count: 2 Min: 1 Max: 122 Len: 122 Subject: NC_002950_PG1510_PG1511|hypothetical protein:hypothetical protein|NEGATIVE:POSITIVE|[1587627,1587748]|122 HSP 1 e-value: 2.0E-63 bit: 242.0 Len: 122 Query Start:1 Query End:122 Subject Strand: POSITIVE Subject Start: 1 Subject End: 122 agcagcctagtcgttctcccaatcctttatacattctacaggaggatagaactctattttgtccggataatctttatcacagtcagcatagagaaccgaacttaatagaccgaaaagcctat agcagcctagtcgttctcccaatcctttatacattctacaggaggatagaactctattttgtccggataatctttatcacagtcagcatagagaaccgaacttaatagaccgaaaagcctat Subject: NC_002950_PG1519_PG1521|hypothetical protein:O-succinylbenzoic acid--CoA ligase|POSITIVE:NEGATIVE|[1597486,1598143]|658 HSP 1 e-value: 4.0E-40 bit: 165.0 Len: 111 Query Start:8 Query End:118 Subject Strand: POSITIVE Subject Start: 328 Subject End: 437 .......tagtcgttctcccaatcctttatacattctacaggaggatagaactctattttgtccggataatctttatcacagtcagcatagagaaccgaacttaatagaccgaaaagc.... .......tagtcgttcttccaatcctttatacattctacaggaggataaaactctatttt-tccggataatctttatcacagtcagcatagagaaccggacttacaagaccgaaaagc.... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AGCAGCCUAGUCGUUCUCCCAAUCCUUUAUACAUUCUACAGGAGGAUAGAACUCUAUUUUGUCCGGAUAAUCUUUAUCACAGUCAGCAUAGAGAACCGAACUUAAUAGACCGAAAAGCCUAU .((.........(((((....(((((((............))))))))))))((((((..((.(((....((((((((.......).))))))).))).))..)))))).......)).... (-22.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUAGGCUUUUCGGUCUAUUAAGUUCGGUUCUCUAUGCUGACUGUGAUAAAGAUUAUCCGGACAAAAUAGAGUUCUAUCCUCCUGUAGAAUGUAUAAAGGAUUGGGAGAACGACUAGGCUGCU .(((.((..(((.((((((..((((((.(((.(((((.....)).))).)))....))))))..)))))).(((((((((..((((.....)))).)))).)))))...)))..)).))).. (-29.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 940 50 1 141 92 NC_002950:PG1510|5end_hypothetical_protein_1587536..1587766_NEGATIVE 320 100 59 79 37 NC_002950:PG1313|5end_dipeptidase-related_protein_1392282..1392512_POSITIVE 296 99 51 156 101 NC_002950:PG1252|5end_hypothetical_protein_1329584..1329814_NEGATIVE 282 25 4 23 4 NC_002950:PG1525|5end_isochorismate_synthase,_putative_1603865..1604095_NEGATIVE 260 99 51 140 86 NC_002950:PG1378|5end_A/G-specific_adenine_glycosylase_1458938..1459168_NEGATIVE 257 119 81 67 35 NC_002950:PG0409|5end_hypothetical_protein_441449..441679_POSITIVE 255 88 41 212 162 NC_002950:PG1634|5end_hypothetical_protein_1715148..1715378_NEGATIVE 255 47 1 190 136 NC_002950:PG0700|5end_hypothetical_protein_756595..756825_NEGATIVE 253 42 2 122 78 NC_002950:PG1333|5end_hypothetical_protein_1415425..1415655_NEGATIVE 252 99 53 208 167 NC_002950:PG1671|5end_hypothetical_protein_1757658..1757888_NEGATIVE 252 99 53 208 167 NC_002950:PG1266|5end_hypothetical_protein_1346987..1347217_NEGATIVE 252 99 53 208 167 NC_002950:PG0101|5end_hypothetical_protein_119198..119428_POSITIVE 251 100 51 64 20 NC_002950:PG1283|5end_hypothetical_protein_1360553..1360783_POSITIVE 250 66 30 120 83 NC_002950:PG1061|5end_ISPg6,_transposase_1129818..1130048_NEGATIVE 248 25 2 46 24 NC_002950:PG1362|5end_hypothetical_protein_1443594..1443824_NEGATIVE 248 47 5 166 120 NC_002950:PG0659|5end_hypothetical_protein_709148..709378_NEGATIVE 248 119 72 212 173 NC_002950:PG0189|5end_hypothetical_protein_225291..225521_POSITIVE 244 67 24 163 111 NC_002950:PG0706|5end_hypothetical_protein_760350..760580_POSITIVE 243 120 72 157 122 NC_002950:PG0882|5end_hypothetical_protein_944195..944425_POSITIVE 243 87 41 46 3 NC_002950:PG0362|5end_hypothetical_protein_395301..395531_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 314 98 51 145 93 NC_002950:PG0309|3end_thiamine_biosynthesis_lipoprotein_ApbE_344010..344160_NEGATIVE 296 99 51 143 88 NC_002950:PG1253|3end_DNA_ligase,_NAD-dependent_1329597..1329747_NEGATIVE 268 42 10 51 13 NC_002950:PG1105|3end_RNA_polymerase_sigma-54_factor_1175716..1175866_NEGATIVE 260 50 1 118 60 NC_002950:PG2023|3end_methionyl-tRNA_formyltransferase_2117565..2117715_NEGATIVE 259 48 2 118 57 NC_002950:PG0593|3end_htrA_protein_651938..652088_POSITIVE 256 98 57 63 9 NC_002950:PG2154|3end_hypothetical_protein_2260760..2260910_NEGATIVE 255 88 41 146 96 NC_002950:PG1635|3end_hypothetical_protein_1715214..1715364_NEGATIVE 253 42 2 125 81 NC_002950:PG1334|3end_band_7/Mec-2_family_protein_1415422..1415572_NEGATIVE 252 74 31 116 69 NC_002950:PG1886|3end_GTP-binding_protein_HflX_1983316..1983466_NEGATIVE 248 119 81 56 17 NC_002950:PG1257|3end_hypothetical_protein_1334461..1334611_NEGATIVE 245 99 57 52 8 NC_002950:PG1574|3end_hypothetical_protein_1652461..1652611_NEGATIVE 243 120 72 47 12 NC_002950:PG0881|3end_recombinase_A_944165..944315_POSITIVE 243 87 41 146 103 NC_002950:PG0361|3end_hypothetical_protein_395481..395631_POSITIVE 242 43 1 82 22 NC_002950:PG0062|3end_TPR_domain_protein_75810..75960_POSITIVE 240 65 24 97 49 NC_002950:PG0777|3end_electron_transfer_flavoprotein,_beta_subunit_830193..830343_NEGATIVE 238 50 4 117 53 NC_002950:PG1135|3end_bacterial_sugar_transferase_1216554..1216704_POSITIVE 234 47 1 106 58 NC_002950:PG1389|3end_DNA-binding_protein,_histone-like_family_1470870..1471020_NEGATIVE 233 55 11 59 9 NC_002950:PG0415|3end_peptidyl-prolyl_cis-trans_isomerase,_PPIC-type_453714..453864_NEGATIVE 232 50 7 136 98 NC_002950:PG0118|3end_glycosyl_transferase,_group_2_family_protein_142344..142494_POSITIVE 230 66 23 127 86 NC_002950:PG1754|3end_hypothetical_protein_1842284..1842434_POSITIVE