Origin IGS: tgttccaatctgattcttattgagttaaagatagaaagattcgacagaatgtcgactaaccgaaaaaggaaagacccgcccccttcctcgaccgaaaatacctctcataactatatgcacggacgagagccgactaccccctc .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 gagggggtagtcggctctcgtccgtgcatatagttatgagaggtattttcggtcgaggaagggggcgggtctttcctttttcggttagtcgacattctgtcgaatctttctatctttaactcaataagaatcagattggaaca Mask Tandem Repeat Region ================================================ tgttccaatctgattcttattgagttaaagatagaaagattcgacagaatgtcgactaaccgaaaaaggaaagacccgcccccttcctcgaccgaaaatacctctcataactatatgcacggacgagagccgactaccccctc Find is-nt database================================================ Query_seq: PG2003:PG2004|PG2003:PG2004:deoxyguanosinetriphosphate triphosphohydrolase:hypothetical protein:<-<-:2093082..2093224 143 tgttccaatctgattcttattgagttaaagatagaaagattcgacagaatgtcgactaaccgaaaaaggaaagacccgcccccttcctcgaccgaaaatacctctcataactatatgcacggacgagagccgactaccccctc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG2003:PG2004|PG2003:PG2004:deoxyguanosinetriphosphate triphosphohydrolase:hypothetical protein:<-<-:2093082..2093224 143 tgttccaatctgattcttattgagttaaagatagaaagattcgacagaatgtcgactaaccgaaaaaggaaagacccgcccccttcctcgaccgaaaatacctctcataactatatgcacggacgagagccgactaccccctc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG2003:PG2004|PG2003:PG2004:deoxyguanosinetriphosphate triphosphohydrolase:hypothetical protein:<-<-:2093082..2093224 143 tgttccaatctgattcttattgagttaaagatagaaagattcgacagaatgtcgactaaccgaaaaaggaaagacccgcccccttcctcgaccgaaaatacctctcataactatatgcacggacgagagccgactaccccctc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgttccaatctgattcttattgagttaaagatagaaagattcgacagaatgtcgactaaccgaaaaaggaaagacccgcccccttcctcgaccgaaaatacctctcataactatatgcacggacgagagccgactaccccctc Predict ORF larger than 30AA ================================================ Protein_Len: 44 Strand: + Start: 10 End: 141 ......... M I L I E L K I E R F D R M S T N R K R K D P P P S S T E N T S H N Y M H G R E P T T P .. Protein_Len: 31 Strand: - Start: 28 End: 120 ........................... L Y F S E V S H R S V S F P F V R G R G R G F I G R M V I H M ....................... tgttccaatctgattcttattgagttaaagatagaaagattcgacagaatgtcgactaaccgaaaaaggaaagacccgcccccttcctcgaccgaaaatacctctcataactatatgcacggacgagagccgactaccccctc 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================================================ tgttccaatctgattcttattgagttaaagatagaaagattcgacagaatgtcgactaaccgaaaaaggaaagacccgcccccttcctcgaccgaaaatacctctcataactatatgcacggacgagagccgactaccccctc Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 64 HP_score: -2.1 Tail_Score: -4.7629 Start: 68 End: 87 Full_Region: ggtattttcggtcga ggaaggg ggcggg tctttcc tttttcggttagtcg ...................................................................ggaagggggcgggtctttcc........................................................ Find igs database================================================ Query_seq: PG2003:PG2004|PG2003:PG2004:deoxyguanosinetriphosphate triphosphohydrolase:hypothetical protein:<-<-:2093082..2093224 143 tgttccaatctgattcttattgagttaaagatagaaagattcgacagaatgtcgactaaccgaaaaaggaaagacccgcccccttcctcgaccgaaaatacctctcataactatatgcacggacgagagccgactaccccctc Intra-Species Hit: Count: 1 Min: 1 Max: 143 Len: 143 Subject: NC_002950_PG2003_PG2004|deoxyguanosinetriphosphate triphosphohydrolase:hypothetical protein|NEGATIVE:NEGATIVE|[2093082,2093224]|143 HSP 1 e-value: 8.0E-76 bit: 283.0 Len: 143 Query Start:1 Query End:143 Subject Strand: POSITIVE Subject Start: 1 Subject End: 143 tgttccaatctgattcttattgagttaaagatagaaagattcgacagaatgtcgactaaccgaaaaaggaaagacccgcccccttcctcgaccgaaaatacctctcataactatatgcacggacgagagccgactaccccctc tgttccaatctgattcttattgagttaaagatagaaagattcgacagaatgtcgactaaccgaaaaaggaaagacccgcccccttcctcgaccgaaaatacctctcataactatatgcacggacgagagccgactaccccctc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGUUCCAAUCUGAUUCUUAUUGAGUUAAAGAUAGAAAGAUUCGACAGAAUGUCGACUAACCGAAAAAGGAAAGACCCGCCCCCUUCCUCGACCGAAAAUACCUCUCAUAACUAUAUGCACGGACGAGAGCCGACUACCCCCUC .......(((((((((.....)))))..)))).((.((..(((((.....))))).....(((..((((............))))..)))...........)).)).............(((.(....))))........... (-22.10) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAGGGGGUAGUCGGCUCUCGUCCGUGCAUAUAGUUAUGAGAGGUAUUUUCGGUCGAGGAAGGGGGCGGGUCUUUCCUUUUUCGGUUAGUCGACAUUCUGUCGAAUCUUUCUAUCUUUAACUCAAUAAGAAUCAGAUUGGAACA ((.(((((.((((((......((...((((....))))...)).......(..(((((((((..(......)..)))))))))..).))))))))))).))...(((.(((.((((.........))))...)))..)))... (-37.10) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1022 90 41 181 132 NC_002950:PG2003|5end_deoxyguanosinetriphosphate_triphosphohydrolase_2092991..2093221_NEGATIVE 329 140 94 174 114 NC_002950:PG0744|5end_RNA_methyltransferase,_TrmH_family_791897..792127_NEGATIVE 315 135 92 55 16 NC_002950:PG1566|5end_glutamyl-tRNA_synthetase_1647401..1647631_NEGATIVE 310 90 42 108 53 NC_002950:PG1029|5end_hypothetical_protein_1091080..1091310_POSITIVE 307 139 91 167 108 NC_002950:PG0607|5end_hypothetical_protein_662552..662782_POSITIVE 303 90 43 190 145 NC_002950:PG0677|5end_saccharopine_dehydrogenase_727653..727883_POSITIVE 293 95 56 51 7 NC_002950:PG1294|5end_ferrous_iron_transport_protein_B_1372047..1372277_POSITIVE 292 138 116 62 41 NC_002950:PG2102|5end_immunoreactive_61_kDa_antigen_PG91_2213046..2213276_NEGATIVE 289 106 61 146 111 NC_002950:PG2055|5end_dihydroorotate_dehydrogenase_2153060..2153290_NEGATIVE 289 106 61 169 103 NC_002950:PG1978|5end_hypothetical_protein_2067337..2067567_NEGATIVE 287 102 61 170 120 NC_002950:PG2094|5end_hypothetical_protein_2197868..2198098_NEGATIVE 285 93 51 140 79 NC_002950:PG1382|5end_hypothetical_protein_1461331..1461561_POSITIVE 284 123 85 46 6 NC_002950:PG1220|5end_erythronate-4-phosphate_dehydrogenase_1296986..1297216_POSITIVE 282 106 61 97 48 NC_002950:PG2114|5end_hypothetical_protein_2224158..2224388_NEGATIVE 281 135 111 63 42 NC_002950:PG1760|5end_ABC_transporter,_ATP-binding_protein_1846507..1846737_POSITIVE 280 89 42 145 98 NC_002950:PG0166|5end_peptidyl-tRNA_hydrolase_188370..188600_NEGATIVE 279 117 72 103 42 NC_002950:PG2069|5end_oxidoreductase,_short_chain_dehydrogenase/reductase_family_2164798..2165028_POSITIVE 279 96 51 108 64 NC_002950:PG1143|5end_sugar_dehydrogenase,_UDP-glucose/GDP-mannose_dehydrogenase_family_1227198..1227428_NEGATIVE 274 134 112 180 159 NC_002950:PG1063|5end_transcriptional_regulator,_putative_1131056..1131286_POSITIVE 273 130 85 176 126 NC_002950:PG1692|5end_ABC_transporter,_ATP-binding_protein_1777173..1777403_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 346 140 111 51 17 NC_002950:PG0786|3end_hypothetical_protein_837570..837720_NEGATIVE 329 140 94 89 29 NC_002950:PG0745|3end_lactoylglutathione_lyase,_putative_791982..792132_NEGATIVE 299 90 47 149 100 NC_002950:PG1020|3end_hypothetical_protein_1083458..1083608_POSITIVE 291 86 50 150 114 NC_002950:PG0492|3end_hypothetical_protein_534408..534558_NEGATIVE 284 123 85 42 2 NC_002950:PG1219|3end_hypothetical_protein_1297062..1297212_POSITIVE 281 135 111 73 52 NC_002950:PG1759|3end_adhesion_protein,_putative_1846597..1846747_POSITIVE 279 117 72 97 36 NC_002950:PG2068|3end_glycerol-3-phosphate_cytidylyltransferase_2164872..2165022_POSITIVE 278 95 63 43 3 NC_002950:PG1274|3end_elongation_factor_P_1352489..1352639_POSITIVE 277 84 43 151 113 NC_002950:PG1532|3end_hypothetical_protein_1611522..1611672_NEGATIVE 277 95 52 44 6 NC_002950:PG0053|3end_hypothetical_protein_64967..65117_NEGATIVE 275 103 72 134 98 NC_002950:PG1980|3end_hypothetical_protein_2067760..2067910_NEGATIVE 274 96 55 138 93 NC_002950:PG0361|3end_hypothetical_protein_395481..395631_POSITIVE 272 105 64 58 9 NC_002950:PG1084|3end_thioredoxin_family_protein_1151882..1152032_NEGATIVE 270 133 104 143 110 NC_002950:PG1185|3end_hypothetical_protein_1266892..1267042_NEGATIVE 268 138 93 139 88 NC_002950:PG1030|3end_hypothetical_protein_1092820..1092970_POSITIVE 268 90 41 146 99 NC_002950:PG0564|3end_hypothetical_protein_621416..621566_NEGATIVE 266 90 43 148 110 NC_002950:PG1527|3end_hypothetical_protein_1605567..1605717_NEGATIVE 266 94 51 127 82 NC_002950:PG0443|3end_hemagglutinin-related_protein_483147..483297_POSITIVE 265 130 81 104 40 NC_002950:PG1483|3end_conjugative_transposon_protein_TraE_1558783..1558933_NEGATIVE 264 104 76 122 101 NC_002950:PG0520|3end_chaperonin_GroEL_563618..563768_NEGATIVE