Origin IGS: aaaaattgaaactcgccctatatcgaatacagatttataattgctaaacgacaaaaattgcctctccttttgaccgatgcctgctccttactgtttggctattatcgagagaccttgcaaaaggctcatgccacagaagaggggaaatatgaaactacttgtgatttacggatttgtactatctttgcggacgcttaattcggaatcaaatactactataataaagaatcaagaaca .........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 tgttcttgattctttattatagtagtatttgattccgaattaagcgtccgcaaagatagtacaaatccgtaaatcacaagtagtttcatatttcccctcttctgtggcatgagccttttgcaaggtctctcgataatagccaaacagtaaggagcaggcatcggtcaaaaggagaggcaatttttgtcgtttagcaattataaatctgtattcgatatagggcgagtttcaattttt Mask Tandem Repeat Region ================================================ aaaaattgaaactcgccctatatcgaatacagatttataattgctaaacgacaaaaattgcctctccttttgaccgatgcctgctccttactgtttggctattatcgagagaccttgcaaaaggctcatgccacagaagaggggaaatatgaaactacttgtgatttacggatttgtactatctttgcggacgcttaattcggaatcaaatactactataataaagaatcaagaaca Find is-nt database================================================ Query_seq: PG1799:PG1801|PG1799:PG1801:hypothetical protein:v-type ATPase, subunit E, putative:->->:1894849..1895085 237 aaaaattgaaactcgccctatatcgaatacagatttataattgctaaacgacaaaaattgcctctccttttgaccgatgcctgctccttactgtttggctattatcgagagaccttgcaaaaggctcatgccacagaagaggggaaatatgaaactacttgtgatttacggatttgtactatctttgcggacgcttaattcggaatcaaatactactataataaagaatcaagaaca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG1799:PG1801|PG1799:PG1801:hypothetical protein:v-type ATPase, subunit E, putative:->->:1894849..1895085 237 aaaaattgaaactcgccctatatcgaatacagatttataattgctaaacgacaaaaattgcctctccttttgaccgatgcctgctccttactgtttggctattatcgagagaccttgcaaaaggctcatgccacagaagaggggaaatatgaaactacttgtgatttacggatttgtactatctttgcggacgcttaattcggaatcaaatactactataataaagaatcaagaaca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG1799:PG1801|PG1799:PG1801:hypothetical protein:v-type ATPase, subunit E, putative:->->:1894849..1895085 237 aaaaattgaaactcgccctatatcgaatacagatttataattgctaaacgacaaaaattgcctctccttttgaccgatgcctgctccttactgtttggctattatcgagagaccttgcaaaaggctcatgccacagaagaggggaaatatgaaactacttgtgatttacggatttgtactatctttgcggacgcttaattcggaatcaaatactactataataaagaatcaagaaca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aaaaattgaaactcgccctatatcgaatacagatttataattgctaaacgacaaaaattgcctctccttttgaccgatgcctgctccttactgtttggctattatcgagagaccttgcaaaaggctcatgccacagaagaggggaaatatgaaactacttgtgatttacggatttgtactatctttgcggacgcttaattcggaatcaaatactactataataaagaatcaagaaca Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: + Start: 57 End: 149 ........................................................ M A S P F D R C L L L T V W L L S R D L A K G S C H R R G E I ........................................................................................ Protein_Len: 58 Strand: + Start: 22 End: 195 ..................... M E Y R F I I A K R Q K L P L L L T D A C S L L F G Y Y R E T L Q K A H A T E E G K Y E T T C D L R I C T I F A D A .......................................... Protein_Len: 53 Strand: + Start: 77 End: 235 ............................................................................ M P A P Y C L A I I E R P C K R L M P Q K R G N M K L L V I Y G F V L S L R T L N S E S N T T I I K N Q E .. Protein_Len: 34 Strand: - Start: 47 End: 148 .............................................. V V F I A E G K S R H R S R V T Q S N D L S R A F P E H W L L P S M ......................................................................................... aaaaattgaaactcgccctatatcgaatacagatttataattgctaaacgacaaaaattgcctctccttttgaccgatgcctgctccttactgtttggctattatcgagagaccttgcaaaaggctcatgccacagaagaggggaaatatgaaactacttgtgatttacggatttgtactatctttgcggacgcttaattcggaatcaaatactactataataaagaatcaagaaca Predict Promoter with matrix: RpoD-15 score > 80================================================ Predict Promoter with matrix: RpoD-16 score > 80================================================ Predict Promoter with matrix: RpoD-17 score > 80================================================ PromScan Matrix: RpoD-17 Strand: + Score: 81 Start: 12 End: 41 ...........CTCGCCCTATATCGAATACAGATTTATAAT.................................................................................................................................................................................................... Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ aaaaattgaaactcgccctatatcgaatacagatttataattgctaaacgacaaaaattgcctctccttttgaccgatgcctgctccttactgtttggctattatcgagagaccttgcaaaaggctcatgccacagaagaggggaaatatgaaactacttgtgatttacggatttgtactatctttgcggacgcttaattcggaatcaaatactactataataaagaatcaagaaca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG1799:PG1801|PG1799:PG1801:hypothetical protein:v-type ATPase, subunit E, putative:->->:1894849..1895085 237 aaaaattgaaactcgccctatatcgaatacagatttataattgctaaacgacaaaaattgcctctccttttgaccgatgcctgctccttactgtttggctattatcgagagaccttgcaaaaggctcatgccacagaagaggggaaatatgaaactacttgtgatttacggatttgtactatctttgcggacgcttaattcggaatcaaatactactataataaagaatcaagaaca Intra-Species Hit: Count: 1 Min: 1 Max: 237 Len: 237 Subject: NC_002950_PG1799_PG1801|hypothetical protein:v-type ATPase, subunit E, putative|POSITIVE:POSITIVE|[1894849,1895085]|237 HSP 1 e-value: 1.0E-131 bit: 470.0 Len: 237 Query Start:1 Query End:237 Subject Strand: POSITIVE Subject Start: 1 Subject End: 237 aaaaattgaaactcgccctatatcgaatacagatttataattgctaaacgacaaaaattgcctctccttttgaccgatgcctgctccttactgtttggctattatcgagagaccttgcaaaaggctcatgccacagaagaggggaaatatgaaactacttgtgatttacggatttgtactatctttgcggacgcttaattcggaatcaaatactactataataaagaatcaagaaca aaaaattgaaactcgccctatatcgaatacagatttataattgctaaacgacaaaaattgcctctccttttgaccgatgcctgctccttactgtttggctattatcgagagaccttgcaaaaggctcatgccacagaagaggggaaatatgaaactacttgtgatttacggatttgtactatctttgcggacgcttaattcggaatcaaatactactataataaagaatcaagaaca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAAAAUUGAAACUCGCCCUAUAUCGAAUACAGAUUUAUAAUUGCUAAACGACAAAAAUUGCCUCUCCUUUUGACCGAUGCCUGCUCCUUACUGUUUGGCUAUUAUCGAGAGACCUUGCAAAAGGCUCAUGCCACAGAAGAGGGGAAAUAUGAAACUACUUGUGAUUUACGGAUUUGUACUAUCUUUGCGGACGCUUAAUUCGGAAUCAAAUACUACUAUAAUAAAGAAUCAAGAACA .....((((.............(((((((((((((..((((..(............(((.((((((.(((((..(((((((.((........))..)))....)))).(((.((((....)))))))......))))))))))).)))............)..).)))..))))))).........((....))...))))))............((.......))..))))..... (-41.65) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGUUCUUGAUUCUUUAUUAUAGUAGUAUUUGAUUCCGAAUUAAGCGUCCGCAAAGAUAGUACAAAUCCGUAAAUCACAAGUAGUUUCAUAUUUCCCCUCUUCUGUGGCAUGAGCCUUUUGCAAGGUCUCUCGAUAAUAGCCAAACAGUAAGGAGCAGGCAUCGGUCAAAAGGAGAGGCAAUUUUUGUCGUUUAGCAAUUAUAAAUCUGUAUUCGAUAUAGGGCGAGUUUCAAUUUUU .....((((..(((..(((((..(((((..((((...(((((((((...((((((((..(((......)))........................((((((((.((((..(((((((....)))).))).........(((...............)))....))))..))))))))..))))))))))))))...)))...)))).)))))...)))))...)))..))))..... (-44.86) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 384 107 61 200 149 NC_002950:PG1381|5end_ABC_transporter,_permease_protein_1460622..1460852_POSITIVE 354 109 64 229 163 NC_002950:PG0259|5end_hypothetical_protein_292278..292508_POSITIVE 349 204 161 142 101 NC_002950:PG1722|5end_hypothetical_protein_1812938..1813168_NEGATIVE 342 108 64 86 46 NC_002950:PG0213|5end_precorrin-3_methylase/precorrin-8X_methylmutase_250464..250694_NEGATIVE 336 119 73 194 137 NC_002950:PG1259|5end_anaerobic_ribonucleoside-triphosphate_reductase_activating_protein_1335465..1335695_NEGATIVE 334 120 75 56 1 NC_002950:PG1787|5end_hypothetical_protein_1875908..1876138_NEGATIVE 333 98 60 207 157 NC_002950:PG1353|5end_orotate_phosphoribosyltransferase_1433833..1434063_NEGATIVE 327 108 61 118 58 NC_002950:PG0268|5end_tRNA_(5-methylaminomethyl-2-thiouridylate)-methyltransferase_300898..301128_POSITIVE 324 164 129 75 25 NC_002950:PG0476|5end_yngK_protein_518762..518992_NEGATIVE 322 136 91 173 137 NC_002950:PG0293|5end_secretion_activator_protein,_putative_328671..328901_NEGATIVE 322 143 106 146 101 NC_002950:PG0022|5end_sulfate_permease_family_protein_26796..27026_NEGATIVE 321 145 105 216 179 NC_002950:PG1603|5end_HAM1_protein_1682165..1682395_POSITIVE 321 101 61 72 30 NC_002950:PG1252|5end_hypothetical_protein_1329584..1329814_NEGATIVE 319 99 57 149 107 NC_002950:PG2098|5end_hypothetical_protein_2206635..2206865_NEGATIVE 319 107 69 179 146 NC_002950:PG0329|5end_formiminotransferase-cyclodeaminase-related_protein_364429..364659_NEGATIVE 316 110 61 219 171 NC_002950:PG2003|5end_deoxyguanosinetriphosphate_triphosphohydrolase_2092991..2093221_NEGATIVE 316 107 63 176 123 NC_002950:PG0954|5end_TPR_domain_protein_1013186..1013416_POSITIVE 315 140 97 172 129 NC_002950:PG0714|5end_copper_homeostasis_protein_CutC_768671..768901_NEGATIVE 313 119 75 231 191 NC_002950:PG1635|5end_hypothetical_protein_1715861..1716091_NEGATIVE 312 107 61 228 180 NC_002950:PG0365|5end_3'-5'_exonuclease_domain_protein_400178..400408_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 344 90 43 79 42 NC_002950:PG1797|3end_DNA-binding_response_regulator/sensor_histidine_kinase_1892978..1893128_POSITIVE 339 138 91 144 105 NC_002950:PG1676|3end_phosphoenolpyruvate_carboxykinase_1760489..1760639_NEGATIVE 333 98 60 96 46 NC_002950:PG1354|3end_hydrolase,_carbon-nitrogen_family_1433944..1434094_NEGATIVE 328 100 57 132 79 NC_002950:PG2073|3end_hypothetical_protein_2174219..2174369_NEGATIVE 328 100 57 132 79 NC_002950:PG1669|3end_hypothetical_protein_1755411..1755561_NEGATIVE 328 100 57 132 79 NC_002950:PG1264|3end_hypothetical_protein_1344740..1344890_NEGATIVE 328 100 57 132 79 NC_002950:PG0103|3end_hypothetical_protein_121525..121675_POSITIVE 327 108 61 113 53 NC_002950:PG0267|3end_arginyl-tRNA_synthetase_300973..301123_POSITIVE 324 164 129 85 35 NC_002950:PG0477|3end_pantoate--beta-alanine_ligase_518752..518902_NEGATIVE 321 101 61 59 17 NC_002950:PG1253|3end_DNA_ligase,_NAD-dependent_1329597..1329747_NEGATIVE 319 99 57 135 93 NC_002950:PG2099|3end_ATP-dependent_RNA_helicase,_DEAD/DEAH_box_family_2206649..2206799_NEGATIVE 319 110 61 101 52 NC_002950:PG1112|3end_hypothetical_protein_1185571..1185721_POSITIVE 319 107 69 130 97 NC_002950:PG0330|3end_DNA-binding_protein,_histone-like_family_364478..364628_NEGATIVE 316 110 61 75 27 NC_002950:PG2004|3end_hypothetical_protein_2093135..2093285_NEGATIVE 316 107 63 148 95 NC_002950:PG0953|3end_deoxyuridine_5'-triphosphate_nucleotidohydrolase_1013238..1013388_POSITIVE 314 110 61 58 18 NC_002950:PG0479|3end_hypothetical_protein_520545..520695_POSITIVE 312 107 61 151 103 NC_002950:PG0366|3end_hypothetical_protein_400255..400405_NEGATIVE 311 143 101 55 15 NC_002950:PG1791|3end_hypothetical_protein_1880951..1881101_NEGATIVE 310 118 73 85 39 NC_002950:PG2026|3end_phosphoglycerate_mutase_family_protein_2125545..2125695_POSITIVE 306 159 113 56 10 NC_002950:PG2136|3end_hypothetical_protein_2245104..2245254_POSITIVE