Origin IGS: cgcgtaactccttggccttctcgcaagatctctatcgaaaagccttgcagtatactccgccttcttctctcttctctattcagttcgctctcacccccccaagggttcccttccaagaccccttagggatcccccctgagacccctaaggggtcctacccgagactccttaggggtcccataggagactcctcgggggtctcaacagggactcctaagggatcgtccccatacttcttgatgtcttcggagaaggttttccaaagagacttttcccctcctcctctctgcacgcttgccctgaatctgtgctgtcagcgtcacgtttttttttacatttgtgcctaataagctaactctcgaggcta .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tagcctcgagagttagcttattaggcacaaatgtaaaaaaaaacgtgacgctgacagcacagattcagggcaagcgtgcagagaggaggaggggaaaagtctctttggaaaaccttctccgaagacatcaagaagtatggggacgatcccttaggagtccctgttgagacccccgaggagtctcctatgggacccctaaggagtctcgggtaggaccccttaggggtctcaggggggatccctaaggggtcttggaagggaacccttgggggggtgagagcgaactgaatagagaagagagaagaaggcggagtatactgcaaggcttttcgatagagatcttgcgagaaggccaaggagttacgcg Mask Tandem Repeat Region ================================================ cgcgtaactccttggccttctcgcaagatctctatcgaaaagccttgcagtatactccgccttcttctctcttctctattcagttcgctctcacccccccaagggttcccttccannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnataggagactcctcgggggtctcaacagggactcctaagggatcgtccccatacttcttgatgtcttcggagaaggttttccaaagagacttttcccctcctcctctctgcacgcttgccctgaatctgtgctgtcagcgtcacgtttttttttacatttgtgcctaataagctaactctcgaggcta Find is-nt database================================================ Query_seq: PG1779:PG1780|PG1779:PG1780:hypothetical protein:8-amino-7-oxononanoate synthase:->->:1868559..1868925 367 cgcgtaactccttggccttctcgcaagatctctatcgaaaagccttgcagtatactccgccttcttctctcttctctattcagttcgctctcacccccccaagggttcccttccaagaccccttagggatcccccctgagacccctaaggggtcctacccgagactccttaggggtcccataggagactcctcgggggtctcaacagggactcctaagggatcgtccccatacttcttgatgtcttcggagaaggttttccaaagagacttttcccctcctcctctctgcacgcttgccctgaatctgtgctgtcagcgtcacgtttttttttacatttgtgcctaataagctaactctcgaggcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG1779:PG1780|PG1779:PG1780:hypothetical protein:8-amino-7-oxononanoate synthase:->->:1868559..1868925 367 cgcgtaactccttggccttctcgcaagatctctatcgaaaagccttgcagtatactccgccttcttctctcttctctattcagttcgctctcacccccccaagggttcccttccaagaccccttagggatcccccctgagacccctaaggggtcctacccgagactccttaggggtcccataggagactcctcgggggtctcaacagggactcctaagggatcgtccccatacttcttgatgtcttcggagaaggttttccaaagagacttttcccctcctcctctctgcacgcttgccctgaatctgtgctgtcagcgtcacgtttttttttacatttgtgcctaataagctaactctcgaggcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG1779:PG1780|PG1779:PG1780:hypothetical protein:8-amino-7-oxononanoate synthase:->->:1868559..1868925 367 cgcgtaactccttggccttctcgcaagatctctatcgaaaagccttgcagtatactccgccttcttctctcttctctattcagttcgctctcacccccccaagggttcccttccaagaccccttagggatcccccctgagacccctaaggggtcctacccgagactccttaggggtcccataggagactcctcgggggtctcaacagggactcctaagggatcgtccccatacttcttgatgtcttcggagaaggttttccaaagagacttttcccctcctcctctctgcacgcttgccctgaatctgtgctgtcagcgtcacgtttttttttacatttgtgcctaataagctaactctcgaggcta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 cgcgtaactccttggccttctcgcaagatctctatcgaaaagccttgcagtatactccgccttcttctctcttctctattcagttcgctctcacccccccaagggttcccttccaagaccccttagggatcccccctgagacccctaaggggtcctacccgagactccttaggggtcccataggagactcctcgggggtctcaacagggactcctaagggatcgtccccatacttcttgatgtcttcggagaaggttttccaaagagacttttcccctcctcctctctgcacgcttgccctgaatctgtgctgtcagcgtcacgtttttttttacatttgtgcctaataagctaactctcgaggcta Predict ORF larger than 30AA ================================================ Protein_Len: 32 Strand: + Start: 28 End: 123 ........................... M S I E K P C S I L R L L L S S L F S S L S P P Q G F P S K T P .................................................................................................................................................................................................................................................... Protein_Len: 60 Strand: + Start: 12 End: 344 ........... M A F S Q D L Y R K A L Q Y T P P S S L F S I Q F A L T P P R V P F Q D P L G I P P E T P K G S Y P R L L R G P I G D S ....................... Protein_Len: 44 Strand: + Start: 221 End: 352 ............................................................................................................................................................................................................................ M V P I L L D V F G E G F P K R L F P S S S L H A C P E S V L S A S R F F L H L C L I S ............... Protein_Len: 44 Strand: - Start: 217 End: 348 ........................................................................................................................................................................................................................ P I T G M S R S T K P S P K G F L S K G E E E R C A Q G S D T S D A D R K K K C K H R M ................... Protein_Len: 40 Strand: - Start: 204 End: 323 ........................................................................................................................................................................................................... C P S R L S R G W V E Q H R R L L N E L S V K G R R R E A R K G Q I Q A T L T M ............................................ Protein_Len: 45 Strand: - Start: 158 End: 292 ............................................................................................................................................................. G L S R L P G M P S E E P T E V P V G L P D D G Y K K I D E S F T K W L S K E G G G R Q M ........................................................................... Protein_Len: 38 Strand: - Start: 3 End: 116 .. T V G Q G E R L I E I S F G Q L I S R R R R E E R N L E S E G G W P N G E M ........................................................................................................................................................................................................................................................... cgcgtaactccttggccttctcgcaagatctctatcgaaaagccttgcagtatactccgccttcttctctcttctctattcagttcgctctcacccccccaagggttcccttccaagaccccttagggatcccccctgagacccctaaggggtcctacccgagactccttaggggtcccataggagactcctcgggggtctcaacagggactcctaagggatcgtccccatacttcttgatgtcttcggagaaggttttccaaagagacttttcccctcctcctctctgcacgcttgccctgaatctgtgctgtcagcgtcacgtttttttttacatttgtgcctaataagctaactctcgaggcta 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================================================ cgcgtaactccttggccttctcgcaagatctctatcgaaaagccttgcagtatactccgccttcttctctcttctctattcagttcgctctcacccccccaagggttcccttccaagaccccttagggatcccccctgagacccctaaggggtcctacccgagactccttaggggtcccataggagactcctcgggggtctcaacagggactcctaagggatcgtccccatacttcttgatgtcttcggagaaggttttccaaagagacttttcccctcctcctctctgcacgcttgccctgaatctgtgctgtcagcgtcacgtttttttttacatttgtgcctaataagctaactctcgaggcta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 100 HP_score: -19.7 Tail_Score: -3.01712 Start: 119 End: 152 Full_Region: gagtctcgggtagga ccccttaggggtctc aggg gggatccctaagggg tcttggaagggaacc ......................................................................................................................ccccttaggggtctcaggggggatccctaagggg....................................................................................................................................................................................................................... Find igs database================================================ Query_seq: PG1779:PG1780|PG1779:PG1780:hypothetical protein:8-amino-7-oxononanoate synthase:->->:1868559..1868925 367 cgcgtaactccttggccttctcgcaagatctctatcgaaaagccttgcagtatactccgccttcttctctcttctctattcagttcgctctcacccccccaagggttcccttccaagaccccttagggatcccccctgagacccctaaggggtcctacccgagactccttaggggtcccataggagactcctcgggggtctcaacagggactcctaagggatcgtccccatacttcttgatgtcttcggagaaggttttccaaagagacttttcccctcctcctctctgcacgcttgccctgaatctgtgctgtcagcgtcacgtttttttttacatttgtgcctaataagctaactctcgaggcta Intra-Species Hit: Count: 2 Min: 1 Max: 367 Len: 367 Subject: NC_002950_PG1779_PG1780|hypothetical protein:8-amino-7-oxononanoate synthase|POSITIVE:POSITIVE|[1868559,1868925]|367 HSP 1 e-value: 1.0E-180 bit: 632.0 Len: 367 Query Start:1 Query End:367 Subject Strand: POSITIVE Subject Start: 1 Subject End: 367 cgcgtaactccttggccttctcgcaagatctctatcgaaaagccttgcagtatactccgccttcttctctcttctctattcagttcgctctcannnnnnnaagggttcccttccaagaccccttagggatcccccctgagacccctaaggggtcctacccgagactccttaggggtcccataggagactcctcgggggtctcaacagggactcctaagggatcgtccccatacttcttgatgtcttcggagaaggttttccaaagagacttttcccctcctcctctctgcacgcttgccctgaatctgtgctgtcagcgtcacgnnnnnnnnnacatttgtgcctaataagctaactctcgaggcta cgcgtaactccttggccttctcgcaagatctctatcgaaaagccttgcagtatactccgccttcttctctcttctctattcagttcgctctcacccccccaagggttcccttccaagaccccttagggatcccccctgagacccctaaggggtcctacccgagactccttaggggtcccataggagactcctcgggggtctcaacagggactcctaagggatcgtccccatacttcttgatgtcttcggagaaggttttccaaagagacttttcccctcctcctctctgcacgcttgccctgaatctgtgctgtcagcgtcacgtttttttttacatttgtgcctaataagctaactctcgaggcta Subject: NC_002950_PG0366_PG0368|hypothetical protein:DNA topoisomerase IV subunit B|NEGATIVE:POSITIVE|[400906,401384]|479 HSP 1 e-value: 5.0E-30 bit: 133.0 Len: 103 Query Start:113 Query End:215 Subject Strand: POSITIVE Subject Start: 199 Subject End: 301 ................................................................................................................ccaagaccccttagggatcccccctgagacccctaaggggtcctacccgagactccttaggggtcccataggagactcctcgggggtctcaacagggactcct........................................................................................................................................................ ................................................................................................................ccaagacccctaagggatccctcccgagaccccttaggggtcccacccgagactcctcagggatcccataggagactccccgggggtctcgacagggactcct........................................................................................................................................................ Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CGCGUAACUCCUUGGCCUUCUCGCAAGAUCUCUAUCGAAAAGCCUUGCAGUAUACUCCGCCUUCUUCUCUCUUCUCUAUUCAGUUCGCUCUCACCCCCCCAAGGGUUCCCUUCCAAGACCCCUUAGGGAUCCCCCCUGAGACCCCUAAGGGGUCCUACCCGAGACUCCUUAGGGGUCCCAUAGGAGACUCCUCGGGGGUCUCAACAGGGACUCCUAAGGGAUCGUCCCCAUACUUCUUGAUGUCUUCGGAGAAGGUUUUCCAAAGAGACUUUUCCCCUCCUCCUCUCUGCACGCUUGCCCUGAAUCUGUGCUGUCAGCGUCACGUUUUUUUUUACAUUUGUGCCUAAUAAGCUAACUCUCGAGGCUA .((((.(((.(..(((.((.(((..((....))..))).)))))..).))).......(((((((((.............................(((..(((..(((((....((((((((.(((..((.((..((.(((((((((((((((........))))))))))))))).))..)).))..))).))))))))....)))))..)))..)))..((((............)))).....))))))))).......(((((...............)))))..))))..(((.(((......(((...((.(.((((..............)))))))....)))......))).))).. (-116.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAGCCUCGAGAGUUAGCUUAUUAGGCACAAAUGUAAAAAAAAACGUGACGCUGACAGCACAGAUUCAGGGCAAGCGUGCAGAGAGGAGGAGGGGAAAAGUCUCUUUGGAAAACCUUCUCCGAAGACAUCAAGAAGUAUGGGGACGAUCCCUUAGGAGUCCCUGUUGAGACCCCCGAGGAGUCUCCUAUGGGACCCCUAAGGAGUCUCGGGUAGGACCCCUUAGGGGUCUCAGGGGGGAUCCCUAAGGGGUCUUGGAAGGGAACCCUUGGGGGGGUGAGAGCGAACUGAAUAGAGAAGAGAGAAGAAGGCGGAGUAUACUGCAAGGCUUUUCGAUAGAGAUCUUGCGAGAAGGCCAAGGAGUUACGCG ..((((...(((((.(((.....(((....((((........))))...)))...)))...))))).))))..(((((......................((((((((....((((((((.((((..((....(((..(....)..(((((.(((..(((((.(..(((((((..(((..((((((.((((((((((((((.((((......)))).)))))))))))))).))))))..)))..)))))))..).)))))..))).))))).((....))..)))............((((((...((((......))))....))))))....))..))))).))))))))))))))).))))). (-147.50) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 411 229 183 227 169 NC_002950:PG0227|5end_DNA_repair_protein_RadA_263978..264208_NEGATIVE 406 281 241 161 114 NC_002950:PG1522|5end_mandelate_racemase/muconate_lactonizing_enzyme_family_protein_1600170..1600400_NEGATIVE 392 78 34 192 146 NC_002950:PG0882|5end_hypothetical_protein_944195..944425_POSITIVE 392 290 242 223 161 NC_002950:PG0333|5end_hypothetical_protein_367823..368053_POSITIVE 391 330 282 130 84 NC_002950:PG1735|5end_MutT/nudix_family_protein_1823082..1823312_NEGATIVE 386 210 165 71 25 NC_002950:PG1313|5end_dipeptidase-related_protein_1392282..1392512_POSITIVE 386 325 282 140 101 NC_002950:PG0998|5end_hypothetical_protein_1056929..1057159_POSITIVE 385 330 281 101 51 NC_002950:PG1181|5end_transcriptional_regulator,_tetR_family_1264255..1264485_NEGATIVE 378 319 271 68 32 NC_002950:PG1252|5end_hypothetical_protein_1329584..1329814_NEGATIVE 375 320 278 63 18 NC_002950:PG0348|5end_ATP-dependent_DNA_helicase_RecG_382345..382575_POSITIVE 374 179 144 43 4 NC_002950:PG0191|5end_outer_membrane_protein,_putative_226858..227088_POSITIVE 371 199 151 219 165 NC_002950:PG1217|5end_hypothetical_protein_1295575..1295805_POSITIVE 371 199 151 74 20 NC_002950:PG1216|5end_hypothetical_protein_1295430..1295660_POSITIVE 369 124 81 102 32 NC_002950:PG1693|5end_HesA/MoeB/ThiF_family_protein_1777919..1778149_NEGATIVE 368 49 1 207 162 NC_002950:PG2075|5end_hypothetical_protein_2176466..2176696_NEGATIVE 368 168 121 207 157 NC_002950:PG1947|5end_TPR_domain_protein_2032932..2033162_POSITIVE 367 318 280 230 195 NC_002950:PG0999|5end_hypothetical_protein_1057026..1057256_POSITIVE 364 60 11 225 158 NC_002950:PG2029|5end_hypothetical_protein_2126543..2126773_POSITIVE 363 198 156 193 148 NC_002950:PG0568|5end_elongation_factor_P_624565..624795_NEGATIVE 362 119 71 179 113 NC_002950:PG1499|5end_hypothetical_protein_1575524..1575754_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 405 319 277 96 50 NC_002950:PG1741|3end_aspartate_ammonia-lyase_1825856..1826006_NEGATIVE 392 78 34 82 36 NC_002950:PG0881|3end_recombinase_A_944165..944315_POSITIVE 386 325 282 143 104 NC_002950:PG0997|3end_transcriptional_regulator,_putative_1057012..1057162_POSITIVE 382 208 162 79 18 NC_002950:PG0380|3end_excinuclease_ABC_subunit_B_411218..411368_POSITIVE 378 319 271 55 19 NC_002950:PG1253|3end_DNA_ligase,_NAD-dependent_1329597..1329747_NEGATIVE 378 175 131 80 43 NC_002950:PG1244|3end_ISPg1,_transposase_1320699..1320849_POSITIVE 378 175 131 80 43 NC_002950:PG0549|3end_ISPg1,_transposase_605987..606137_NEGATIVE 378 175 131 80 43 NC_002950:PG0460|3end_ISPg1,_transposase_503102..503252_POSITIVE 376 320 274 128 49 NC_002950:PG0507|3end_hypothetical_protein_548190..548340_POSITIVE 371 199 151 77 23 NC_002950:PG1215|3end_lipoprotein_protein,_putative_1295513..1295663_POSITIVE 369 124 81 105 35 NC_002950:PG1694|3end_hypothetical_protein_1777916..1778066_NEGATIVE 368 318 275 149 97 NC_002950:PG1276|3end_DNA-binding_protein,_histone-like_family_1353531..1353681_POSITIVE 368 318 275 149 97 NC_002950:PG0566|3end_DNA-binding_protein,_histone-like_family_622935..623085_NEGATIVE 363 198 156 61 16 NC_002950:PG0569|3end_hypothetical_protein_624697..624847_NEGATIVE 358 199 152 83 32 NC_002950:PG0417|3end_ATP-dependent_protease_ATP-binding_subunit_457389..457539_NEGATIVE 357 177 134 130 100 NC_002950:PG0132|3end_hypothetical_protein_153054..153204_POSITIVE 352 200 151 85 23 NC_002950:PG0541|3end_hypothetical_protein_595136..595286_POSITIVE 349 229 182 55 12 NC_002950:PG0315|3end_50S_ribosomal_protein_L27_348417..348567_POSITIVE 349 198 152 146 96 NC_002950:PG0026|3end_hypothetical_protein_32685..32835_POSITIVE 347 100 56 129 85 NC_002950:PG1222|3end_hypothetical_protein_1299075..1299225_NEGATIVE