Origin IGS: actaagacagactttctcatcatctttctcttaaatgacggaggctatatctgacacattcggtcgatatagcctccgtctttttgtcggatacagatgtgtcctatcgcttacagatgcacgaaagcatacggcggaaaaaagagaggccgaaggctcgccatcctattgtggtgggagccattcggcctctctcttagaaatatcttggtttaagagttcctgctatttga .........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 tcaaatagcaggaactcttaaaccaagatatttctaagagagaggccgaatggctcccaccacaataggatggcgagccttcggcctctcttttttccgccgtatgctttcgtgcatctgtaagcgataggacacatctgtatccgacaaaaagacggaggctatatcgaccgaatgtgtcagatatagcctccgtcatttaagagaaagatgatgagaaagtctgtcttagt Mask Tandem Repeat Region ================================================ actaagacagactttctcatcatctttctcttaaatgacggaggctatatctgacacattcggtcgatatagcctccgtctttttgtcggatacagatgtgtcctatcgcttacagatgcacgaaagcatacggcggaaaaaagagaggccgaaggctcgccatcctattgtggtgggagccattcggcctctctcttagaaatatcttggtttaagagttcctgctatttga Find is-nt database================================================ Query_seq: PG0706:PG0707|PG0706:PG0707:hypothetical protein:TonB-dependent receptor, putative:-><-:760943..761175 233 actaagacagactttctcatcatctttctcttaaatgacggaggctatatctgacacattcggtcgatatagcctccgtctttttgtcggatacagatgtgtcctatcgcttacagatgcacgaaagcatacggcggaaaaaagagaggccgaaggctcgccatcctattgtggtgggagccattcggcctctctcttagaaatatcttggtttaagagttcctgctatttga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG0706:PG0707|PG0706:PG0707:hypothetical protein:TonB-dependent receptor, putative:-><-:760943..761175 233 actaagacagactttctcatcatctttctcttaaatgacggaggctatatctgacacattcggtcgatatagcctccgtctttttgtcggatacagatgtgtcctatcgcttacagatgcacgaaagcatacggcggaaaaaagagaggccgaaggctcgccatcctattgtggtgggagccattcggcctctctcttagaaatatcttggtttaagagttcctgctatttga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG0706:PG0707|PG0706:PG0707:hypothetical protein:TonB-dependent receptor, putative:-><-:760943..761175 233 actaagacagactttctcatcatctttctcttaaatgacggaggctatatctgacacattcggtcgatatagcctccgtctttttgtcggatacagatgtgtcctatcgcttacagatgcacgaaagcatacggcggaaaaaagagaggccgaaggctcgccatcctattgtggtgggagccattcggcctctctcttagaaatatcttggtttaagagttcctgctatttga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 actaagacagactttctcatcatctttctcttaaatgacggaggctatatctgacacattcggtcgatatagcctccgtctttttgtcggatacagatgtgtcctatcgcttacagatgcacgaaagcatacggcggaaaaaagagaggccgaaggctcgccatcctattgtggtgggagccattcggcctctctcttagaaatatcttggtttaagagttcctgctatttga Predict ORF larger than 30AA ================================================ Protein_Len: 49 Strand: + Start: 51 End: 197 .................................................. M T H S V D I A S V F L S D T D V S Y R L Q M H E S I R R K K E R P K A R H P I V V G A I R P L S .................................... Protein_Len: 41 Strand: + Start: 91 End: 213 .......................................................................................... M Q M C P I A Y R C T K A Y G G K K R G R R L A I L L W W E P F G L S L R N I L V .................... Protein_Len: 60 Strand: + Start: 35 End: 232 .................................. M T E A I S D T F G R Y S L R L F V G Y R C V L S L T D A R K H T A E K R E A E G S P S Y C G G S H S A S L L E I S W F . Protein_Len: 31 Strand: - Start: 114 End: 206 ................................................................................................................. L H V F A Y P P F F L P R L S A M R N H H S G N P R E R L F M ........................... actaagacagactttctcatcatctttctcttaaatgacggaggctatatctgacacattcggtcgatatagcctccgtctttttgtcggatacagatgtgtcctatcgcttacagatgcacgaaagcatacggcggaaaaaagagaggccgaaggctcgccatcctattgtggtgggagccattcggcctctctcttagaaatatcttggtttaagagttcctgctatttga 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================================================ actaagacagactttctcatcatctttctcttaaatgacggaggctatatctgacacattcggtcgatatagcctccgtctttttgtcggatacagatgtgtcctatcgcttacagatgcacgaaagcatacggcggaaaaaagagaggccgaaggctcgccatcctattgtggtgggagccattcggcctctctcttagaaatatcttggtttaagagttcctgctatttga Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 100 HP_score: -15.7 Tail_Score: -3.53224 Start: 36 End: 81 Full_Region: ctgtatccgacaaaa agacggaggctatatcgac cgaatgt gtcagatatagcctccgtca tttaagagaaagatg ...................................agacggaggctatatcgaccgaatgtgtcagatatagcctccgtca........................................................................................................................................................ TransTerm Strand: + Conf: 100 HP_score: -19.2 Tail_Score: -4.85599 Start: 37 End: 80 Full_Region: ATCTTTCTCTTAAAT GACGGAGGCTATATCTGAC ACATTCG GTCGATATAGCCTCCGTC TTTTTGTCGGATACA ....................................GACGGAGGCTATATCTGACACATTCGGTCGATATAGCCTCCGTC......................................................................................................................................................... TransTerm Strand: - Conf: 100 HP_score: -19.2 Tail_Score: -2.71791 Start: 37 End: 80 Full_Region: tgtatccgacaaaaa gacggaggctatatcgac cgaatgt gtcagatatagcctccgtc atttaagagaaagat ....................................gacggaggctatatcgaccgaatgtgtcagatatagcctccgtc......................................................................................................................................................... TransTerm Strand: - Conf: 93 HP_score: -16.0 Tail_Score: -2.90496 Start: 39 End: 78 Full_Region: tatccgacaaaaaga cggaggctatatcgac cgaatgt gtcagatatagcctccg tcatttaagagaaag ......................................cggaggctatatcgaccgaatgtgtcagatatagcctccg........................................................................................................................................................... TransTerm Strand: + Conf: 100 HP_score: -19.3 Tail_Score: -3.06087 Start: 144 End: 194 Full_Region: ATACGGCGGAAAAAA GAGAGGCCGAAGGCTCGCCATC CTATTGT GGTGGGAGCCATTCGGCCTCTC TCTTAGAAATATCTT ...............................................................................................................................................GAGAGGCCGAAGGCTCGCCATCCTATTGTGGTGGGAGCCATTCGGCCTCTC....................................... TransTerm Strand: - Conf: 100 HP_score: -17.9 Tail_Score: -5.02476 Start: 144 End: 194 Full_Region: aagatatttctaaga gagaggccgaatggctcccacc acaata ggatggcgagccttcggcctctc ttttttccgccgtat ...............................................................................................................................................gagaggccgaatggctcccaccacaataggatggcgagccttcggcctctc....................................... Find igs database================================================ Query_seq: PG0706:PG0707|PG0706:PG0707:hypothetical protein:TonB-dependent receptor, putative:-><-:760943..761175 233 actaagacagactttctcatcatctttctcttaaatgacggaggctatatctgacacattcggtcgatatagcctccgtctttttgtcggatacagatgtgtcctatcgcttacagatgcacgaaagcatacggcggaaaaaagagaggccgaaggctcgccatcctattgtggtgggagccattcggcctctctcttagaaatatcttggtttaagagttcctgctatttga Intra-Species Hit: Count: 1 Min: 1 Max: 233 Len: 233 Subject: NC_002950_PG0706_PG0707|hypothetical protein:TonB-dependent receptor, putative|POSITIVE:NEGATIVE|[760943,761175]|233 HSP 1 e-value: 1.0E-129 bit: 462.0 Len: 233 Query Start:1 Query End:233 Subject Strand: POSITIVE Subject Start: 1 Subject End: 233 actaagacagactttctcatcatctttctcttaaatgacggaggctatatctgacacattcggtcgatatagcctccgtctttttgtcggatacagatgtgtcctatcgcttacagatgcacgaaagcatacggcggaaaaaagagaggccgaaggctcgccatcctattgtggtgggagccattcggcctctctcttagaaatatcttggtttaagagttcctgctatttga actaagacagactttctcatcatctttctcttaaatgacggaggctatatctgacacattcggtcgatatagcctccgtctttttgtcggatacagatgtgtcctatcgcttacagatgcacgaaagcatacggcggaaaaaagagaggccgaaggctcgccatcctattgtggtgggagccattcggcctctctcttagaaatatcttggtttaagagttcctgctatttga Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACUAAGACAGACUUUCUCAUCAUCUUUCUCUUAAAUGACGGAGGCUAUAUCUGACACAUUCGGUCGAUAUAGCCUCCGUCUUUUUGUCGGAUACAGAUGUGUCCUAUCGCUUACAGAUGCACGAAAGCAUACGGCGGAAAAAAGAGAGGCCGAAGGCUCGCCAUCCUAUUGUGGUGGGAGCCAUUCGGCCUCUCUCUUAGAAAUAUCUUGGUUUAAGAGUUCCUGCUAUUUGA ....((.(((.................((((((((((((((((((((((((.(((.......)))))))))))))))))).(((((..((((((....))))))..(((((.....((((......))))..))))).....(((((((((((((((((.((((((....).)))))))))).))))))))))))..)))))........)))))))))...)))))...... (-94.85) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCAAAUAGCAGGAACUCUUAAACCAAGAUAUUUCUAAGAGAGAGGCCGAAUGGCUCCCACCACAAUAGGAUGGCGAGCCUUCGGCCUCUCUUUUUUCCGCCGUAUGCUUUCGUGCAUCUGUAAGCGAUAGGACACAUCUGUAUCCGACAAAAAGACGGAGGCUAUAUCGACCGAAUGUGUCAGAUAUAGCCUCCGUCAUUUAAGAGAAAGAUGAUGAGAAAGUCUGUCUUAGU .......(((((...(((((..((...........(((((((((((((((.((((((((((......)).))).))))))))))))))))))))...(((((.((((......)))).))...)))...))...(((((...((.....(((.(((((((((((((((((((....).))).))))))))))))))).)))..))...))))).)))))...)))))...... (-94.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 391 189 143 205 160 NC_002950:PG0071|5end_UDP-3-O-acyl-GlcNAc_deacetylase/beta-hydroxyacyl-[acyl_carrier_protein]_dehydratase_FabZ_86119..86349_NEGATIVE 391 78 35 68 6 NC_002950:PG0021|5end_TIM-barrel_protein,_putative,_NifR3_family_25123..25353_NEGATIVE 386 188 149 61 5 NC_002950:PG1675|5end_hypothetical_protein_1760182..1760412_POSITIVE 380 175 132 73 23 NC_002950:PG1576|5end_L-aspartate_oxidase_1653016..1653246_POSITIVE 376 193 151 183 133 NC_002950:PG1641|5end_phosphotyrosine_protein_phosphatase_1721763..1721993_NEGATIVE 375 190 144 211 140 NC_002950:PG0157|5end_regulatory_protein_RecX_179706..179936_POSITIVE 370 192 154 231 192 NC_002950:PG1108|5end_hypothetical_protein_1181108..1181338_NEGATIVE 370 189 143 200 160 NC_002950:PG0326|5end_hypothetical_protein_360974..361204_NEGATIVE 366 180 132 65 10 NC_002950:PG2107|5end_thiamine_biosynthesis_protein_ThiH_2216658..2216888_NEGATIVE 365 188 144 85 35 NC_002950:PG2109|5end_thiamine-phosphate_pyrophosphorylase_2219452..2219682_NEGATIVE 365 150 109 106 73 NC_002950:PG0908|5end_G/U_mismatch-specific_DNA_glycosylase,_putative_971721..971951_NEGATIVE 364 176 131 47 2 NC_002950:PG0767|5end_4-alpha-glucanotransferase_820533..820763_NEGATIVE 364 189 146 226 189 NC_002950:PG0053|5end_hypothetical_protein_65086..65316_NEGATIVE 363 190 143 142 93 NC_002950:PG2087|5end_hypothetical_protein_2186990..2187220_POSITIVE 363 180 133 99 58 NC_002950:PG1697|5end_type_II_restriction_endonuclease,_putative_1781020..1781250_POSITIVE 362 190 143 95 45 NC_002950:PG1006|5end_hypothetical_protein_1066478..1066708_NEGATIVE 359 157 113 228 177 NC_002950:PG1022|5end_hypothetical_protein_1083537..1083767_POSITIVE 359 190 142 139 74 NC_002950:PG0749|5end_hypothetical_protein_795654..795884_NEGATIVE 357 181 148 168 126 NC_002950:PG1495|5end_DNA_topoisomerase_III_1571243..1571473_POSITIVE 356 190 145 212 158 NC_002950:PG1184|5end_alginate_O-acetyltransferase,_putative_1266870..1267100_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 572 80 37 54 11 NC_002950:PG0706|3end_hypothetical_protein_760882..761032_POSITIVE 391 200 155 72 15 NC_002950:PG0507|3end_hypothetical_protein_548190..548340_POSITIVE 391 78 35 71 9 NC_002950:PG0022|3end_sulfate_permease_family_protein_25120..25270_NEGATIVE 384 196 152 80 23 NC_002950:PG0143|3end_hydrolase,_carbon-nitrogen_family_165747..165897_NEGATIVE 382 160 116 56 1 NC_002950:PG2110|3end_thiamine_biosynthesis_protein_ThiC_2219449..2219599_NEGATIVE 379 188 146 125 64 NC_002950:PG1942|3end_30S_ribosomal_protein_S12_2027946..2028096_NEGATIVE 373 157 119 140 107 NC_002950:PG0932|3end_DNA_polymerase_III,_delta_prime_subunit,_putative_989833..989983_POSITIVE 365 150 109 89 56 NC_002950:PG0909|3end_hypothetical_protein_971738..971888_NEGATIVE 364 170 122 135 70 NC_002950:PG1972|3end_hemagglutinin_protein_HagB_2061203..2061353_POSITIVE 363 190 143 142 93 NC_002950:PG2086|3end_hypothetical_protein_2187070..2187220_POSITIVE 363 180 133 89 48 NC_002950:PG1696|3end_type_II_DNA_modification_methyltransferase,_putative_1781090..1781240_POSITIVE 362 190 143 55 5 NC_002950:PG1007|3end_transcriptional_regulator,_GntR_family_1066518..1066668_NEGATIVE 360 189 141 110 61 NC_002950:PG0424|3end_hypothetical_protein_463213..463363_POSITIVE 359 157 113 69 18 NC_002950:PG1020|3end_hypothetical_protein_1083458..1083608_POSITIVE 358 88 44 92 47 NC_002950:PG1162|3end_ATP:cob(I)alamin_adenosyltransferase,_putative_1241473..1241623_NEGATIVE 357 181 148 79 37 NC_002950:PG1494|3end_hypothetical_protein_1571234..1571384_POSITIVE 357 190 143 53 24 NC_002950:PG0933|3end_translation_elongation_factor_G,_putative_992236..992386_POSITIVE 355 190 147 76 17 NC_002950:PG2082|3end_POT_family_protein_2181843..2181993_NEGATIVE 355 188 145 137 93 NC_002950:PG1497|3end_DNA-binding_protein,_histone-like_family_1574635..1574785_POSITIVE 350 198 155 144 107 NC_002950:PG1598|3end_lipoprotein_signal_peptidase,_putative_1679170..1679320_POSITIVE