Origin IGS: actttataatgctaagtcaaacaaagataaggttttccccccttgtttgggaagctcggagactcaatagcagattgatgacctcgactcccttgtcgtatttgaagcaccattccttataatagaaagatacccgtgattgtaatttccaatagtaagagcaacagagactacagaaaattccccgaagaggccggcctcttcggcagggggctatcgcatttgaaaggttgtactccgccttggtctcttccttctacaattaggatctctaacacattaattcgtgcttattccggacggagcatcatcaggctatatgtgtgttaatacttcaaatgcgattgccctgatgagaaagaactgcctgcatgcggatcggcatgcagccgtaacatacaaccgtagta .........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 tactacggttgtatgttacggctgcatgccgatccgcatgcaggcagttctttctcatcagggcaatcgcatttgaagtattaacacacatatagcctgatgatgctccgtccggaataagcacgaattaatgtgttagagatcctaattgtagaaggaagagaccaaggcggagtacaacctttcaaatgcgatagccccctgccgaagaggccggcctcttcggggaattttctgtagtctctgttgctcttactattggaaattacaatcacgggtatctttctattataaggaatggtgcttcaaatacgacaagggagtcgaggtcatcaatctgctattgagtctccgagcttcccaaacaaggggggaaaaccttatctttgtttgacttagcattataaagt Mask Tandem Repeat Region ================================================ actttataatgctaagtcaaacaaagataaggttttccccccttgtttgggaagctcggagactcaatagcagattgatgacctcgactcccttgtcgtatttgaagcaccattccttataatagaaagatacccgtgattgtaatttccaatagtaagagcaacagagactacagaaaattccccgaagaggccggcctcttcggcagggggctatcgcatttgaaaggttgtactccgccttggtctcttccttctacaattaggatctctaacacattaattcgtgcttattccggacggagcatcatcaggctatatgtgtgttaatacttcaaatgcgattgccctgatgagaaagaactgcctgcatgcggatcggcatgcagccgtaacatacaaccgtagta Find is-nt database================================================ Query_seq: PG2092:PG2094|PG2092:PG2094:hypothetical protein:hypothetical protein:<-<-:2193001..2193410 410 actttataatgctaagtcaaacaaagataaggttttccccccttgtttgggaagctcggagactcaatagcagattgatgacctcgactcccttgtcgtatttgaagcaccattccttataatagaaagatacccgtgattgtaatttccaatagtaagagcaacagagactacagaaaattccccgaagaggccggcctcttcggcagggggctatcgcatttgaaaggttgtactccgccttggtctcttccttctacaattaggatctctaacacattaattcgtgcttattccggacggagcatcatcaggctatatgtgtgttaatacttcaaatgcgattgccctgatgagaaagaactgcctgcatgcggatcggcatgcagccgtaacatacaaccgtagta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG2092:PG2094|PG2092:PG2094:hypothetical protein:hypothetical protein:<-<-:2193001..2193410 410 actttataatgctaagtcaaacaaagataaggttttccccccttgtttgggaagctcggagactcaatagcagattgatgacctcgactcccttgtcgtatttgaagcaccattccttataatagaaagatacccgtgattgtaatttccaatagtaagagcaacagagactacagaaaattccccgaagaggccggcctcttcggcagggggctatcgcatttgaaaggttgtactccgccttggtctcttccttctacaattaggatctctaacacattaattcgtgcttattccggacggagcatcatcaggctatatgtgtgttaatacttcaaatgcgattgccctgatgagaaagaactgcctgcatgcggatcggcatgcagccgtaacatacaaccgtagta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG2092:PG2094|PG2092:PG2094:hypothetical protein:hypothetical protein:<-<-:2193001..2193410 410 actttataatgctaagtcaaacaaagataaggttttccccccttgtttgggaagctcggagactcaatagcagattgatgacctcgactcccttgtcgtatttgaagcaccattccttataatagaaagatacccgtgattgtaatttccaatagtaagagcaacagagactacagaaaattccccgaagaggccggcctcttcggcagggggctatcgcatttgaaaggttgtactccgccttggtctcttccttctacaattaggatctctaacacattaattcgtgcttattccggacggagcatcatcaggctatatgtgtgttaatacttcaaatgcgattgccctgatgagaaagaactgcctgcatgcggatcggcatgcagccgtaacatacaaccgtagta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 actttataatgctaagtcaaacaaagataaggttttccccccttgtttgggaagctcggagactcaatagcagattgatgacctcgactcccttgtcgtatttgaagcaccattccttataatagaaagatacccgtgattgtaatttccaatagtaagagcaacagagactacagaaaattccccgaagaggccggcctcttcggcagggggctatcgcatttgaaaggttgtactccgccttggtctcttccttctacaattaggatctctaacacattaattcgtgcttattccggacggagcatcatcaggctatatgtgtgttaatacttcaaatgcgattgccctgatgagaaagaactgcctgcatgcggatcggcatgcagccgtaacatacaaccgtagta Predict ORF larger than 30AA ================================================ Protein_Len: 38 Strand: + Start: 6 End: 119 ..... M M L S Q T K I R F S P L V W E A R R L N S R L M T S T P L S Y L K H H S L ................................................................................................................................................................................................................................................................................................... Protein_Len: 60 Strand: + Start: 112 End: 327 ............................................................................................................... M P Y N R K I P V I V I S N S K S N R D Y R K F P E E A G L F G R G L S H L K G C T P P W S L P S T I R I S N T L I R A ................................................................................... Protein_Len: 41 Strand: + Start: 287 End: 409 .............................................................................................................................................................................................................................................................................................. M L I P D G A S S G Y M C V N T S N A I A L M R K N C L H A D R H A A V T Y N R S . Protein_Len: 37 Strand: - Start: 174 End: 284 ............................................................................................................................................................................. L F N G S S A P R K P L P S D C K F P Q V G G Q D R G E V I L I E L V N M .............................................................................................................................. Protein_Len: 60 Strand: - Start: 20 End: 217 ................... G R T Q S A R L S L L L N I V E V G K D Y K F C W E K Y Y F S V R S Q L K W Y Y S C C L S C F I G R L P R G R R C P A M ................................................................................................................................................................................................. Protein_Len: 33 Strand: - Start: 15 End: 113 .............. T L C L Y P K G G K N P F S P S E I A S Q H G R S G Q R I Q L V M ......................................................................................................................................................................................................................................................................................................... actttataatgctaagtcaaacaaagataaggttttccccccttgtttgggaagctcggagactcaatagcagattgatgacctcgactcccttgtcgtatttgaagcaccattccttataatagaaagatacccgtgattgtaatttccaatagtaagagcaacagagactacagaaaattccccgaagaggccggcctcttcggcagggggctatcgcatttgaaaggttgtactccgccttggtctcttccttctacaattaggatctctaacacattaattcgtgcttattccggacggagcatcatcaggctatatgtgtgttaatacttcaaatgcgattgccctgatgagaaagaactgcctgcatgcggatcggcatgcagccgtaacatacaaccgtagta 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================================================ actttataatgctaagtcaaacaaagataaggttttccccccttgtttgggaagctcggagactcaatagcagattgatgacctcgactcccttgtcgtatttgaagcaccattccttataatagaaagatacccgtgattgtaatttccaatagtaagagcaacagagactacagaaaattccccgaagaggccggcctcttcggcagggggctatcgcatttgaaaggttgtactccgccttggtctcttccttctacaattaggatctctaacacattaattcgtgcttattccggacggagcatcatcaggctatatgtgtgttaatacttcaaatgcgattgccctgatgagaaagaactgcctgcatgcggatcggcatgcagccgtaacatacaaccgtagta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG2092:PG2094|PG2092:PG2094:hypothetical protein:hypothetical protein:<-<-:2193001..2193410 410 actttataatgctaagtcaaacaaagataaggttttccccccttgtttgggaagctcggagactcaatagcagattgatgacctcgactcccttgtcgtatttgaagcaccattccttataatagaaagatacccgtgattgtaatttccaatagtaagagcaacagagactacagaaaattccccgaagaggccggcctcttcggcagggggctatcgcatttgaaaggttgtactccgccttggtctcttccttctacaattaggatctctaacacattaattcgtgcttattccggacggagcatcatcaggctatatgtgtgttaatacttcaaatgcgattgccctgatgagaaagaactgcctgcatgcggatcggcatgcagccgtaacatacaaccgtagta Intra-Species Hit: Count: 5 Min: 1 Max: 410 Len: 410 Subject: NC_002950_PG2092_PG2094|hypothetical protein:hypothetical protein|NEGATIVE:NEGATIVE|[2193001,2193410]|410 HSP 1 e-value: 0.0 bit: 813.0 Len: 410 Query Start:1 Query End:410 Subject Strand: POSITIVE Subject Start: 1 Subject End: 410 actttataatgctaagtcaaacaaagataaggttttccccccttgtttgggaagctcggagactcaatagcagattgatgacctcgactcccttgtcgtatttgaagcaccattccttataatagaaagatacccgtgattgtaatttccaatagtaagagcaacagagactacagaaaattccccgaagaggccggcctcttcggcagggggctatcgcatttgaaaggttgtactccgccttggtctcttccttctacaattaggatctctaacacattaattcgtgcttattccggacggagcatcatcaggctatatgtgtgttaatacttcaaatgcgattgccctgatgagaaagaactgcctgcatgcggatcggcatgcagccgtaacatacaaccgtagta actttataatgctaagtcaaacaaagataaggttttccccccttgtttgggaagctcggagactcaatagcagattgatgacctcgactcccttgtcgtatttgaagcaccattccttataatagaaagatacccgtgattgtaatttccaatagtaagagcaacagagactacagaaaattccccgaagaggccggcctcttcggcagggggctatcgcatttgaaaggttgtactccgccttggtctcttccttctacaattaggatctctaacacattaattcgtgcttattccggacggagcatcatcaggctatatgtgtgttaatacttcaaatgcgattgccctgatgagaaagaactgcctgcatgcggatcggcatgcagccgtaacatacaaccgtagta Subject: NC_002950_PG1566_PG1570|glutamyl-tRNA synthetase:rhodanese-like domain protein|NEGATIVE:NEGATIVE|[1647492,1648671]|1180 HSP 1 e-value: 3.0E-81 bit: 303.0 Len: 204 Query Start:111 Query End:314 Subject Strand: POSITIVE Subject Start: 722 Subject End: 928 ..............................................................................................................cattccttataatagaaagatacccgtgattgtaatttccaatagtaagagcaacagagactacagaaaattccccgaagaggccggcctcttcggcagggggctatcgcatttgaaaggttgtactccg---ccttggtctcttccttctacaattaggatctctaacacattaattcgtgcttattccggacggagcatcatcag................................................................................................ ..............................................................................................................catttcttataatagaaaggcacccatgattgtaatttccaatagtaagagcaacacagactacagaaaattccccgaagagaccggccccttcggcagggggctatcgtatttgaaaggttgtactccgtatccttggtctcttccttctacaattaggatctctaacacattaattcgtgtttattccggacggaacatcatcag................................................................................................ Subject: NC_002950_PG1186_PG1189|hypothetical protein:hypothetical protein|NEGATIVE:POSITIVE|[1269242,1270131]|890 HSP 1 e-value: 2.0E-78 bit: 293.0 Len: 207 Query Start:111 Query End:317 Subject Strand: NEGATIVE Subject Start: 70 Subject End: 279 ..............................................................................................................cattccttataatagaaagatacccgtgattgtaatttccaatagtaagagcaacagagactacagaaaattccccgaagaggccggcctcttcggcagggggctatcgcatttgaaaggttgtactccg---ccttggtctcttccttctacaattaggatctctaacacattaattcgtgcttattccggacggagcatcatcaggct............................................................................................. ..............................................................................................................catttcttataatagaaagacacccgtgattgtaatttccgatagtaagcgcaacacagactacagaaaattccccgaagaggccggtctcttcgacagagggctatcgtatttgaaaggttgtactctgtatccttggtctcttccttctactattaggatctctaacacattaattcgtgtttattccggacggagcatcatcaggct............................................................................................. Subject: NC_002950_PG0013_PG0016|hypothetical protein:sigma-54 dependent DNA-binding response regulator|POSITIVE:POSITIVE|[16502,17086]|585 HSP 1 e-value: 4.0E-34 bit: 147.0 Len: 97 Query Start:221 Query End:317 Subject Strand: POSITIVE Subject Start: 379 Subject End: 478 ............................................................................................................................................................................................................................atttgaaaggttgtactccg---ccttggtctcttccttctacaattaggatctctaacacattaattcgtgcttattccggacggagcatcatcaggct............................................................................................. ............................................................................................................................................................................................................................atttgaaaggtcgtactccgtatccttggtctcttccttctacaattaggatctctaacacattaattcgtgcttattccggacagaacatcatcaggct............................................................................................. HSP 2 e-value: 5.0E-18 bit: 93.7 Len: 74 Query Start:33 Query End:106 Subject Strand: POSITIVE Subject Start: 312 Subject End: 385 ................................ttttccccccttgtttgggaagctcggagactcaatagcagattgatgacctcgactc-ccttgtcgtatttgaa................................................................................................................................................................................................................................................................................................................ ................................ttttccccccttgtttgggaagatcag-gactcaatagcagatcgatgacctcgactctccttgtcgtatttgaa................................................................................................................................................................................................................................................................................................................ Subject: NC_002950_PG0759_PG0762|TPR domain protein:trigger factor, putative|NEGATIVE:POSITIVE|[810876,812898]|2023 HSP 1 e-value: 6.0E-33 bit: 143.0 Len: 123 Query Start:39 Query End:161 Subject Strand: NEGATIVE Subject Start: 1400 Subject End: 1520 ......................................ccccttgtttgggaagctcggagactcaatagcagattgatgacctcgactcccttgtcgtatttgaagcaccattccttataatagaaagatacccgtgattgtaatttccaatagtaagag......................................................................................................................................................................................................................................................... ......................................ccccttgtttgggaagctttga--ctcaatagcagatcgacgacctcgactcccttgtcgtattcgaagtatcatttcttataatagaaagacacccgtgattgtaatttccgatagtaagag......................................................................................................................................................................................................................................................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACUUUAUAAUGCUAAGUCAAACAAAGAUAAGGUUUUCCCCCCUUGUUUGGGAAGCUCGGAGACUCAAUAGCAGAUUGAUGACCUCGACUCCCUUGUCGUAUUUGAAGCACCAUUCCUUAUAAUAGAAAGAUACCCGUGAUUGUAAUUUCCAAUAGUAAGAGCAACAGAGACUACAGAAAAUUCCCCGAAGAGGCCGGCCUCUUCGGCAGGGGGCUAUCGCAUUUGAAAGGUUGUACUCCGCCUUGGUCUCUUCCUUCUACAAUUAGGAUCUCUAACACAUUAAUUCGUGCUUAUUCCGGACGGAGCAUCAUCAGGCUAUAUGUGUGUUAAUACUUCAAAUGCGAUUGCCCUGAUGAGAAAGAACUGCCUGCAUGCGGAUCGGCAUGCAGCCGUAACAUACAACCGUAGUA .........((((...(((((....(((((((..(((((.........)))))..(((..(.((((((.....))))).).)..)))...)))))))...)))))))))......(((((.((.((((..(((........))).))))..)).)))))..........(((((......(((.(((((((((....)))))))))...(((((.((((((((((((..((((..(((((((.........((((.........)))).......(((........)))........)).)))))......((.((.....)).)).))))..)))))))))))).))))).....)))...((.((.(((((((......))))))))).))...........))))). (-111.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UACUACGGUUGUAUGUUACGGCUGCAUGCCGAUCCGCAUGCAGGCAGUUCUUUCUCAUCAGGGCAAUCGCAUUUGAAGUAUUAACACACAUAUAGCCUGAUGAUGCUCCGUCCGGAAUAAGCACGAAUUAAUGUGUUAGAGAUCCUAAUUGUAGAAGGAAGAGACCAAGGCGGAGUACAACCUUUCAAAUGCGAUAGCCCCCUGCCGAAGAGGCCGGCCUCUUCGGGGAAUUUUCUGUAGUCUCUGUUGCUCUUACUAUUGGAAAUUACAAUCACGGGUAUCUUUCUAUUAUAAGGAAUGGUGCUUCAAAUACGACAAGGGAGUCGAGGUCAUCAAUCUGCUAUUGAGUCUCCGAGCUUCCCAAACAAGGGGGGAAAACCUUAUCUUUGUUUGACUUAGCAUUAUAAAGU .(((((((...........(.((((((((......)))))))).).((((..........((((.(((((((((((((..........(((........))).(((((((((.((....((((((......)))))).....((((.........)))).....))..))))))))).....))))))))))))).))))....(((((((((....))))))))).))))...))))))).........(((((.((.((((((.(((........)))..)))))).))))))).(((((((((((((((.((.((((...(((..(.(.(((((.....)))))).)..))).((((((......))))))....)))).))..)))))))...))))))))..... (-127.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 995 100 51 191 142 NC_002950:PG2092|5end_hypothetical_protein_2192910..2193140_NEGATIVE 881 350 301 180 130 NC_002950:PG1787|5end_hypothetical_protein_1875908..1876138_NEGATIVE 439 230 181 176 123 NC_002950:PG0221|5end_hypothetical_protein_255834..256064_NEGATIVE 427 228 185 214 168 NC_002950:PG0926|5end_hypothetical_protein_984634..984864_NEGATIVE 421 409 364 81 31 NC_002950:PG1170|5end_SerB_family_protein_1249163..1249393_POSITIVE 420 214 180 41 12 NC_002950:PG0265|5end_hypothetical_protein_298551..298781_NEGATIVE 417 228 183 141 105 NC_002950:PG2220|5end_hypothetical_protein_2334935..2335165_POSITIVE 403 222 182 91 41 NC_002950:PG1760|5end_ABC_transporter,_ATP-binding_protein_1846507..1846737_POSITIVE 401 227 184 136 98 NC_002950:PG1788|5end_cysteine_peptidase,_putative_1875976..1876206_POSITIVE 399 240 195 109 60 NC_002950:PG1388|5end_hypothetical_protein_1470889..1471119_NEGATIVE 395 234 192 69 11 NC_002950:PG1338|5end_umuC_protein_1418246..1418476_POSITIVE 392 206 161 210 157 NC_002950:PG1337|5end_umuD_protein_1417813..1418043_POSITIVE 391 228 185 139 88 NC_002950:PG1363|5end_hypothetical_protein_1443804..1444034_POSITIVE 390 228 183 63 7 NC_002950:PG0671|5end_iron_compound_ABC_transporter,_permease_protein_721888..722118_POSITIVE 390 228 185 141 88 NC_002950:PG0499|5end_hypothetical_protein_538709..538939_POSITIVE 387 229 184 199 137 NC_002950:PG1171|5end_oxidoreductase,_putative_1250355..1250585_POSITIVE 379 221 181 226 178 NC_002950:PG2154|5end_hypothetical_protein_2260945..2261175_NEGATIVE 378 240 193 192 146 NC_002950:PG2064|5end_hypothetical_protein_2160550..2160780_POSITIVE 377 216 171 75 23 NC_002950:PG0311|5end_glycosyl_transferase,_group_2_family_protein_346512..346742_NEGATIVE 376 240 193 65 2 NC_002950:PG2066|5end_lipoprotein,_putative_2162116..2162346_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 439 230 181 97 44 NC_002950:PG0222|3end_DNA-binding_protein,_histone-like_family_255913..256063_NEGATIVE 439 350 304 71 24 NC_002950:PG0078|3end_hypothetical_protein_91566..91716_NEGATIVE 403 222 182 101 51 NC_002950:PG1759|3end_adhesion_protein,_putative_1846597..1846747_POSITIVE 399 240 195 128 79 NC_002950:PG1389|3end_DNA-binding_protein,_histone-like_family_1470870..1471020_NEGATIVE 395 234 192 61 3 NC_002950:PG1337|3end_umuD_protein_1418318..1418468_POSITIVE 390 228 183 66 10 NC_002950:PG0670|3end_lipoprotein,_putative_721971..722121_POSITIVE 389 225 186 115 72 NC_002950:PG0424|3end_hypothetical_protein_463213..463363_POSITIVE 387 390 342 136 92 NC_002950:PG1743|3end_2-dehydro-3-deoxyphosphooctonate_aldolase_1827530..1827680_NEGATIVE 386 230 183 51 1 NC_002950:PG0046|3end_phosphatidate_cytidylyltransferase_56346..56496_NEGATIVE 379 229 187 127 72 NC_002950:PG1392|3end_rod_shape-determining_protein_RodA,_putative_1472959..1473109_NEGATIVE 379 225 183 89 30 NC_002950:PG1112|3end_hypothetical_protein_1185571..1185721_POSITIVE 378 248 205 124 77 NC_002950:PG0951|3end_phosphoribosylaminoimidazole_carboxylase,_PurE_protein_1010828..1010978_POSITIVE 377 216 171 78 26 NC_002950:PG0312|3end_hypothetical_protein_346509..346659_NEGATIVE 376 188 141 143 94 NC_002950:PG1861|3end_hypothetical_protein_1959887..1960037_NEGATIVE 375 390 345 54 4 NC_002950:PG1055|3end_thiol_protease_1121202..1121352_NEGATIVE 374 227 184 120 80 NC_002950:PG0756|3end_hypothetical_protein_804321..804471_NEGATIVE 369 239 193 109 51 NC_002950:PG2202|3end_Holliday_junction_resolvase-like_protein_2309517..2309667_NEGATIVE 369 240 192 83 35 NC_002950:PG0619|3end_alkyl_hydroperoxide_reductase,_F_subunit_672731..672881_POSITIVE 367 390 341 62 7 NC_002950:PG2221|3end_MiaB-like_tRNA_modifying_enzyme_2336840..2336990_POSITIVE 367 235 192 150 102 NC_002950:PG1697|3end_type_II_restriction_endonuclease,_putative_1785074..1785224_POSITIVE