Origin IGS: tttgctgcttgattactacgtaattaaattggaatgactacaaaggtagtgctttttccgagagatagttgctgcattatttctcggatacagggcaatcgcatttgaactgtcaacacacttataaacctaacgattgctacattcaattatcaaaacaagtgcgaatccatatgccagagattcaaatcatagaggaaagagactaaaaattttcaaacgcgatcgccctgacaggctgcccccggggccgacgcattaaattggttttgcggtttcattcgagcgggtttctcctcattggtattgttggctgctactgtatgccgacgcggtagccggatggattattggagccggaggtggtatcggctcgtatggacgcgat .........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 atcgcgtccatacgagccgataccacctccggctccaataatccatccggctaccgcgtcggcatacagtagcagccaacaataccaatgaggagaaacccgctcgaatgaaaccgcaaaaccaatttaatgcgtcggccccgggggcagcctgtcagggcgatcgcgtttgaaaatttttagtctctttcctctatgatttgaatctctggcatatggattcgcacttgttttgataattgaatgtagcaatcgttaggtttataagtgtgttgacagttcaaatgcgattgccctgtatccgagaaataatgcagcaactatctctcggaaaaagcactacctttgtagtcattccaatttaattacgtagtaatcaagcagcaaa Mask Tandem Repeat Region ================================================ tttgctgcttgattactacgtaattaaattggaatgactacaaaggtagtgctttttccgagagatagttgctgcattatttctcggatacagggcaatcgcatttgaactgtcaacacacttataaacctaacgattgctacattcaattatcaaaacaagtgcgaatccatatgccagagattcaaatcatagaggaaagagactaaaaattttcaaacgcgatcgccctgacaggctgcccccggggccgacgcattaaattggttttgcggtttcattcgagcgggtttctcctcattggtattgttggctgctactgtatgccgacgcggtagccggatggattattggagccggaggtggtatcggctcgtatggacgcgat Find is-nt database================================================ Query_seq: PG1397:PG1398|PG1397:PG1398:bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase:hypothetical protein:<-->:1480446..1480833 388 tttgctgcttgattactacgtaattaaattggaatgactacaaaggtagtgctttttccgagagatagttgctgcattatttctcggatacagggcaatcgcatttgaactgtcaacacacttataaacctaacgattgctacattcaattatcaaaacaagtgcgaatccatatgccagagattcaaatcatagaggaaagagactaaaaattttcaaacgcgatcgccctgacaggctgcccccggggccgacgcattaaattggttttgcggtttcattcgagcgggtttctcctcattggtattgttggctgctactgtatgccgacgcggtagccggatggattattggagccggaggtggtatcggctcgtatggacgcgat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG1397:PG1398|PG1397:PG1398:bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase:hypothetical protein:<-->:1480446..1480833 388 tttgctgcttgattactacgtaattaaattggaatgactacaaaggtagtgctttttccgagagatagttgctgcattatttctcggatacagggcaatcgcatttgaactgtcaacacacttataaacctaacgattgctacattcaattatcaaaacaagtgcgaatccatatgccagagattcaaatcatagaggaaagagactaaaaattttcaaacgcgatcgccctgacaggctgcccccggggccgacgcattaaattggttttgcggtttcattcgagcgggtttctcctcattggtattgttggctgctactgtatgccgacgcggtagccggatggattattggagccggaggtggtatcggctcgtatggacgcgat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG1397:PG1398|PG1397:PG1398:bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase:hypothetical protein:<-->:1480446..1480833 388 tttgctgcttgattactacgtaattaaattggaatgactacaaaggtagtgctttttccgagagatagttgctgcattatttctcggatacagggcaatcgcatttgaactgtcaacacacttataaacctaacgattgctacattcaattatcaaaacaagtgcgaatccatatgccagagattcaaatcatagaggaaagagactaaaaattttcaaacgcgatcgccctgacaggctgcccccggggccgacgcattaaattggttttgcggtttcattcgagcgggtttctcctcattggtattgttggctgctactgtatgccgacgcggtagccggatggattattggagccggaggtggtatcggctcgtatggacgcgat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 1 Min: 155 Max: 388 Len: 234 Subject: UniRef90_Q7MVZ0 Cluster: Hypothetical protein; n=1; Porphyromonas gingivalis|Rep: Hypothetical protein - Porphyromonas gingivalis (Bacteroides gingivalis) HSP 1 e-value: 5.0E-12 bit: 72.4 Len: 234 Query Start:155 Query End:388 Subject Strand: null Subject Start: 32 Subject End: 103 .......................................................................................................................................................... K T S A N P Y A R D S N H R G K R L K I F K R D R P D R L P P G P T H * I G F A V S F E R V S P H W Y C W L L L Y A D X X X X X X X X X X X X X X S Y G R D .......................................................................................................................................................... Q T S T N S F V R D S N Y R G K R L K I F K R N R P D H L S D - - - - - M G S M V L Y - R L P P H W Y C W L L L C T D A V A G W I I G A G G G I G S Y G R N tttgctgcttgattactacgtaattaaattggaatgactacaaaggtagtgctttttccgagagatagttgctgcattatttctcggatacagggcaatcgcatttgaactgtcaacacacttataaacctaacgattgctacattcaattatcnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnn Predict ORF larger than 30AA ================================================ Protein_Len: 46 Strand: + Start: 69 End: 206 .................................................................... M L H Y F S D T G Q S H L N C Q H T Y K P N D C Y I Q L S K Q V R I H M P E I Q I I E E R D ...................................................................................................................................................................................... Protein_Len: 41 Strand: + Start: 137 End: 259 ........................................................................................................................................ M L H S I I K T S A N P Y A R D S N H R G K R L K I F K R D R P D R L P P G P T H ................................................................................................................................. Protein_Len: 37 Strand: + Start: 225 End: 335 ................................................................................................................................................................................................................................ M A L T G C P R G R R I K L V L R F H S S G F L L I G I V G C Y C M P T R ..................................................... Protein_Len: 36 Strand: + Start: 280 End: 387 ....................................................................................................................................................................................................................................................................................... M R A G F S S L V L L A A T V C R R G S R M D Y W S R R W Y R L V W T R . Protein_Len: 42 Strand: + Start: 263 End: 388 ...................................................................................................................................................................................................................................................................... M G F A V S F E R V S P H W Y C W L L L Y A D A V A G W I I G A G G G I G S Y G R D Protein_Len: 42 Strand: - Start: 219 End: 344 .......................................................................................................................................................................................................................... V R D G Q C A A G P A S A N F Q N Q P K M R A P K E E N T N N A A V T H R R P L R M ............................................ Protein_Len: 41 Strand: - Start: 27 End: 149 .......................... I P I V V F T T S K G L S L Q Q M I E R I C P L R M Q V T L V S I F R V I A V N M ............................................................................................................................................................................................................................................... tttgctgcttgattactacgtaattaaattggaatgactacaaaggtagtgctttttccgagagatagttgctgcattatttctcggatacagggcaatcgcatttgaactgtcaacacacttataaacctaacgattgctacattcaattatcnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnn 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: 121 End: 150 ........................................................................................................................ATTGAATGTAGCAATCGTTAGGTTTATAAG.............................................................................................................................................................................................................................................. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ tttgctgcttgattactacgtaattaaattggaatgactacaaaggtagtgctttttccgagagatagttgctgcattatttctcggatacagggcaatcgcatttgaactgtcaacacacttataaacctaacgattgctacattcaattatcnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnn Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG1397:PG1398|PG1397:PG1398:bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase:hypothetical protein:<-->:1480446..1480833 388 tttgctgcttgattactacgtaattaaattggaatgactacaaaggtagtgctttttccgagagatagttgctgcattatttctcggatacagggcaatcgcatttgaactgtcaacacacttataaacctaacgattgctacattcaattatcnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnn Intra-Species Hit: Count: 1 Min: 1 Max: 154 Len: 154 Subject: NC_002950_PG1397_PG1398|bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase:hypothetical protein|NEGATIVE:POSITIVE|[1480446,1480833]|388 HSP 1 e-value: 6.0E-82 bit: 305.0 Len: 154 Query Start:1 Query End:154 Subject Strand: POSITIVE Subject Start: 1 Subject End: 154 tttgctgcttgattactacgtaattaaattggaatgactacaaaggtagtgctttttccgagagatagttgctgcattatttctcggatacagggcaatcgcatttgaactgtcaacacacttataaacctaacgattgctacattcaattatc.......................................................................................................................................................................................................................................... tttgctgcttgattactacgtaattaaattggaatgactacaaaggtagtgctttttccgagagatagttgctgcattatttctcggatacagggcaatcgcatttgaactgtcaacacacttataaacctaacgattgctacattcaattatc.......................................................................................................................................................................................................................................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUUGCUGCUUGAUUACUACGUAAUUAAAUUGGAAUGACUACAAAGGUAGUGCUUUUUCCGAGAGAUAGUUGCUGCAUUAUUUCUCGGAUACAGGGCAAUCGCAUUUGAACUGUCAACACACUUAUAAACCUAACGAUUGCUACAUUCAAUUAUC ........((((((((...))))))))....((((((((((....)))))......(((((((((((((......))))))))))))).....((((((((..((((((.(((....))).)).)))).....)))))))).)))))....... (-35.60) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAUAAUUGAAUGUAGCAAUCGUUAGGUUUAUAAGUGUGUUGACAGUUCAAAUGCGAUUGCCCUGUAUCCGAGAAAUAAUGCAGCAACUAUCUCUCGGAAAAAGCACUACCUUUGUAGUCAUUCCAAUUUAAUUACGUAGUAAUCAAGCAGCAAA ..(((((((((...((((((((...((((..((.(((....))).)).))))))))))))......(((((((.(((.(......).))).)))))))....(.(((((....))))))......))))))))).((.((......)).))... (-30.90) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 922 120 71 211 162 NC_002950:PG1397|5end_bifunctional_phosphoribosylaminoimidazolecarboxamide_formyltransferase/IMP_cyclohydrolase_1480355..1480585_NEGATIVE 834 140 91 201 148 NC_002950:PG2221|5end_MiaB-like_tRNA_modifying_enzyme_2335426..2335656_POSITIVE 732 140 92 198 150 NC_002950:PG0500|5end_queuine_tRNA-ribosyltransferase_539197..539427_POSITIVE 633 147 101 224 174 NC_002950:PG0801|5end_polyA_polymerase_family_protein_857714..857944_NEGATIVE 612 140 91 223 174 NC_002950:PG2176|5end_ISPg2,_transposase_2284345..2284575_NEGATIVE 421 140 91 166 118 NC_002950:PG1788|5end_cysteine_peptidase,_putative_1875976..1876206_POSITIVE 353 76 31 175 132 NC_002950:PG2111|5end_thiS_protein_2221482..2221712_NEGATIVE 329 103 62 204 152 NC_002950:PG1586|5end_batE_protein_1664054..1664284_POSITIVE 328 77 32 87 40 NC_002950:PG0268|5end_tRNA_(5-methylaminomethyl-2-thiouridylate)-methyltransferase_300898..301128_POSITIVE 326 100 52 168 96 NC_002950:PG2014|5end_CRISPR-associated_protein_Cas1_2105505..2105735_NEGATIVE 320 109 63 221 175 NC_002950:PG2187|5end_1,4-dihydroxy-2-naphthoate_octaprenyltransferase_2294643..2294873_NEGATIVE 318 90 44 74 14 NC_002950:PG2120|5end_metallo-beta-lactamase_superfamily_protein_2228492..2228722_NEGATIVE 315 123 84 171 132 NC_002950:PG0773|5end_hypothetical_protein_825131..825361_POSITIVE 313 121 83 229 184 NC_002950:PG0305|5end_electron_transport_complex,_RnfABCDGE_type,_D_subunit_340906..341136_POSITIVE 309 96 51 94 55 NC_002950:PG0422|5end_hypothetical_protein_462302..462532_NEGATIVE 302 88 44 62 7 NC_002950:PG0309|5end_thiamine_biosynthesis_lipoprotein_ApbE_345023..345253_NEGATIVE 301 98 51 200 136 NC_002950:PG0447|5end_hypothetical_protein_487278..487508_POSITIVE 299 109 81 155 126 NC_002950:PG1186|5end_hypothetical_protein_1269151..1269381_NEGATIVE 297 77 31 185 132 NC_002950:PG1134|5end_thioredoxin_reductase_1214350..1214580_POSITIVE 294 97 51 113 64 NC_002950:PG0428|5end_hypothetical_protein_465977..466207_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 834 140 91 63 10 NC_002950:PG2220|3end_hypothetical_protein_2335368..2335518_POSITIVE 762 140 91 63 10 NC_002950:PG1251|3end_hypothetical_protein_1328212..1328362_POSITIVE 732 140 92 63 15 NC_002950:PG0499|3end_hypothetical_protein_539142..539292_POSITIVE 705 140 91 63 13 NC_002950:PG0879|3end_hypothetical_protein_941931..942081_NEGATIVE 328 77 32 82 35 NC_002950:PG0267|3end_arginyl-tRNA_synthetase_300973..301123_POSITIVE 302 88 44 65 10 NC_002950:PG0310|3end_nitroreductase_family_protein_345020..345170_NEGATIVE 290 97 51 101 57 NC_002950:PG1587|3end_PAP2_superfamily_protein_1665779..1665929_POSITIVE 290 108 62 128 78 NC_002950:PG1230|3end_hypothetical_protein_1305960..1306110_NEGATIVE 288 96 51 114 71 NC_002950:PG1174|3end_thioesterase_family_protein_1253210..1253360_NEGATIVE 287 70 22 87 37 NC_002950:PG1202|3end_hypothetical_protein_1279592..1279742_NEGATIVE 285 117 71 119 83 NC_002950:PG0347|3end_UDP-glucose_4-epimerase_382382..382532_POSITIVE 284 74 34 138 98 NC_002950:PG1544|3end_hypothetical_protein_1623442..1623592_POSITIVE 284 74 31 61 18 NC_002950:PG1028|3end_TPR_domain_protein_1091096..1091246_POSITIVE 283 88 45 51 3 NC_002950:PG0237|3end_uracil-DNA_glycosylase_275526..275676_POSITIVE 279 97 54 107 72 NC_002950:PG1416|3end_enoyl-(acyl-carrier-protein)_reductase_II_1501078..1501228_POSITIVE 278 100 61 54 13 NC_002950:PG1401|3end_beta-eliminating_lyase_1483399..1483549_NEGATIVE 275 99 51 100 51 NC_002950:PG1814|3end_DNA_primase_1908606..1908756_NEGATIVE 274 123 84 102 52 NC_002950:PG1701|3end_glutamine_amidotransferase,_class_II/dipeptidase_1786145..1786295_NEGATIVE 271 103 68 27 2 NC_002950:PG0429|3end_pyruvate_synthase_468039..468189_POSITIVE 270 88 44 99 48 NC_002950:PG2073|3end_hypothetical_protein_2174219..2174369_NEGATIVE