Origin IGS: taaccattacccgaaagggctgcaagccagatatatttcagccccatcccgtaagggtggggtcccgtccaaccttgttcggagggctgtaagcctgacatgatcgttagcgatcagtattcagtattcagccatcagcttccatccaacaatcaaacaactcaacaaactcaacatttcaacatccaaacgcccgaagggcatcacttttcacttttagttttttacttttctca .........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 tgagaaaagtaaaaaactaaaagtgaaaagtgatgcccttcgggcgtttggatgttgaaatgttgagtttgttgagttgtttgattgttggatggaagctgatggctgaatactgaatactgatcgctaacgatcatgtcaggcttacagccctccgaacaaggttggacgggaccccacccttacgggatggggctgaaatatatctggcttgcagccctttcgggtaatggtta Mask Tandem Repeat Region ================================================ taaccattacccgaaagggctgcaagccagatatatttcagccccatcccgtaagggtggggtcccgtccaaccttgttcggagggctgtaagcctgacatgatcgttagcgatcagtattcagtattcagccatcagcttccatccaacaatcaaacaactcaacaaactcaacatttcaacatccaaacgcccgaagggcatcacttttcacttttagttttttacttttctca Find is-nt database================================================ Query_seq: TF2172:TF2174|TF2172:TF2174:hypothetical protein:possible endopeptidase precursor:->->:2346196..2346431 236 taaccattacccgaaagggctgcaagccagatatatttcagccccatcccgtaagggtggggtcccgtccaaccttgttcggagggctgtaagcctgacatgatcgttagcgatcagtattcagtattcagccatcagcttccatccaacaatcaaacaactcaacaaactcaacatttcaacatccaaacgcccgaagggcatcacttttcacttttagttttttacttttctca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2172:TF2174|TF2172:TF2174:hypothetical protein:possible endopeptidase precursor:->->:2346196..2346431 236 taaccattacccgaaagggctgcaagccagatatatttcagccccatcccgtaagggtggggtcccgtccaaccttgttcggagggctgtaagcctgacatgatcgttagcgatcagtattcagtattcagccatcagcttccatccaacaatcaaacaactcaacaaactcaacatttcaacatccaaacgcccgaagggcatcacttttcacttttagttttttacttttctca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2172:TF2174|TF2172:TF2174:hypothetical protein:possible endopeptidase precursor:->->:2346196..2346431 236 taaccattacccgaaagggctgcaagccagatatatttcagccccatcccgtaagggtggggtcccgtccaaccttgttcggagggctgtaagcctgacatgatcgttagcgatcagtattcagtattcagccatcagcttccatccaacaatcaaacaactcaacaaactcaacatttcaacatccaaacgcccgaagggcatcacttttcacttttagttttttacttttctca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaccattacccgaaagggctgcaagccagatatatttcagccccatcccgtaagggtggggtcccgtccaaccttgttcggagggctgtaagcctgacatgatcgttagcgatcagtattcagtattcagccatcagcttccatccaacaatcaaacaactcaacaaactcaacatttcaacatccaaacgcccgaagggcatcacttttcacttttagttttttacttttctca Predict ORF larger than 30AA ================================================ Protein_Len: 35 Strand: + Start: 113 End: 217 ................................................................................................................ M S I Q Y S A I S F H P T I K Q L N K L N I S T S K R P K G I T F H F ................... Protein_Len: 45 Strand: + Start: 100 End: 234 ................................................................................................... M I V S D Q Y S V F S H Q L P S N N Q T T Q Q T Q H F N I Q T P E G H H F S L L V F Y F S .. Protein_Len: 37 Strand: + Start: 126 End: 236 ............................................................................................................................. M Q P S A S I Q Q S N N S T N S T F Q H P N A R R A S L F T F S F L L F S Protein_Len: 37 Strand: - Start: 10 End: 120 ......... G F P S C A L Y I E A G D R L P P T G D L R T R L A T L R V H D N A I L M .................................................................................................................... Protein_Len: 34 Strand: - Start: 3 End: 104 .. G N G S L A A L W I Y K L G M G Y P H P G T W G Q E S P Q L G S M M .................................................................................................................................... taaccattacccgaaagggctgcaagccagatatatttcagccccatcccgtaagggtggggtcccgtccaaccttgttcggagggctgtaagcctgacatgatcgttagcgatcagtattcagtattcagccatcagcttccatccaacaatcaaacaactcaacaaactcaacatttcaacatccaaacgcccgaagggcatcacttttcacttttagttttttacttttctca 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================================================ taaccattacccgaaagggctgcaagccagatatatttcagccccatcccgtaagggtggggtcccgtccaaccttgttcggagggctgtaagcctgacatgatcgttagcgatcagtattcagtattcagccatcagcttccatccaacaatcaaacaactcaacaaactcaacatttcaacatccaaacgcccgaagggcatcacttttcacttttagttttttacttttctca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF2172:TF2174|TF2172:TF2174:hypothetical protein:possible endopeptidase precursor:->->:2346196..2346431 236 taaccattacccgaaagggctgcaagccagatatatttcagccccatcccgtaagggtggggtcccgtccaaccttgttcggagggctgtaagcctgacatgatcgttagcgatcagtattcagtattcagccatcagcttccatccaacaatcaaacaactcaacaaactcaacatttcaacatccaaacgcccgaagggcatcacttttcacttttagttttttacttttctca Intra-Species Hit: Count: 9 Min: 1 Max: 146 Len: 146 Subject: tfor_TF2172_TF2174|hypothetical protein:possible endopeptidase precursor|POSITIVE:POSITIVE|[2346196,2346431]|236 HSP 1 e-value: 2.0E-77 bit: 289.0 Len: 146 Query Start:1 Query End:146 Subject Strand: POSITIVE Subject Start: 1 Subject End: 146 taaccattacccgaaagggctgcaagccagatatatttcagccccatcccgtaagggtggggtcccgtccaaccttgttcggagggctgtaagcctgacatgatcgttagcgatcagtattcagtattcagccatcagcttccatc.......................................................................................... taaccattacccgaaagggctgcaagccagatatatttcagccccatcccgtaagggtggggtcccgtccaaccttgttcggagggctgtaagcctgacatgatcgttagcgatcagtattcagtattcagccatcagcttccatc.......................................................................................... Subject: tfor_TF2166_TF2167|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[2342423,2342725]|303 HSP 1 e-value: 6.0E-44 bit: 178.0 Len: 98 Query Start:1 Query End:98 Subject Strand: POSITIVE Subject Start: 73 Subject End: 170 taaccattacccgaaagggctgcaagccagatatatttcagccccatcccgtaagggtggggtcccgtccaaccttgttcggagggctgtaagcctga.......................................................................................................................................... taaccattacccgaaagggctgaaagccagatatatttcagccccatcccgtaagggtggggtcccgtccaaccttgttcggaaggctgtaagcctga.......................................................................................................................................... HSP 2 e-value: 9.0E-6 bit: 52.0 Len: 26 Query Start:121 Query End:146 Subject Strand: POSITIVE Subject Start: 184 Subject End: 209 ........................................................................................................................tcagtattcagccatcagcttccatc.......................................................................................... ........................................................................................................................tcagtattcagccatcagcttccatc.......................................................................................... Subject: tfor_TF0366_TF0367|hypothetical protein:eukaryotic-like metalloproteinase|POSITIVE:POSITIVE|[383872,384146]|275 HSP 1 e-value: 6.0E-44 bit: 178.0 Len: 98 Query Start:1 Query End:98 Subject Strand: POSITIVE Subject Start: 73 Subject End: 170 taaccattacccgaaagggctgcaagccagatatatttcagccccatcccgtaagggtggggtcccgtccaaccttgttcggagggctgtaagcctga.......................................................................................................................................... taaccattacccgaaagggctgaaagccagatatatttcagccccatcccgtaagggtggggtcccgtccaaccttgttcggaaggctgtaagcctga.......................................................................................................................................... HSP 2 e-value: 9.0E-6 bit: 52.0 Len: 26 Query Start:121 Query End:146 Subject Strand: POSITIVE Subject Start: 184 Subject End: 209 ........................................................................................................................tcagtattcagccatcagcttccatc.......................................................................................... ........................................................................................................................tcagtattcagccatcagcttccatc.......................................................................................... Subject: tfor_TF0362_TF0364|hypothetical protein:ysyl endopeptidase|POSITIVE:POSITIVE|[380260,380534]|275 HSP 1 e-value: 6.0E-44 bit: 178.0 Len: 98 Query Start:1 Query End:98 Subject Strand: POSITIVE Subject Start: 73 Subject End: 170 taaccattacccgaaagggctgcaagccagatatatttcagccccatcccgtaagggtggggtcccgtccaaccttgttcggagggctgtaagcctga.......................................................................................................................................... taaccattacccgaaagggctgaaagccagatatatttcagccccatcccgtaagggtggggtcccgtccaaccttgttcggaaggctgtaagcctga.......................................................................................................................................... HSP 2 e-value: 9.0E-6 bit: 52.0 Len: 26 Query Start:121 Query End:146 Subject Strand: POSITIVE Subject Start: 184 Subject End: 209 ........................................................................................................................tcagtattcagccatcagcttccatc.......................................................................................... ........................................................................................................................tcagtattcagccatcagcttccatc.......................................................................................... Subject: tfor_TF0346_TF0347|hypothetical protein:possible serine protease|POSITIVE:POSITIVE|[367377,367681]|305 HSP 1 e-value: 6.0E-44 bit: 178.0 Len: 98 Query Start:1 Query End:98 Subject Strand: POSITIVE Subject Start: 73 Subject End: 170 taaccattacccgaaagggctgcaagccagatatatttcagccccatcccgtaagggtggggtcccgtccaaccttgttcggagggctgtaagcctga.......................................................................................................................................... taaccattacccgaaagggctgcaaacccgatatatttcagccccatcccgtaagggtggggtcccgtccaaccttgttcggagggctgtaagcctga.......................................................................................................................................... HSP 2 e-value: 9.0E-6 bit: 52.0 Len: 26 Query Start:121 Query End:146 Subject Strand: POSITIVE Subject Start: 184 Subject End: 209 ........................................................................................................................tcagtattcagccatcagcttccatc.......................................................................................... ........................................................................................................................tcagtattcagccatcagcttccatc.......................................................................................... Subject: tfor_TF2161_TF2162|conserved hypothetical protein:thermolysin precursor|POSITIVE:POSITIVE|[2338423,2338808]|386 HSP 1 e-value: 2.0E-31 bit: 137.0 Len: 132 Query Start:15 Query End:146 Subject Strand: POSITIVE Subject Start: 168 Subject End: 297 ..............aagggctgcaagccagatatatttcagccccatcccgtaagggtggggtcccgtccaaccttgttcggagggctgtaagcctgacatgatcgttagcgatcagtattcagtattcagccatcagcttccatc.......................................................................................... ..............aagggctgaaagcccgttctgtttcagccccatcccgtaagggtggggtcccgtcccaccttgttcggagggctgtaagcctgatgtaat--ttatcggtcagtattcagcaatcagccatcagcttccatc.......................................................................................... Subject: tfor_TF0029_TF0030|hypothetical protein:N-acetylneuraminate lyase|POSITIVE:POSITIVE|[25123,25909]|787 HSP 1 e-value: 2.0E-13 bit: 77.8 Len: 110 Query Start:15 Query End:124 Subject Strand: NEGATIVE Subject Start: 147 Subject End: 260 ..............aagggctgcaagccagatatatttcagccccatcccgtaagggtgggg--tcc-cgtcca-accttgttcggagggctgtaagcctgacatgatcgttagcgatcagtattcag................................................................................................................ ..............aagggctggaagcccgaattatttcagccccatcccgtaagggtgggggatccatgcccataccttggttagagggctgtaagcctgatataatcgttagcggtcagtattcag................................................................................................................ Subject: tfor_TF1654_TF1655|hypothetical protein:long-chain-fatty-acid-CoA ligase|POSITIVE:POSITIVE|[1768766,1769418]|653 HSP 1 e-value: 9.0E-9 bit: 61.9 Len: 35 Query Start:1 Query End:35 Subject Strand: NEGATIVE Subject Start: 531 Subject End: 565 taaccattacccgaaagggctgcaagccagatata......................................................................................................................................................................................................... taaccattacccgaaagggctgcaagcccgatata......................................................................................................................................................................................................... HSP 2 e-value: 6.0E-7 bit: 56.0 Len: 52 Query Start:83 Query End:134 Subject Strand: NEGATIVE Subject Start: 499 Subject End: 550 ..................................................................................agggctgtaagcctgacatgatcgttagcgatcagtattcagtattcagcca...................................................................................................... ..................................................................................agggctgcaagcccgatataatcgttagcggtcagtattcagtaatcagcca...................................................................................................... Subject: tfor_TF3104_TF3105|outer membrane protein, TonB dependent receptor:hypothetical protein|POSITIVE:POSITIVE|[3337511,3338207]|697 HSP 1 e-value: 2.0E-6 bit: 54.0 Len: 35 Query Start:1 Query End:35 Subject Strand: NEGATIVE Subject Start: 613 Subject End: 647 taaccattacccgaaagggctgcaagccagatata......................................................................................................................................................................................................... taaccattacccgaaagggctgaaagcctgatata......................................................................................................................................................................................................... HSP 2 e-value: 9.0E-6 bit: 52.0 Len: 42 Query Start:83 Query End:124 Subject Strand: NEGATIVE Subject Start: 591 Subject End: 632 ..................................................................................agggctgtaagcctgacatgatcgttagcgatcagtattcag................................................................................................................ ..................................................................................agggctgaaagcctgatataatcgttagcggtcagtattcag................................................................................................................ Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAACCAUUACCCGAAAGGGCUGCAAGCCAGAUAUAUUUCAGCCCCAUCCCGUAAGGGUGGGGUCCCGUCCAACCUUGUUCGGAGGGCUGUAAGCCUGACAUGAUCGUUAGCGAUCAGUAUUCAGUAUUCAGCCAUCAGCUUCCAUC .........(((....))).((.((((.............((((((.(((....))))))))).(((..((....))..)))..(((((.((..((((..((((((....))))))....))))..)))))))....)))).)).. (-54.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAUGGAAGCUGAUGGCUGAAUACUGAAUACUGAUCGCUAACGAUCAUGUCAGGCUUACAGCCCUCCGAACAAGGUUGGACGGGACCCCACCCUUACGGGAUGGGGCUGAAAUAUAUCUGGCUUGCAGCCCUUUCGGGUAAUGGUUA ..((.(((((((((((((((..((((....((((((....))))))..))))..)).))))).(((((......)))))..((.((((((((....))).))))))).......))).))))).))((((....))))........ (-50.30) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 858 60 14 46 1 tfor:TF2840|5end_hypothetical_protein_3031060..3031290_POSITIVE 848 60 11 215 166 tfor:TF0822|5end_hypothetical_protein_880487..880717_POSITIVE 848 60 11 215 166 tfor:TF0821|5end_hypothetical_protein_879879..880109_POSITIVE 816 89 41 85 31 tfor:TF2547|5end_hypothetical_protein_2730664..2730894_POSITIVE 772 60 11 201 152 tfor:TF0678|5end_hypothetical_protein_721103..721333_POSITIVE 654 119 71 231 181 tfor:TF1655|5end_long-chain-fatty-acid-CoA_ligase_1769279..1769509_POSITIVE 624 120 71 194 143 tfor:TF3105|5end_hypothetical_protein_3338068..3338298_POSITIVE 586 100 51 228 173 tfor:TF2745|5end_hypothetical_protein_2927562..2927792_POSITIVE 576 45 1 231 187 tfor:TF2191|5end_hypothetical_protein_2365934..2366164_POSITIVE 531 112 73 74 35 tfor:TF3003|5end_hypothetical_protein_3220382..3220612_POSITIVE 531 108 61 170 127 tfor:TF1274|5end_hypothetical_protein_1357621..1357851_POSITIVE 517 108 66 46 1 tfor:TF0820|5end_hypothetical_protein_879656..879886_POSITIVE 483 98 58 187 145 tfor:TF0499|5end_hypothetical_protein_526257..526487_POSITIVE 482 108 61 99 56 tfor:TF2640|5end_hypothetical_protein_2809106..2809336_POSITIVE 440 89 41 202 150 tfor:TF1275|5end_transcription-repair_coupling_factor_1357866..1358096_POSITIVE 435 98 56 224 172 tfor:TF0679|5end_hypothetical_protein_721155..721385_POSITIVE 433 89 41 88 36 tfor:TF1516|5end_transposase_fragment_1626407..1626637_POSITIVE 420 88 41 150 78 tfor:TF2187|5end_conserved_hypothetical_protein_2361693..2361923_POSITIVE 418 88 47 57 9 tfor:TF1830|5end_3-isopropylmalate_dehydratase,_large_subunit_1978888..1979118_POSITIVE 417 98 51 192 140 tfor:TF0350|5end_hypothetical_protein_370794..371024_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 578 99 53 81 41 tfor:TF1762|3end_hypothetical_protein_1899648..1899798_POSITIVE 527 99 53 54 17 tfor:TF0018|3end_hypothetical_protein_12091..12241_POSITIVE 524 98 55 71 29 tfor:TF2922|3end_surface_antigen_BspA_3121538..3121688_POSITIVE 522 108 61 54 1 tfor:TF0677|3end_ATP-binding_protein,_Mrp/Nbp35_family,_involved_in_chromosome_partitioning_720982..721132_POSITIVE 519 99 55 75 26 tfor:TF2350|3end_hypothetical_protein_2515364..2515514_POSITIVE 501 130 81 53 6 tfor:TF2047|3end_hypothetical_protein_2210298..2210448_POSITIVE 500 98 58 81 41 tfor:TF0344|3end_hypothetical_protein_366963..367113_POSITIVE 500 98 58 41 1 tfor:TF0343|3end_hypothetical_protein_366923..367073_POSITIVE 458 98 55 48 6 tfor:TF2169|3end_hypothetical_protein_2345354..2345504_POSITIVE 454 108 72 39 1 tfor:TF0819|3end_phosphoglycerate_mutase_879729..879879_POSITIVE 440 89 41 151 99 tfor:TF1274|3end_hypothetical_protein_1357895..1358045_POSITIVE 439 103 64 42 9 tfor:TF0361|3end_hypothetical_protein_379810..379960_POSITIVE 431 89 41 52 4 tfor:TF2172|3end_hypothetical_protein_2346135..2346285_POSITIVE 423 106 65 122 83 tfor:TF0279|3end_conserved_hypothetical_protein_308679..308829_POSITIVE 420 98 51 83 32 tfor:TF1585|3end_hypothetical_protein_1690610..1690760_POSITIVE 420 98 51 76 25 tfor:TF1584|3end_hypothetical_protein_1690603..1690753_POSITIVE 407 95 55 151 113 tfor:TF2025|3end_hypothetical_protein_2182180..2182330_POSITIVE 403 112 75 37 1 tfor:TF0339|3end_hypothetical_protein_363747..363897_POSITIVE 401 97 53 54 4 tfor:TF1743|3end_conserved_hypothetical_protein_1877909..1878059_POSITIVE 399 110 62 55 1 tfor:TF2266|3end_transfer_region-related_protein,_TraQ_2434949..2435099_POSITIVE