Origin IGS: tgatttgcgtctctacggtgcgtactgcgttcatttgcgaaatttgcgttcggacaccgtgtaccctgtacataaccattacccgaaagggctgaaagccagatatatttcagccccatcccgtaagggtggggtcccgtccaaccttgttcggaaggctgtaagcctgatgtaatttatcggtcagtattcagccatcagcttccatccaacaatcaaacaactcaaccattcaacagcacaacagttaaacgcccgaagggcatcacttttcacttttcgtttttcacttttcacttttca .........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 tgaaaagtgaaaagtgaaaaacgaaaagtgaaaagtgatgcccttcgggcgtttaactgttgtgctgttgaatggttgagttgtttgattgttggatggaagctgatggctgaatactgaccgataaattacatcaggcttacagccttccgaacaaggttggacgggaccccacccttacgggatggggctgaaatatatctggctttcagccctttcgggtaatggttatgtacagggtacacggtgtccgaacgcaaatttcgcaaatgaacgcagtacgcaccgtagagacgcaaatca Mask Tandem Repeat Region ================================================ tgatttgcgtctctacggtgcgtactgcgttcatttgcgaaatttgcgttcggacaccgtgtaccctgtacataaccattacccgaaagggctgaaagccagatatatttcagccccatcccgtaagggtggggtcccgtccaaccttgttcggaaggctgtaagcctgatgtaatttatcggtcagtattcagccatcagcttccatccaacaatcaaacaactcaaccattcaacagcacaacagttaaacgcccgaagggcannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnn Find is-nt database================================================ Query_seq: TF2166:TF2167|TF2166:TF2167:hypothetical protein:hypothetical protein:->->:2342423..2342725 303 tgatttgcgtctctacggtgcgtactgcgttcatttgcgaaatttgcgttcggacaccgtgtaccctgtacataaccattacccgaaagggctgaaagccagatatatttcagccccatcccgtaagggtggggtcccgtccaaccttgttcggaaggctgtaagcctgatgtaatttatcggtcagtattcagccatcagcttccatccaacaatcaaacaactcaaccattcaacagcacaacagttaaacgcccgaagggcatcacttttcacttttcgtttttcacttttcacttttca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2166:TF2167|TF2166:TF2167:hypothetical protein:hypothetical protein:->->:2342423..2342725 303 tgatttgcgtctctacggtgcgtactgcgttcatttgcgaaatttgcgttcggacaccgtgtaccctgtacataaccattacccgaaagggctgaaagccagatatatttcagccccatcccgtaagggtggggtcccgtccaaccttgttcggaaggctgtaagcctgatgtaatttatcggtcagtattcagccatcagcttccatccaacaatcaaacaactcaaccattcaacagcacaacagttaaacgcccgaagggcatcacttttcacttttcgtttttcacttttcacttttca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2166:TF2167|TF2166:TF2167:hypothetical protein:hypothetical protein:->->:2342423..2342725 303 tgatttgcgtctctacggtgcgtactgcgttcatttgcgaaatttgcgttcggacaccgtgtaccctgtacataaccattacccgaaagggctgaaagccagatatatttcagccccatcccgtaagggtggggtcccgtccaaccttgttcggaaggctgtaagcctgatgtaatttatcggtcagtattcagccatcagcttccatccaacaatcaaacaactcaaccattcaacagcacaacagttaaacgcccgaagggcatcacttttcacttttcgtttttcacttttcacttttca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgatttgcgtctctacggtgcgtactgcgttcatttgcgaaatttgcgttcggacaccgtgtaccctgtacataaccattacccgaaagggctgaaagccagatatatttcagccccatcccgtaagggtggggtcccgtccaaccttgttcggaaggctgtaagcctgatgtaatttatcggtcagtattcagccatcagcttccatccaacaatcaaacaactcaaccattcaacagcacaacagttaaacgcccgaagggcatcacttttcacttttcgtttttcacttttcacttttca Predict ORF larger than 30AA ================================================ Protein_Len: 30 Strand: + Start: 3 End: 92 .. M C V S T V R T A F I C E I C V R T P C T L Y I T I T R K G ................................................................................................................................................................................................................... Protein_Len: 56 Strand: + Start: 5 End: 172 .... M R L Y G A Y C V H L R N L R S D T V Y P V H N H Y P K G L K A R Y I S A P S R K G G V P S N L V R K A V S L M ................................................................................................................................... Protein_Len: 41 Strand: + Start: 179 End: 301 .................................................................................................................................................................................. M G Q Y S A I S F H P T I K Q L N H S T A Q Q L N A R R A S L F T F R F S L F T F .. Protein_Len: 43 Strand: + Start: 175 End: 303 .............................................................................................................................................................................. M Y R S V F S H Q L P S N N Q T T Q P F N S T T V K R P K G I T F H F S F F T F H F S Protein_Len: 37 Strand: - Start: 187 End: 297 .......................................................................................................................................................................................... Y E A M L K W G V I L C S L W E V A C C N F A R L A D S K V K R K E S K M ...... Protein_Len: 33 Strand: - Start: 82 End: 180 ................................................................................. G F P S F A L Y I E A G D R L P P T G D L R T R F A T L R I Y N M ........................................................................................................................... Protein_Len: 58 Strand: - Start: 3 End: 176 .. N A D R R H T S R E N A F N A N P C R T G Q V Y G N G S L A S 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 T M ............................................................................................................................... Protein_Len: 35 Strand: - Start: 2 End: 106 . I Q T E V T R V A N M Q S I Q T R V G H V R Y M V M V R F P Q F G S M ..................................................................................................................................................................................................... tgatttgcgtctctacggtgcgtactgcgttcatttgcgaaatttgcgttcggacaccgtgtaccctgtacataaccattacccgaaagggctgaaagccagatatatttcagccccatcccgtaagggtggggtcccgtccaaccttgttcggaaggctgtaagcctgatgtaatttatcggtcagtattcagccatcagcttccatccaacaatcaaacaactcaaccattcaacagcacaacagttaaacgcccgaagggcatcacttttcacttttcgtttttcacttttcacttttca 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================================================ tgatttgcgtctctacggtgcgtactgcgttcatttgcgaaatttgcgttcggacaccgtgtaccctgtacataaccattacccgaaagggctgaaagccagatatatttcagccccatcccgtaagggtggggtcccgtccaaccttgttcggaaggctgtaagcctgatgtaatttatcggtcagtattcagccatcagcttccatccaacaatcaaacaactcaaccattcaacagcacaacagttaaacgcccgaagggcatcacttttcacttttcgtttttcacttttcacttttca Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 67 HP_score: -7.1 Tail_Score: -3.6284 Start: 89 End: 116 Full_Region: cacccttacgggatg gggctgaaa tatatctggc tttcagccc tttcgggtaatggtt ........................................................................................gggctgaaatatatctggctttcagccc........................................................................................................................................................................................... Find igs database================================================ Query_seq: TF2166:TF2167|TF2166:TF2167:hypothetical protein:hypothetical protein:->->:2342423..2342725 303 tgatttgcgtctctacggtgcgtactgcgttcatttgcgaaatttgcgttcggacaccgtgtaccctgtacataaccattacccgaaagggctgaaagccagatatatttcagccccatcccgtaagggtggggtcccgtccaaccttgttcggaaggctgtaagcctgatgtaatttatcggtcagtattcagccatcagcttccatccaacaatcaaacaactcaaccattcaacagcacaacagttaaacgcccgaagggcatcacttttcacttttcgtttttcacttttcacttttca Intra-Species Hit: Count: 6 Min: 1 Max: 265 Len: 265 Subject: tfor_TF2166_TF2167|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[2342423,2342725]|303 HSP 1 e-value: 1.0E-148 bit: 525.0 Len: 265 Query Start:1 Query End:265 Subject Strand: POSITIVE Subject Start: 1 Subject End: 265 tgatttgcgtctctacggtgcgtactgcgttcatttgcgaaatttgcgttcggacaccgtgtaccctgtacataaccattacccgaaagggctgaaagccagatatatttcagccccatcccgtaagggtggggtcccgtccaaccttgttcggaaggctgtaagcctgatgtaatttatcggtcagtattcagccatcagcttccatccaacaatcaaacaactcaaccattcaacagcacaacagttaaacgcccgaagggca...................................... tgatttgcgtctctacggtgcgtactgcgttcatttgcgaaatttgcgttcggacaccgtgtaccctgtacataaccattacccgaaagggctgaaagccagatatatttcagccccatcccgtaagggtggggtcccgtccaaccttgttcggaaggctgtaagcctgatgtaatttatcggtcagtattcagccatcagcttccatccaacaatcaaacaactcaaccattcaacagcacaacagttaaacgcccgaagggca...................................... Subject: tfor_TF0366_TF0367|hypothetical protein:eukaryotic-like metalloproteinase|POSITIVE:POSITIVE|[383872,384146]|275 HSP 1 e-value: 1.0E-129 bit: 462.0 Len: 265 Query Start:1 Query End:265 Subject Strand: POSITIVE Subject Start: 1 Subject End: 265 tgatttgcgtctctacggtgcgtactgcgttcatttgcgaaatttgcgttcggacaccgtgtaccctgtacataaccattacccgaaagggctgaaagccagatatatttcagccccatcccgtaagggtggggtcccgtccaaccttgttcggaaggctgtaagcctgatgtaatttatcggtcagtattcagccatcagcttccatccaacaatcaaacaactcaaccattcaacagcacaacagttaaacgcccgaagggca...................................... tgatttgcgtctctacggtgcgtactgcgttcatttgcgaaatttgcgttcggacaccgtgtaccctgtacataaccattacccgaaagggctgaaagccagatatatttcagccccatcccgtaagggtggggtcccgtccaaccttgttcggaaggctgtaagcctgatgtaatttatcggtcagtattcagccatcagcttccatccaacaatcaaacaactcaacagttcaacaattcaacaactcaacgcccgaagggca...................................... Subject: tfor_TF0362_TF0364|hypothetical protein:ysyl endopeptidase|POSITIVE:POSITIVE|[380260,380534]|275 HSP 1 e-value: 1.0E-127 bit: 454.0 Len: 265 Query Start:1 Query End:265 Subject Strand: POSITIVE Subject Start: 1 Subject End: 265 tgatttgcgtctctacggtgcgtactgcgttcatttgcgaaatttgcgttcggacaccgtgtaccctgtacataaccattacccgaaagggctgaaagccagatatatttcagccccatcccgtaagggtggggtcccgtccaaccttgttcggaaggctgtaagcctgatgtaatttatcggtcagtattcagccatcagcttccatccaacaatcaaacaactcaaccattcaacagcacaacagttaaacgcccgaagggca...................................... tgatttgcgtctctacggtgcgtactgcgttcatttgcgaaatttgcgttcggacactgtgtaccctgtacataaccattacccgaaagggctgaaagccagatatatttcagccccatcccgtaagggtggggtcccgtccaaccttgttcggaaggctgtaagcctgatgtaatttatcggtcagtattcagccatcagcttccatccaacaatcaaacaactcaacagttcaacaattcaacaactcaacgcccgaagggca...................................... Subject: tfor_TF0346_TF0347|hypothetical protein:possible serine protease|POSITIVE:POSITIVE|[367377,367681]|305 HSP 1 e-value: 1.0E-117 bit: 422.0 Len: 261 Query Start:5 Query End:265 Subject Strand: POSITIVE Subject Start: 5 Subject End: 265 ....ttgcgtctctacggtgcgtactgcgttcatttgcgaaatttgcgttcggacaccgtgtaccctgtacataaccattacccgaaagggctgaaagccagatatatttcagccccatcccgtaagggtggggtcccgtccaaccttgttcggaaggctgtaagcctgatgtaatttatcggtcagtattcagccatcagcttccatccaacaatcaaacaactcaaccattcaacagcacaacagttaaacgcccgaagggca...................................... ....ttgcgtctctacggtgcgtactgcgttcatttgcgaaatttgcattcggacaccgtgtaccctgtacataaccattacccgaaagggctgcaaacccgatatatttcagccccatcccgtaagggtggggtcccgtccaaccttgttcggagggctgtaagcctgatgtaatttatcggtcagtattcagccatcagcttccatccaacaatcaaacaactcaacagttcaacaattcaacaattcaacgcccgaagggca...................................... Subject: tfor_TF2161_TF2162|conserved hypothetical protein:thermolysin precursor|POSITIVE:POSITIVE|[2338423,2338808]|386 HSP 1 e-value: 3.0E-71 bit: 270.0 Len: 179 Query Start:87 Query End:265 Subject Strand: POSITIVE Subject Start: 168 Subject End: 353 ......................................................................................aagggctgaaagccagatatatttcagccccatcccgtaagggtggggtcccgtccaaccttgttcggaaggctgtaagcctgatgtaatttatcggtcagtat-------tcagccatcagcttccatccaacaatcaaacaactcaaccattcaacagcacaacagttaaacgcccgaagggca...................................... ......................................................................................aagggctgaaagcccgttctgtttcagccccatcccgtaagggtggggtcccgtcccaccttgttcggagggctgtaagcctgatgtaatttatcggtcagtattcagcaatcagccatcagcttccatccaacaatcaaacaactcaaccattcaacagcacaacagttaaacgcccgaagggca...................................... Subject: tfor_TF2172_TF2174|hypothetical protein:possible endopeptidase precursor|POSITIVE:POSITIVE|[2346196,2346431]|236 HSP 1 e-value: 2.0E-50 bit: 200.0 Len: 157 Query Start:73 Query End:229 Subject Strand: POSITIVE Subject Start: 1 Subject End: 166 ........................................................................taaccattacccgaaagggctgaaagccagatatatttcagccccatcccgtaagggtggggtcccgtccaaccttgttcggaaggctgtaagcctgatgtaat--ttatcggtcagtattca-------gccatcagcttccatccaacaatcaaacaactcaac.......................................................................... ........................................................................taaccattacccgaaagggctgcaagccagatatatttcagccccatcccgtaagggtggggtcccgtccaaccttgttcggagggctgtaagcctgacatgatcgttagcgatcagtattcagtattcagccatcagcttccatccaacaatcaaacaactcaac.......................................................................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAUUUGCGUCUCUACGGUGCGUACUGCGUUCAUUUGCGAAAUUUGCGUUCGGACACCGUGUACCCUGUACAUAACCAUUACCCGAAAGGGCUGAAAGCCAGAUAUAUUUCAGCCCCAUCCCGUAAGGGUGGGGUCCCGUCCAACCUUGUUCGGAAGGCUGUAAGCCUGAUGUAAUUUAUCGGUCAGUAUUCAGCCAUCAGCUUCCAUCCAACAAUCAAACAACUCAACCAUUCAACAGCACAACAGUUAAACGCCCGAAGGGCA ........(((.((.(((.(((((((((((......))).....(((....((((...((((((...)))))).......((((....(((((((((..........)))))))))...(((....)))..))))...))))....(((((.(((((((((...((((((((.....))))))..........))...))))))...)))))))).......................)))...))))...))))))).))))). (-76.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGCCCUUCGGGCGUUUAACUGUUGUGCUGUUGAAUGGUUGAGUUGUUUGAUUGUUGGAUGGAAGCUGAUGGCUGAAUACUGACCGAUAAAUUACAUCAGGCUUACAGCCUUCCGAACAAGGUUGGACGGGACCCCACCCUUACGGGAUGGGGCUGAAAUAUAUCUGGCUUUCAGCCCUUUCGGGUAAUGGUUAUGUACAGGGUACACGGUGUCCGAACGCAAAUUUCGCAAAUGAACGCAGUACGCACCGUAGAGACGCAAAUCA (((.((((((((((...(((((.((....(((.....(((.((((((..(((.(((..(((((((((..(.((((....................)))).)...))).))))))..))))))..))).((((((.(((.((((..((.((((((((((..........)))))))))).))..)))).)))..(((((...))))).)).)))).))).)))......)))....))))))))))).)))..)))..)))..... (-79.75) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 839 130 83 213 166 tfor:TF0822|5end_hypothetical_protein_880487..880717_POSITIVE 839 130 83 213 166 tfor:TF0821|5end_hypothetical_protein_879879..880109_POSITIVE 779 140 91 55 6 tfor:TF2840|5end_hypothetical_protein_3031060..3031290_POSITIVE 763 130 83 199 152 tfor:TF0678|5end_hypothetical_protein_721103..721333_POSITIVE 757 160 111 84 29 tfor:TF2547|5end_hypothetical_protein_2730664..2730894_POSITIVE 691 100 51 169 122 tfor:TF3105|5end_hypothetical_protein_3338068..3338298_POSITIVE 647 117 71 231 178 tfor:TF2191|5end_hypothetical_protein_2365934..2366164_POSITIVE 601 70 26 77 24 tfor:TF1183|5end_hypothetical_protein_1268391..1268621_POSITIVE 597 100 51 221 171 tfor:TF0679|5end_hypothetical_protein_721155..721385_POSITIVE 585 100 51 207 164 tfor:TF1655|5end_long-chain-fatty-acid-CoA_ligase_1769279..1769509_POSITIVE 560 229 181 194 132 tfor:TF2833|5end_lipid_A_disaccharide_synthase_3023973..3024203_POSITIVE 559 58 16 96 45 tfor:TF1184|5end_hypothetical_protein_1269004..1269234_POSITIVE 511 66 21 74 22 tfor:TF2652|5end_hypothetical_protein_2821803..2822033_POSITIVE 505 170 122 187 137 tfor:TF0499|5end_hypothetical_protein_526257..526487_POSITIVE 498 70 22 158 115 tfor:TF2816|5end_hypothetical_protein_3006925..3007155_POSITIVE 485 70 21 207 162 tfor:TF1850|5end_Na+/H+-exchanging_protein_1998542..1998772_POSITIVE 478 58 16 130 79 tfor:TF1187|5end_hypothetical_protein_1269625..1269855_POSITIVE 478 58 16 73 22 tfor:TF1186|5end_hypothetical_protein_1269568..1269798_POSITIVE 476 226 181 152 106 tfor:TF1818|5end_conserved_hypothetical_protein_1957967..1958197_POSITIVE 470 170 122 226 175 tfor:TF2745|5end_hypothetical_protein_2927562..2927792_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 560 229 181 80 18 tfor:TF2832|3end_possible_proton/sodium:glutamate_symporter_protein_3023939..3024089_POSITIVE 560 179 131 89 44 tfor:TF1762|3end_hypothetical_protein_1899648..1899798_POSITIVE 504 179 131 62 19 tfor:TF0018|3end_hypothetical_protein_12091..12241_POSITIVE 479 59 13 64 10 tfor:TF2823|3end_TPR-containing_protein_3014337..3014487_POSITIVE 476 226 181 79 33 tfor:TF1816|3end_hypothetical_protein_1957974..1958124_POSITIVE 476 226 181 96 50 tfor:TF1817|3end_hypothetical_protein_1957991..1958141_POSITIVE 473 170 122 71 25 tfor:TF2922|3end_surface_antigen_BspA_3121538..3121688_POSITIVE 468 260 221 40 1 tfor:TF1657|3end_lauroyl/myristoyl_acyltransferase_1773407..1773557_POSITIVE 462 175 131 86 42 tfor:TF0344|3end_hypothetical_protein_366963..367113_POSITIVE 462 175 131 46 2 tfor:TF0343|3end_hypothetical_protein_366923..367073_POSITIVE 460 53 16 129 85 tfor:TF1841|3end_hypothetical_protein_1992267..1992417_POSITIVE 444 173 131 77 33 tfor:TF2350|3end_hypothetical_protein_2515364..2515514_POSITIVE 442 180 133 53 1 tfor:TF0677|3end_ATP-binding_protein,_Mrp/Nbp35_family,_involved_in_chromosome_partitioning_720982..721132_POSITIVE 425 198 152 54 5 tfor:TF2047|3end_hypothetical_protein_2210298..2210448_POSITIVE 421 160 111 150 97 tfor:TF1274|3end_hypothetical_protein_1357895..1358045_POSITIVE 416 70 21 42 1 tfor:TF2816|3end_hypothetical_protein_3007184..3007334_POSITIVE 416 66 32 34 1 tfor:TF1838|3end_tRNA/rRNA_methyltransferase_1988745..1988895_POSITIVE 414 175 136 53 20 tfor:TF2169|3end_hypothetical_protein_2345354..2345504_POSITIVE 414 175 136 42 9 tfor:TF0361|3end_hypothetical_protein_379810..379960_POSITIVE 402 160 111 51 2 tfor:TF2172|3end_hypothetical_protein_2346135..2346285_POSITIVE