Origin IGS: gccctttcagggctcttacagcagtcagtcttcagatctgcattccccccttgaagggggggctggggggatgttcatatcaacgtcatgacgggcgaacacagaggttcgcccctacgcggcgtaccgaaatgggaatgcgcccaaccgccccccacaacaactcaatacctcaacaattctcttcacttttcactattcgtttctcacttttcacttcccctgtcattcagagcgaagcgaagaatctttttccttctcctcacgagattcctcactgcgttcggaatgacaaagaggaggcattcataattcgtcattctaatatgcattcagcgaataatcaaacaactcaacatgcaaacgcccttgggactttta .........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 taaaagtcccaagggcgtttgcatgttgagttgtttgattattcgctgaatgcatattagaatgacgaattatgaatgcctcctctttgtcattccgaacgcagtgaggaatctcgtgaggagaaggaaaaagattcttcgcttcgctctgaatgacaggggaagtgaaaagtgagaaacgaatagtgaaaagtgaagagaattgttgaggtattgagttgttgtggggggcggttgggcgcattcccatttcggtacgccgcgtaggggcgaacctctgtgttcgcccgtcatgacgttgatatgaacatccccccagcccccccttcaaggggggaatgcagatctgaagactgactgctgtaagagccctgaaagggc Mask Tandem Repeat Region ================================================ gccctttcagggctcttacagcagtcagtcttcagatctgcattccccccttgaagggggggctggggggatgttcatatcaacgtcatgacgggcgaacacagaggttcgcccctacgcggcgtaccgaaatgggaatgcgcccaaccgccccccacaacaactcaatacctcaacaattctcttcacttttcactattcgtttctcacttttcacttcccctgtcattcagagcgaagcgaagaatctttttccttctcctcacgagattcctcactgcgttcggaatgacaaagaggaggcattcataattcgtcattctaatatgcattcagcgaataatcaaacaactcaacatgcaaacgcccttgggactttta Find is-nt database================================================ Query_seq: TF1592:TF1593|TF1592:TF1593:hypothetical protein:hypothetical protein:->->:1708618..1708998 381 gccctttcagggctcttacagcagtcagtcttcagatctgcattccccccttgaagggggggctggggggatgttcatatcaacgtcatgacgggcgaacacagaggttcgcccctacgcggcgtaccgaaatgggaatgcgcccaaccgccccccacaacaactcaatacctcaacaattctcttcacttttcactattcgtttctcacttttcacttcccctgtcattcagagcgaagcgaagaatctttttccttctcctcacgagattcctcactgcgttcggaatgacaaagaggaggcattcataattcgtcattctaatatgcattcagcgaataatcaaacaactcaacatgcaaacgcccttgggactttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1592:TF1593|TF1592:TF1593:hypothetical protein:hypothetical protein:->->:1708618..1708998 381 gccctttcagggctcttacagcagtcagtcttcagatctgcattccccccttgaagggggggctggggggatgttcatatcaacgtcatgacgggcgaacacagaggttcgcccctacgcggcgtaccgaaatgggaatgcgcccaaccgccccccacaacaactcaatacctcaacaattctcttcacttttcactattcgtttctcacttttcacttcccctgtcattcagagcgaagcgaagaatctttttccttctcctcacgagattcctcactgcgttcggaatgacaaagaggaggcattcataattcgtcattctaatatgcattcagcgaataatcaaacaactcaacatgcaaacgcccttgggactttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1592:TF1593|TF1592:TF1593:hypothetical protein:hypothetical protein:->->:1708618..1708998 381 gccctttcagggctcttacagcagtcagtcttcagatctgcattccccccttgaagggggggctggggggatgttcatatcaacgtcatgacgggcgaacacagaggttcgcccctacgcggcgtaccgaaatgggaatgcgcccaaccgccccccacaacaactcaatacctcaacaattctcttcacttttcactattcgtttctcacttttcacttcccctgtcattcagagcgaagcgaagaatctttttccttctcctcacgagattcctcactgcgttcggaatgacaaagaggaggcattcataattcgtcattctaatatgcattcagcgaataatcaaacaactcaacatgcaaacgcccttgggactttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gccctttcagggctcttacagcagtcagtcttcagatctgcattccccccttgaagggggggctggggggatgttcatatcaacgtcatgacgggcgaacacagaggttcgcccctacgcggcgtaccgaaatgggaatgcgcccaaccgccccccacaacaactcaatacctcaacaattctcttcacttttcactattcgtttctcacttttcacttcccctgtcattcagagcgaagcgaagaatctttttccttctcctcacgagattcctcactgcgttcggaatgacaaagaggaggcattcataattcgtcattctaatatgcattcagcgaataatcaaacaactcaacatgcaaacgcccttgggactttta Predict ORF larger than 30AA ================================================ Protein_Len: 37 Strand: + Start: 179 End: 289 .................................................................................................................................................................................. M L F T F H Y S F L T F H F P C H S E R S E E S F S F S S R D S S L R S E ............................................................................................ Protein_Len: 60 Strand: + Start: 79 End: 309 .............................................................................. M N V M T G E H R G S P L R G V P K W E C A Q P P P T T T Q Y L N N S L H F S L F V S H F S L P L S F R A K R R I F F L ........................................................................ Protein_Len: 60 Strand: + Start: 36 End: 380 ................................... M C I P P L K G G L G G C S Y Q R H D G R T Q R F A P T R R T E M G M R P T A P H N N S I P Q Q F S S L F T I R F S L F . Protein_Len: 41 Strand: - Start: 210 End: 332 ................................................................................................................................................................................................................. K E S G R D N L A F R L I K K R R R V L N R V A N P I V F L L C E Y N T M R I H M ................................................. gccctttcagggctcttacagcagtcagtcttcagatctgcattccccccttgaagggggggctggggggatgttcatatcaacgtcatgacgggcgaacacagaggttcgcccctacgcggcgtaccgaaatgggaatgcgcccaaccgccccccacaacaactcaatacctcaacaattctcttcacttttcactattcgtttctcacttttcacttcccctgtcattcagagcgaagcgaagaatctttttccttctcctcacgagattcctcactgcgttcggaatgacaaagaggaggcattcataattcgtcattctaatatgcattcagcgaataatcaaacaactcaacatgcaaacgcccttgggactttta 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: 85 Start: 319 End: 348 ..............................................................................................................................................................................................................................................................................................................................TTTGATTATTCGCTGAATGCATATTAGAAT................................. Predict Promoter with matrix: RpoD-18 score > 80================================================ Predict Promoter with matrix: RpoD-19 score > 80================================================ Predict Promoter with matrix: RpoN score > 80================================================ gccctttcagggctcttacagcagtcagtcttcagatctgcattccccccttgaagggggggctggggggatgttcatatcaacgtcatgacgggcgaacacagaggttcgcccctacgcggcgtaccgaaatgggaatgcgcccaaccgccccccacaacaactcaatacctcaacaattctcttcacttttcactattcgtttctcacttttcacttcccctgtcattcagagcgaagcgaagaatctttttccttctcctcacgagattcctcactgcgttcggaatgacaaagaggaggcattcataattcgtcattctaatatgcattcagcgaataatcaaacaactcaacatgcaaacgcccttgggactttta Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 48 HP_score: -3.9 Tail_Score: -3.26471 Start: 84 End: 124 Full_Region: attcccatttcggta cgccgcgtaggggcgaac ctctgt gttcgcccgtcatgacg ttgatatgaacatcc ...................................................................................cgccgcgtaggggcgaacctctgtgttcgcccgtcatgacg................................................................................................................................................................................................................................................................. Find igs database================================================ Query_seq: TF1592:TF1593|TF1592:TF1593:hypothetical protein:hypothetical protein:->->:1708618..1708998 381 gccctttcagggctcttacagcagtcagtcttcagatctgcattccccccttgaagggggggctggggggatgttcatatcaacgtcatgacgggcgaacacagaggttcgcccctacgcggcgtaccgaaatgggaatgcgcccaaccgccccccacaacaactcaatacctcaacaattctcttcacttttcactattcgtttctcacttttcacttcccctgtcattcagagcgaagcgaagaatctttttccttctcctcacgagattcctcactgcgttcggaatgacaaagaggaggcattcataattcgtcattctaatatgcattcagcgaataatcaaacaactcaacatgcaaacgcccttgggactttta Intra-Species Hit: Count: 4 Min: 1 Max: 381 Len: 381 Subject: tfor_TF1592_TF1593|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[1708618,1708998]|381 HSP 1 e-value: 1.0E-175 bit: 617.0 Len: 311 Query Start:71 Query End:381 Subject Strand: POSITIVE Subject Start: 71 Subject End: 381 ......................................................................atgttcatatcaacgtcatgacgggcgaacacagaggttcgcccctacgcggcgtaccgaaatgggaatgcgcccaaccgccccccacaacaactcaatacctcaacaattctcttcacttttcactattcgtttctcacttttcacttcccctgtcattcagagcgaagcgaagaatctttttccttctcctcacgagattcctcactgcgttcggaatgacaaagaggaggcattcataattcgtcattctaatatgcattcagcgaataatcaaacaactcaacatgcaaacgcccttgggactttta ......................................................................atgttcatatcaacgtcatgacgggcgaacacagaggttcgcccctacgcggcgtaccgaaatgggaatgcgcccaaccgccccccacaacaactcaatacctcaacaattctcttcacttttcactattcgtttctcacttttcacttcccctgtcattcagagcgaagcgaagaatctttttccttctcctcacgagattcctcactgcgttcggaatgacaaagaggaggcattcataattcgtcattctaatatgcattcagcgaataatcaaacaactcaacatgcaaacgcccttgggactttta HSP 2 e-value: 7.0E-23 bit: 109.0 Len: 55 Query Start:1 Query End:55 Subject Strand: POSITIVE Subject Start: 1 Subject End: 55 gccctttcagggctcttacagcagtcagtcttcagatctgcattccccccttgaa...................................................................................................................................................................................................................................................................................................................................... gccctttcagggctcttacagcagtcagtcttcagatctgcattccccccttgaa...................................................................................................................................................................................................................................................................................................................................... Subject: tfor_TF1590_TF1591|hypothetical protein:surface antigen BspA|POSITIVE:POSITIVE|[1706104,1706526]|423 HSP 1 e-value: 1.0E-120 bit: 434.0 Len: 238 Query Start:71 Query End:308 Subject Strand: POSITIVE Subject Start: 97 Subject End: 335 ......................................................................atgttcatatcaacgtcatgacgggcgaacacagaggttcgcccctacgcggcgtaccgaaatgggaatgcgcccaaccgccccccacaacaactcaatacctcaacaattctcttcacttttcactattcgtttctcacttttcacttcccctgtcattcagagcg-aagcgaagaatctttttccttctcctcacgagattcctcactgcgttcggaatgacaaagaggaggcattc......................................................................... ......................................................................atgttcatatcaacgtcatgacgggcgaacacagaggttcgcccctacgcggcgtaccgaaatgggaatgcgcccaaccgccccccacaacaactcaatacctcaacaattctcttcacttttcactattcgtttctcacttttcacttcccttgtcattcagagcgtaagcgaagaatctttttccttttcctcacgagattcctcactgcgttcggaatgacaaagaggaagcattc......................................................................... HSP 2 e-value: 4.0E-6 bit: 54.0 Len: 35 Query Start:283 Query End:317 Subject Strand: POSITIVE Subject Start: 333 Subject End: 367 ..........................................................................................................................................................................................................................................................................................ttcggaatgacaaagaggaggcattcataattcgt................................................................ ..........................................................................................................................................................................................................................................................................................ttcggaatgacaaagaggaggcgttcgtaattcgt................................................................ Subject: tfor_TF1588_TF1589|hypothetical protein:surface antigen BspA|POSITIVE:POSITIVE|[1702621,1703328]|708 HSP 1 e-value: 3.0E-99 bit: 363.0 Len: 227 Query Start:71 Query End:297 Subject Strand: POSITIVE Subject Start: 47 Subject End: 272 ......................................................................atgttcatatcaacgtcatgacgggcgaacacagaggttcgcccctacgcggcgtaccgaaatgggaatgcgcccaaccgccccccacaacaactcaatacctcaacaattctcttcacttttcactattcgtttctcacttttcacttcccctgtcattcagagcgaagcgaagaatctttttccttctcctcacgagattcctcactgcgttcggaatgacaaag.................................................................................... ......................................................................atgttcatatcaacgtcatgacgggcgaacacagaggttcgcccctacgcggcgtaccgaaatgggaatgcgcccaaccgccccccacaacaactcaagacctcaacaattctcttcacttttcactattcgtttctcacttttcacttcccttgtcattcagagcgaagcgatgaatctttt-ccttttcggggcgggattcctcactgcgttcggaatgacaaag.................................................................................... HSP 2 e-value: 1.0E-30 bit: 135.0 Len: 79 Query Start:224 Query End:302 Subject Strand: POSITIVE Subject Start: 484 Subject End: 563 ...............................................................................................................................................................................................................................tgtcattcagagcg-aagcgaagaatctttttccttctcctcacgagattcctcactgcgttcggaatgacaaagaggag............................................................................... ...............................................................................................................................................................................................................................tgtcattcagagcgtaagcgaagaatctttttccttttcctcacgagattcctcactgcgttcggaatgacaaagaggag............................................................................... HSP 3 e-value: 9.0E-7 bit: 56.0 Len: 28 Query Start:1 Query End:28 Subject Strand: POSITIVE Subject Start: 366 Subject End: 393 gccctttcagggctcttacagcagtcag................................................................................................................................................................................................................................................................................................................................................................. gccctttcagggctcttacagcagtcag................................................................................................................................................................................................................................................................................................................................................................. HSP 4 e-value: 4.0E-6 bit: 54.0 Len: 35 Query Start:283 Query End:317 Subject Strand: POSITIVE Subject Start: 590 Subject End: 624 ..........................................................................................................................................................................................................................................................................................ttcggaatgacaaagaggaggcattcataattcgt................................................................ ..........................................................................................................................................................................................................................................................................................ttcggaatgacaaagaggaggcgttcgtaattcgt................................................................ Subject: tfor_TF1578_TF1579|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[1686477,1687028]|552 HSP 1 e-value: 4.0E-15 bit: 83.8 Len: 72 Query Start:224 Query End:295 Subject Strand: POSITIVE Subject Start: 48 Subject End: 121 ...............................................................................................................................................................................................................................tgtcattcagagcg-aagcgaagaatct-ttttccttctcctcacgagattcctcactgcgttcggaatgacaa...................................................................................... ...............................................................................................................................................................................................................................tgtcattcagagcgtaagcgaagaatctcttttcctttaccccgcgagattcctcactgcgttcggaatgacaa...................................................................................... HSP 2 e-value: 6.0E-8 bit: 60.0 Len: 30 Query Start:266 Query End:295 Subject Strand: POSITIVE Subject Start: 492 Subject End: 521 .........................................................................................................................................................................................................................................................................cgagattcctcactgcgttcggaatgacaa...................................................................................... .........................................................................................................................................................................................................................................................................cgagattcctcactgcgttcggaatgacaa...................................................................................... HSP 3 e-value: 4.0E-6 bit: 54.0 Len: 31 Query Start:93 Query End:123 Subject Strand: POSITIVE Subject Start: 239 Subject End: 269 ............................................................................................gggcgaacacagaggttcgcccctacgcggc.................................................................................................................................................................................................................................................................. ............................................................................................gggcgaacacagaggttcgcccctacacggc.................................................................................................................................................................................................................................................................. Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GCCCUUUCAGGGCUCUUACAGCAGUCAGUCUUCAGAUCUGCAUUCCCCCCUUGAAGGGGGGGCUGGGGGGAUGUUCAUAUCAACGUCAUGACGGGCGAACACAGAGGUUCGCCCCUACGCGGCGUACCGAAAUGGGAAUGCGCCCAACCGCCCCCCACAACAACUCAAUACCUCAACAAUUCUCUUCACUUUUCACUAUUCGUUUCUCACUUUUCACUUCCCCUGUCAUUCAGAGCGAAGCGAAGAAUCUUUUUCCUUCUCCUCACGAGAUUCCUCACUGCGUUCGGAAUGACAAAGAGGAGGCAUUCAUAAUUCGUCAUUCUAAUAUGCAUUCAGCGAAUAAUCAAACAACUCAACAUGCAAACGCCCUUGGGACUUUUA .(((....(((((.......((((((........)).))))...((((((.....))))))((.((((((............(((((.((..((((((((......))))))))...)).))))).......((((......))))....))))))........................................((((((((............((((((.((((((((.(((((.((.((.(((((((...............))))))).)).)).))))).))))))))..).)))))............(.(((......))))....)))))))).................))....))))).)))....... (-114.46) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAAAGUCCCAAGGGCGUUUGCAUGUUGAGUUGUUUGAUUAUUCGCUGAAUGCAUAUUAGAAUGACGAAUUAUGAAUGCCUCCUCUUUGUCAUUCCGAACGCAGUGAGGAAUCUCGUGAGGAGAAGGAAAAAGAUUCUUCGCUUCGCUCUGAAUGACAGGGGAAGUGAAAAGUGAGAAACGAAUAGUGAAAAGUGAAGAGAAUUGUUGAGGUAUUGAGUUGUUGUGGGGGGCGGUUGGGCGCAUUCCCAUUUCGGUACGCCGCGUAGGGGCGAACCUCUGUGUUCGCCCGUCAUGACGUUGAUAUGAACAUCCCCCCAGCCCCCCCUUCAAGGGGGGAAUGCAGAUCUGAAGACUGACUGCUGUAAGAGCCCUGAAAGGGC .....((((..(((((.((((((.(((.((((....((((..........(((((........(((((....(.((((((((.((((((((((((.((.((.(((((((((((((....)...........)))))))))))).)).)).)))))))))))).........((.....))...........................)))))))).).))))).(((((((..(((.((((....((......))..)))).((((.((((((((......)))))))).).)))...........)))..)))))))..((((((.....)))))).)))))))))....)))))))...)))))).)))))....)))) (-130.40) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 803 309 261 204 158 tfor:TF1842|5end_hypothetical_protein_1992571..1992801_POSITIVE 768 76 37 47 6 tfor:TF0828|5end_hypothetical_protein_887090..887320_POSITIVE 752 300 252 185 134 tfor:TF0542|5end_hypothetical_protein_571918..572148_POSITIVE 743 279 231 154 106 tfor:TF2777|5end_hypothetical_protein_2961595..2961825_POSITIVE 737 76 37 49 9 tfor:TF2745|5end_hypothetical_protein_2927562..2927792_POSITIVE 736 76 37 153 109 tfor:TF3107|5end_hypothetical_protein_3338459..3338689_POSITIVE 736 76 37 49 5 tfor:TF3106|5end_hypothetical_protein_3338355..3338585_POSITIVE 714 75 37 201 162 tfor:TF1840|5end_transposase_1990221..1990451_POSITIVE 712 279 231 92 44 tfor:TF2816|5end_hypothetical_protein_3006925..3007155_POSITIVE 708 280 231 222 172 tfor:TF2817|5end_hypothetical_protein_3007358..3007588_POSITIVE 703 70 22 206 158 tfor:TF0536|5end_conserved_hypothetical_protein_561917..562147_POSITIVE 693 49 1 227 177 tfor:TF2824|5end_nucleoside-transporting_protein_nupG_3014701..3014931_POSITIVE 656 278 231 160 112 tfor:TF1841|5end_hypothetical_protein_1991936..1992166_POSITIVE 643 86 43 222 180 tfor:TF0540|5end_conserved_hypothetical_protein;_possible_surface_protein_567286..567516_POSITIVE 637 129 92 81 45 tfor:TF1577|5end_hypothetical_protein_1685960..1686190_POSITIVE 628 305 266 56 16 tfor:TF1844|5end_hypothetical_protein_1996389..1996619_POSITIVE 627 49 1 230 180 tfor:TF1186|5end_hypothetical_protein_1269568..1269798_POSITIVE 614 296 251 48 2 tfor:TF1660|5end_hypothetical_protein_1775269..1775499_POSITIVE 597 303 266 191 156 tfor:TF1182|5end_hypothetical_protein_1268565..1268795_POSITIVE 576 86 43 57 15 tfor:TF2746|5end_hypothetical_protein_2927996..2928226_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 962 100 51 113 65 tfor:TF2651|3end_hypothetical_protein_2822014..2822164_POSITIVE 795 290 241 76 27 tfor:TF1841|3end_hypothetical_protein_1992267..1992417_POSITIVE 756 78 37 77 30 tfor:TF0828|3end_hypothetical_protein_887508..887658_POSITIVE 745 300 252 78 28 tfor:TF0369|3end_hypothetical_protein_386186..386336_POSITIVE 699 86 43 125 82 tfor:TF0370|3end_hypothetical_protein_386317..386467_POSITIVE 696 304 261 50 7 tfor:TF0541|3end_conserved_hypothetical_protein_571858..572008_POSITIVE 666 49 1 107 57 tfor:TF1182|3end_hypothetical_protein_1268938..1269088_POSITIVE 664 86 43 104 63 tfor:TF0821|3end_hypothetical_protein_880195..880345_POSITIVE 649 280 231 149 99 tfor:TF1483|3end_glycosyltransferase_family_protein_1578825..1578975_POSITIVE 627 49 1 145 95 tfor:TF1185|3end_hypothetical_protein_1269563..1269713_POSITIVE 584 144 102 45 1 tfor:TF1165|3end_conserved_hypothetical_protein_1245921..1246071_POSITIVE 556 256 224 86 54 tfor:TF2817|3end_hypothetical_protein_3007626..3007776_POSITIVE 529 266 224 40 1 tfor:TF0538|3end_hypothetical_protein_567135..567285_POSITIVE 523 69 21 147 106 tfor:TF2816|3end_hypothetical_protein_3007184..3007334_POSITIVE 497 254 224 42 12 tfor:TF3105|3end_hypothetical_protein_3338342..3338492_POSITIVE 496 118 81 64 29 tfor:TF1838|3end_tRNA/rRNA_methyltransferase_1988745..1988895_POSITIVE 487 230 182 106 56 tfor:TF1657|3end_lauroyl/myristoyl_acyltransferase_1773407..1773557_POSITIVE 481 135 91 102 51 tfor:TF1167|3end_hypothetical_protein_1248932..1249082_POSITIVE 474 270 224 68 12 tfor:TF1844|3end_hypothetical_protein_1996693..1996843_POSITIVE 472 128 84 55 5 tfor:TF1834|3end_3-isopropylmalate_dehydrogenase_1984311..1984461_POSITIVE