Origin IGS: gttctgttcaacaatcttttacgaagcacaaaagtacataaaaaaaaggattcacgtaccgcgagcctccgcaaaaagcggggtaagaaacagtccttcggatgtttgtttgaattatgttatgccgtgtaggggcgaacacaaggttcgcccctacacggcataacataattcaattgttaatggttaattgtcaattgtcataccaggtacatgattcggcgtgtaccacgcataacaattaaccattgacaattaacaattaat .........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 attaattgttaattgtcaatggttaattgttatgcgtggtacacgccgaatcatgtacctggtatgacaattgacaattaaccattaacaattgaattatgttatgccgtgtaggggcgaaccttgtgttcgcccctacacggcataacataattcaaacaaacatccgaaggactgtttcttaccccgctttttgcggaggctcgcggtacgtgaatccttttttttatgtacttttgtgcttcgtaaaagattgttgaacagaac Mask Tandem Repeat Region ================================================ gttctgttcaacaatcttttacgaagcacaaaagtacataaaaaaaaggattcacgtaccgcgagcctccgcaaaaagcggggtaagaaacagtccttcggatgtttgtttgaattatgttatgccgtgtaggggcgaacacaaggttcgcccctacacggcataacataattcaattgttaatggttaattgtcaattgtcataccaggtacatgattcggcgtgtaccacgcataacaattaaccattgacaattaacaattaat Find is-nt database================================================ Query_seq: TF2993:TF2994|TF2993:TF2994:SAM-dependent methyltransferase:hypothetical protein:->->:3210478..3210744 267 gttctgttcaacaatcttttacgaagcacaaaagtacataaaaaaaaggattcacgtaccgcgagcctccgcaaaaagcggggtaagaaacagtccttcggatgtttgtttgaattatgttatgccgtgtaggggcgaacacaaggttcgcccctacacggcataacataattcaattgttaatggttaattgtcaattgtcataccaggtacatgattcggcgtgtaccacgcataacaattaaccattgacaattaacaattaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2993:TF2994|TF2993:TF2994:SAM-dependent methyltransferase:hypothetical protein:->->:3210478..3210744 267 gttctgttcaacaatcttttacgaagcacaaaagtacataaaaaaaaggattcacgtaccgcgagcctccgcaaaaagcggggtaagaaacagtccttcggatgtttgtttgaattatgttatgccgtgtaggggcgaacacaaggttcgcccctacacggcataacataattcaattgttaatggttaattgtcaattgtcataccaggtacatgattcggcgtgtaccacgcataacaattaaccattgacaattaacaattaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2993:TF2994|TF2993:TF2994:SAM-dependent methyltransferase:hypothetical protein:->->:3210478..3210744 267 gttctgttcaacaatcttttacgaagcacaaaagtacataaaaaaaaggattcacgtaccgcgagcctccgcaaaaagcggggtaagaaacagtccttcggatgtttgtttgaattatgttatgccgtgtaggggcgaacacaaggttcgcccctacacggcataacataattcaattgttaatggttaattgtcaattgtcataccaggtacatgattcggcgtgtaccacgcataacaattaaccattgacaattaacaattaat Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gttctgttcaacaatcttttacgaagcacaaaagtacataaaaaaaaggattcacgtaccgcgagcctccgcaaaaagcggggtaagaaacagtccttcggatgtttgtttgaattatgttatgccgtgtaggggcgaacacaaggttcgcccctacacggcataacataattcaattgttaatggttaattgtcaattgtcataccaggtacatgattcggcgtgtaccacgcataacaattaaccattgacaattaacaattaat Predict ORF larger than 30AA ================================================ Protein_Len: 42 Strand: + Start: 4 End: 129 ... M F N N L L R S T K V H K K K D S R T A S L R K K R G K K Q S F G C L F E L C Y A V .......................................................................................................................................... Protein_Len: 50 Strand: + Start: 14 End: 163 ............. M F Y E A Q K Y I K K R I H V P R A S A K S G V R N S P S D V C L N Y V M P C R G E H K V R P Y T A ........................................................................................................ Protein_Len: 43 Strand: + Start: 114 End: 242 ................................................................................................................. M M L C R V G A N T R F A P T R H N I I Q L L M V N C Q L S Y Q V H D S A C T T H N N ......................... Protein_Len: 54 Strand: - Start: 11 End: 172 .......... C D K V F C L L V Y F F P N V Y R S G G C F A P Y S V T R R I N T Q I I N H R T P A F V L N A G V R C L M M ............................................................................................... gttctgttcaacaatcttttacgaagcacaaaagtacataaaaaaaaggattcacgtaccgcgagcctccgcaaaaagcggggtaagaaacagtccttcggatgtttgtttgaattatgttatgccgtgtaggggcgaacacaaggttcgcccctacacggcataacataattcaattgttaatggttaattgtcaattgtcataccaggtacatgattcggcgtgtaccacgcataacaattaaccattgacaattaacaattaat 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================================================ gttctgttcaacaatcttttacgaagcacaaaagtacataaaaaaaaggattcacgtaccgcgagcctccgcaaaaagcggggtaagaaacagtccttcggatgtttgtttgaattatgttatgccgtgtaggggcgaacacaaggttcgcccctacacggcataacataattcaattgttaatggttaattgtcaattgtcataccaggtacatgattcggcgtgtaccacgcataacaattaaccattgacaattaacaattaat Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 100 HP_score: -38.6 Tail_Score: -3.30203 Start: 115 End: 171 Full_Region: GGATGTTTGTTTGAA TTATGTTATGCCGTGTAGGGGCGAAC ACAAG GTTCGCCCCTACACGGCATAACATAA TTCAATTGTTAATGG ..................................................................................................................TTATGTTATGCCGTGTAGGGGCGAACACAAGGTTCGCCCCTACACGGCATAACATAA................................................................................................ TransTerm Strand: - Conf: 100 HP_score: -35.9 Tail_Score: -2.70932 Start: 118 End: 168 Full_Region: ttaacaattgaatta tgttatgccgtgtaggggcgaac cttgt gttcgcccctacacggcataaca taattcaaacaaaca .....................................................................................................................tgttatgccgtgtaggggcgaaccttgtgttcgcccctacacggcataaca................................................................................................... Find igs database================================================ Query_seq: TF2993:TF2994|TF2993:TF2994:SAM-dependent methyltransferase:hypothetical protein:->->:3210478..3210744 267 gttctgttcaacaatcttttacgaagcacaaaagtacataaaaaaaaggattcacgtaccgcgagcctccgcaaaaagcggggtaagaaacagtccttcggatgtttgtttgaattatgttatgccgtgtaggggcgaacacaaggttcgcccctacacggcataacataattcaattgttaatggttaattgtcaattgtcataccaggtacatgattcggcgtgtaccacgcataacaattaaccattgacaattaacaattaat Intra-Species Hit: Count: 4 Min: 1 Max: 267 Len: 267 Subject: tfor_TF2993_TF2994|SAM-dependent methyltransferase:hypothetical protein|POSITIVE:POSITIVE|[3210478,3210744]|267 HSP 1 e-value: 1.0E-135 bit: 482.0 Len: 267 Query Start:1 Query End:267 Subject Strand: POSITIVE Subject Start: 1 Subject End: 267 gttctgttcaacaatcttttacgaagcacaaaagtacatnnnnnnnnggattcacgtaccgcgagcctccgcaaaaagcggggtaagaaacagtccttcggatgtttgtttgaattatgttatgccgtgtaggggcgaacacaaggttcgcccctacacggcataacataattcaattgttaatggttaattgtcaattgtcataccaggtacatgattcggcgtgtaccacgcataacaattaaccattgacaattaacaattaat gttctgttcaacaatcttttacgaagcacaaaagtacataaaaaaaaggattcacgtaccgcgagcctccgcaaaaagcggggtaagaaacagtccttcggatgtttgtttgaattatgttatgccgtgtaggggcgaacacaaggttcgcccctacacggcataacataattcaattgttaatggttaattgtcaattgtcataccaggtacatgattcggcgtgtaccacgcataacaattaaccattgacaattaacaattaat HSP 2 e-value: 3.0E-18 bit: 93.7 Len: 67 Query Start:110 Query End:176 Subject Strand: NEGATIVE Subject Start: 110 Subject End: 176 .............................................................................................................ttgaattatgttatgccgtgtaggggcgaacacaaggttcgcccctacacggcataacataattcaa........................................................................................... .............................................................................................................ttgaattatgttatgccgtgtaggggcgaaccttgtgttcgcccctacacggcataacataattcaa........................................................................................... Subject: tfor_TF2996_TF2997|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[3211182,3211547]|366 HSP 1 e-value: 3.0E-43 bit: 176.0 Len: 135 Query Start:133 Query End:267 Subject Strand: POSITIVE Subject Start: 88 Subject End: 215 ....................................................................................................................................gggcgaacacaaggttcgcccctacacggcataacataattcaattgttaatggttaattgtcaattgtcataccaggtacatgattcggcgtgtaccacgcataacaattaaccattgacaattaacaattaat ....................................................................................................................................gggcgaacacaaggttcgcccctacacggcataacataattcaattgtcaatggtt-------aattgttataccaggtacatgattcggcgtgtaccacgcataaccattgacaattgacaattaacaattaat HSP 2 e-value: 5.0E-23 bit: 109.0 Len: 55 Query Start:213 Query End:267 Subject Strand: POSITIVE Subject Start: 218 Subject End: 272 ....................................................................................................................................................................................................................catgattcggcgtgtaccacgcataacaattaaccattgacaattaacaattaat ....................................................................................................................................................................................................................catgattcggcgtgtaccacgcataacaattaaccattgacaattaacaattaat HSP 3 e-value: 1.0E-8 bit: 61.9 Len: 31 Query Start:110 Query End:140 Subject Strand: NEGATIVE Subject Start: 101 Subject End: 131 .............................................................................................................ttgaattatgttatgccgtgtaggggcgaac............................................................................................................................... .............................................................................................................ttgaattatgttatgccgtgtaggggcgaac............................................................................................................................... Subject: tfor_TF2816_TF2817|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[3007245,3007497]|253 HSP 1 e-value: 2.0E-19 bit: 97.6 Len: 57 Query Start:211 Query End:267 Subject Strand: NEGATIVE Subject Start: 182 Subject End: 238 ..................................................................................................................................................................................................................tacatgattcggcgtgtaccacgcataacaattaaccattgacaattaacaattaat ..................................................................................................................................................................................................................tacatgattcggcgtgtaccacgcataataattgaccattgacaattaacaattaat HSP 2 e-value: 6.0E-7 bit: 56.0 Len: 36 Query Start:166 Query End:201 Subject Strand: POSITIVE Subject Start: 11 Subject End: 46 .....................................................................................................................................................................acataattcaattgttaatggttaattgtcaattgt.................................................................. .....................................................................................................................................................................acataattcaattgttaatggtcaattgttaattgt.................................................................. Subject: tfor_TF1846_TF1847|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[1997076,1997528]|453 HSP 1 e-value: 4.0E-14 bit: 79.8 Len: 56 Query Start:211 Query End:266 Subject Strand: NEGATIVE Subject Start: 78 Subject End: 133 ..................................................................................................................................................................................................................tacatgattcggcgtgtaccacgcataacaattaaccattgacaattaacaattaa. ..................................................................................................................................................................................................................tacatgattcggcgtgtaccacgcataaccattaaccattaaccattgacaattaa. HSP 2 e-value: 1.0E-5 bit: 52.0 Len: 26 Query Start:133 Query End:158 Subject Strand: NEGATIVE Subject Start: 163 Subject End: 188 ....................................................................................................................................gggcgaacacaaggttcgcccctaca............................................................................................................. ....................................................................................................................................gggcgaacacaaggttcgcccctaca............................................................................................................. Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GUUCUGUUCAACAAUCUUUUACGAAGCACAAAAGUACAUAAAAAAAAGGAUUCACGUACCGCGAGCCUCCGCAAAAAGCGGGGUAAGAAACAGUCCUUCGGAUGUUUGUUUGAAUUAUGUUAUGCCGUGUAGGGGCGAACACAAGGUUCGCCCCUACACGGCAUAACAUAAUUCAAUUGUUAAUGGUUAAUUGUCAAUUGUCAUACCAGGUACAUGAUUCGGCGUGUACCACGCAUAACAAUUAACCAUUGACAAUUAACAAUUAAU ....((((.(((((.(.....(((((.((....((((..................)))).....(((.((((.....)))))))........)).)))))...).)))))((((((((((((((((((((((((((((((.....)))))))))))))))))))))))))))))).((((((((((((((((((....(((.......((((((((......))))))))..)))..))))))))))))))))))..))))...... (-109.27) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AUUAAUUGUUAAUUGUCAAUGGUUAAUUGUUAUGCGUGGUACACGCCGAAUCAUGUACCUGGUAUGACAAUUGACAAUUAACCAUUAACAAUUGAAUUAUGUUAUGCCGUGUAGGGGCGAACCUUGUGUUCGCCCCUACACGGCAUAACAUAAUUCAAACAAACAUCCGAAGGACUGUUUCUUACCCCGCUUUUUGCGGAGGCUCGCGGUACGUGAAUCCUUUUUUUUAUGUACUUUUGUGCUUCGUAAAAGAUUGUUGAACAGAAC .......(((((((((((((.......((((((((..((((((.(......).))))))..)))))))))))))))))))))..((((((((((((((((((((((((((((((((((((((.....)))))))))))))))))))))))))))))...........(((((.((.........((((((.....)))).)).....((((((((((........))))))))))...)).))))).....)))))))))....... (-116.41) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 725 260 211 156 107 tfor:TF2817|5end_hypothetical_protein_3007358..3007588_POSITIVE 710 250 206 201 157 tfor:TF0679|5end_hypothetical_protein_721155..721385_POSITIVE 710 250 206 149 105 tfor:TF0678|5end_hypothetical_protein_721103..721333_POSITIVE 661 260 218 116 70 tfor:TF1846|5end_hypothetical_protein_1996726..1996956_POSITIVE 661 250 206 163 119 tfor:TF0822|5end_hypothetical_protein_880487..880717_POSITIVE 661 250 206 163 119 tfor:TF0821|5end_hypothetical_protein_879879..880109_POSITIVE 625 239 196 183 140 tfor:TF1655|5end_long-chain-fatty-acid-CoA_ligase_1769279..1769509_POSITIVE 623 176 133 60 19 tfor:TF2438|5end_hypothetical_protein_2615781..2616011_POSITIVE 616 250 201 168 120 tfor:TF2796|5end_cytochrome_D_ubiquinol_oxidase,_subunit_II_2981269..2981499_POSITIVE 577 260 218 103 55 tfor:TF0828|5end_hypothetical_protein_887090..887320_POSITIVE 573 250 206 194 150 tfor:TF2191|5end_hypothetical_protein_2365934..2366164_POSITIVE 573 164 125 77 41 tfor:TF1577|5end_hypothetical_protein_1685960..1686190_POSITIVE 529 247 202 162 114 tfor:TF1260|5end_chaperone_protein_DnaJ_1345325..1345555_POSITIVE 520 257 218 107 64 tfor:TF1842|5end_hypothetical_protein_1992571..1992801_POSITIVE 515 260 215 102 54 tfor:TF1183|5end_hypothetical_protein_1268391..1268621_POSITIVE 497 239 191 171 123 tfor:TF1716|5end_hypothetical_protein_1837442..1837672_POSITIVE 496 152 121 231 200 tfor:TF0471|5end_conserved_hypothetical_protein_487516..487746_POSITIVE 472 253 218 231 192 tfor:TF2818|5end_acetylornithine_aminotransferase_3007739..3007969_POSITIVE 470 259 216 231 190 tfor:TF1850|5end_Na+/H+-exchanging_protein_1998542..1998772_POSITIVE 462 260 211 189 141 tfor:TF2202|5end_hypothetical_protein_2378682..2378912_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 661 250 206 146 102 tfor:TF0820|3end_hypothetical_protein_879942..880092_POSITIVE 629 239 191 140 92 tfor:TF2840|3end_hypothetical_protein_3031289..3031439_POSITIVE 541 260 220 45 1 tfor:TF2817|3end_hypothetical_protein_3007626..3007776_POSITIVE 484 158 131 65 37 tfor:TF1838|3end_tRNA/rRNA_methyltransferase_1988745..1988895_POSITIVE 470 169 122 139 96 tfor:TF2651|3end_hypothetical_protein_2822014..2822164_POSITIVE 461 260 219 83 38 tfor:TF1483|3end_glycosyltransferase_family_protein_1578825..1578975_POSITIVE 454 176 133 74 28 tfor:TF2615|3end_conserved_hypothetical_protein_2791209..2791359_POSITIVE 451 164 121 116 67 tfor:TF1716|3end_hypothetical_protein_1837710..1837860_POSITIVE 429 150 121 151 122 tfor:TF0470|3end_hypothetical_protein_487518..487668_POSITIVE 414 220 171 116 65 tfor:TF2996|3end_hypothetical_protein_3211121..3211271_POSITIVE 407 216 175 49 8 tfor:TF0469|3end_hypothetical_protein_487228..487378_POSITIVE 397 260 211 121 77 tfor:TF3003|3end_hypothetical_protein_3220629..3220779_POSITIVE 390 167 124 108 66 tfor:TF1168|3end_hypothetical_protein_1249092..1249242_POSITIVE 384 260 223 42 5 tfor:TF0021|3end_outer_membrane_phospholipase_A_16919..17069_POSITIVE 377 153 111 146 102 tfor:TF1579|3end_hypothetical_protein_1687274..1687424_POSITIVE 367 162 132 81 46 tfor:TF0537|3end_conserved_hypothetical_protein_566836..566986_POSITIVE 365 155 114 69 23 tfor:TF0541|3end_conserved_hypothetical_protein_571858..572008_POSITIVE 357 166 121 75 26 tfor:TF1683|3end_conserved_hypothetical_protein_1796511..1796661_POSITIVE 349 140 95 147 96 tfor:TF2746|3end_hypothetical_protein_2928246..2928396_POSITIVE 346 100 51 54 9 tfor:TF2702|3end_hypothetical_protein_2876136..2876286_POSITIVE