Origin IGS: tataattaaaaaaatgataaaatattataaaattaataggcaatatagccttagttgacagttttaaaaatatgagagacataaaagagctgcataaaataatgactgaagggggaaaaaataa .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ttattttttcccccttcagtcattattttatgcagctcttttatgtctctcatatttttaaaactgtcaactaaggctatattgcctattaattttataatattttatcatttttttaattata Mask Tandem Repeat Region ================================================ tataattaaaaaaatgataaaatattataaaattaataggcaatatagccttagttgacagttttaaaaatatgagagacataaaagagctgcataaaataatgactgaagggggaaaaaataa Find is-nt database================================================ Query_seq: TDE0527:TDE0528|TDE0527:TDE0528:hypothetical protein:hypothetical protein:->->:573222..573345 124 tataattaaaaaaatgataaaatattataaaattaataggcaatatagccttagttgacagttttaaaaatatgagagacataaaagagctgcataaaataatgactgaagggggaaaaaataa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TDE0527:TDE0528|TDE0527:TDE0528:hypothetical protein:hypothetical protein:->->:573222..573345 124 tataattaaaaaaatgataaaatattataaaattaataggcaatatagccttagttgacagttttaaaaatatgagagacataaaagagctgcataaaataatgactgaagggggaaaaaataa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TDE0527:TDE0528|TDE0527:TDE0528:hypothetical protein:hypothetical protein:->->:573222..573345 124 tataattaaaaaaatgataaaatattataaaattaataggcaatatagccttagttgacagttttaaaaatatgagagacataaaagagctgcataaaataatgactgaagggggaaaaaataa Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tataattaaaaaaatgataaaatattataaaattaataggcaatatagccttagttgacagttttaaaaatatgagagacataaaagagctgcataaaataatgactgaagggggaaaaaataa Predict ORF larger than 30AA ================================================ Protein_Len: 33 Strand: + Start: 24 End: 122 ....................... M I K L I G N I A L V D S F K N M R D I K E L H K I M T E G G K N .. Protein_Len: 34 Strand: - Start: 2 End: 103 . Y N F F H Y F I I F N I P L I A K T S L K L F I L S M F S S C L I M ..................... tataattaaaaaaatgataaaatattataaaattaataggcaatatagccttagttgacagttttaaaaatatgagagacataaaagagctgcataaaataatgactgaagggggaaaaaataa 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================================================ tataattaaaaaaatgataaaatattataaaattaataggcaatatagccttagttgacagttttaaaaatatgagagacataaaagagctgcataaaataatgactgaagggggaaaaaataa Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TDE0527:TDE0528|TDE0527:TDE0528:hypothetical protein:hypothetical protein:->->:573222..573345 124 tataattaaaaaaatgataaaatattataaaattaataggcaatatagccttagttgacagttttaaaaatatgagagacataaaagagctgcataaaataatgactgaagggggaaaaaataa Intra-Species Hit: Count: 1 Min: 15 Max: 124 Len: 110 Subject: NC_002967_TDE0527_TDE0528|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[573222,573345]|124 HSP 1 e-value: 3.0E-56 bit: 218.0 Len: 110 Query Start:15 Query End:124 Subject Strand: POSITIVE Subject Start: 15 Subject End: 124 ..............tgataaaatattataaaattaataggcaatatagccttagttgacagttttaaaaatatgagagacataaaagagctgcataaaataatgactgaagggggaaaaaataa ..............tgataaaatattataaaattaataggcaatatagccttagttgacagttttaaaaatatgagagacataaaagagctgcataaaataatgactgaagggggaaaaaataa Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAUAAAAUAUUAUAAAAUUAAUAGGCAAUAUAGCCUUAGUUGACAGUUUUAAAAAUAUGAGAGACAUAAAAGAGCUGCAUAAAAUAAUGACUGAAGGGGGAAAAAAUAA ........((((((.........((((......))))....((.(((((((.....((((.....))))..)))))))))....)))))).................... (-12.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUAUUUUUUCCCCCUUCAGUCAUUAUUUUAUGCAGCUCUUUUAUGUCUCUCAUAUUUUUAAAACUGUCAACUAAGGCUAUAUUGCCUAUUAAUUUUAUAAUAUUUUAUCA ................((((........((((.((..(......)...))))))........)))).......((((......))))....................... ( -9.49) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 270 85 45 44 1 NC_002967:TDE1129|5end_lipoprotein,_putative_1161730..1161960_POSITIVE 264 80 41 44 6 NC_002967:TDE2130|5end_hypothetical_protein_2162059..2162289_NEGATIVE 241 78 35 48 3 NC_002967:TDE0008|5end_copper-translocating_P-type_ATPase_10891..11121_POSITIVE 231 79 46 49 18 NC_002967:TDE0423|5end_hypothetical_protein_476601..476831_POSITIVE 226 102 76 40 10 NC_002967:TDE1233|5end_hypothetical_protein_1267203..1267433_POSITIVE 224 99 59 200 152 NC_002967:TDE0189|5end_hypothetical_protein_226460..226690_NEGATIVE 211 79 33 46 5 NC_002967:TDE2566|5end_hypothetical_protein_2594187..2594417_NEGATIVE 210 64 21 121 74 NC_002967:TDE1194|5end_hypothetical_protein_1224973..1225203_POSITIVE 208 80 34 68 19 NC_002967:TDE1335|5end_alginate_O-acetylation_protein,_putative_1370816..1371046_POSITIVE 207 67 25 225 189 NC_002967:TDE2057|5end_hypothetical_protein_2085343..2085573_NEGATIVE 207 101 63 37 1 NC_002967:TDE1686|5end_3-phosphoshikimate_1-carboxyvinyltransferase_1741763..1741993_NEGATIVE 207 91 55 66 28 NC_002967:TDE0421|5end_lipoprotein,_putative_473416..473646_POSITIVE 207 104 68 33 2 NC_002967:TDE0052|5end_flagellar_biosynthetic_protein_FliQ_61305..61535_POSITIVE 205 102 71 30 2 NC_002967:TDE0089|5end_transglutaminase-like_domain_protein_108554..108784_NEGATIVE 204 85 45 64 19 NC_002967:TDE0252|5end_hypothetical_protein_286263..286493_POSITIVE 203 88 44 54 6 NC_002967:TDE2014|5end_ankyrin_repeat_protein_2036421..2036651_NEGATIVE 203 108 76 126 99 NC_002967:TDE1692|5end_hypothetical_protein_1748293..1748523_POSITIVE 200 46 24 42 19 NC_002967:TDE0623|5end_precorrin-3B_C17-methyltransferase_655783..656013_POSITIVE 198 105 67 36 3 NC_002967:TDE0284|5end_hypothetical_protein_313428..313658_NEGATIVE 196 78 35 160 102 NC_002967:TDE0178|5end_methyl-accepting_chemotaxis_protein_212628..212858_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 217 80 40 52 20 NC_002967:TDE0754|3end_hypothetical_protein_794507..794657_POSITIVE 213 69 29 43 6 NC_002967:TDE2015|3end_lipoprotein,_putative_2036411..2036561_NEGATIVE 213 50 22 137 108 NC_002967:TDE1386|3end_methyl-accepting_chemotaxis_protein_1426856..1427006_POSITIVE 212 66 25 62 24 NC_002967:TDE2577|3end_hypothetical_protein_2602490..2602640_NEGATIVE 210 79 32 69 13 NC_002967:TDE0151|3end_integral_membrane_protein,_YeeE/YedE_family_171845..171995_NEGATIVE 207 91 55 55 17 NC_002967:TDE0420|3end_hypothetical_protein_473485..473635_POSITIVE 206 100 56 50 9 NC_002967:TDE1263|3end_hypothetical_protein_1298136..1298286_POSITIVE 205 102 71 40 12 NC_002967:TDE0090|3end_hypothetical_protein_108544..108694_NEGATIVE 198 100 60 70 22 NC_002967:TDE1893|3end_GTP-binding_protein_LepA_1912212..1912362_NEGATIVE 198 101 71 40 8 NC_002967:TDE1687|3end_hypothetical_protein_1741760..1741910_NEGATIVE 195 88 56 46 12 NC_002967:TDE2567|3end_hypothetical_protein_2594198..2594348_NEGATIVE 192 79 34 84 41 NC_002967:TDE0318|3end_hypothetical_protein_351476..351626_POSITIVE 190 92 58 90 54 NC_002967:TDE2711|3end_hypothetical_protein_2768991..2769141_POSITIVE 188 102 78 44 18 NC_002967:TDE0585|3end_hypothetical_protein_623138..623288_NEGATIVE 188 66 24 110 58 NC_002967:TDE0225|3end_prevent-host-death_family_protein_256105..256255_NEGATIVE 187 74 35 61 18 NC_002967:TDE2537|3end_hypothetical_protein_2563858..2564008_POSITIVE 187 101 62 146 98 NC_002967:TDE0824|3end_lipoprotein,_putative_845226..845376_NEGATIVE 187 79 43 38 2 NC_002967:TDE0407|3end_glutamate_synthase_(NADPH),_homotetrameric_459011..459161_NEGATIVE 186 99 72 143 108 NC_002967:TDE2094|3end_hypothetical_protein_2121077..2121227_NEGATIVE 186 100 55 80 34 NC_002967:TDE1249|3end_hypothetical_protein_1284540..1284690_POSITIVE