Origin IGS: gcaaagctaaatgattttgttcgaatttacaaataaaacgaaagacgaagtgtccggaaatatcttctatggcatatggatgttaaaccgtatctttgccgaaagttggaaacatagactggt .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 accagtctatgtttccaactttcggcaaagatacggtttaacatccatatgccatagaagatatttccggacacttcgtctttcgttttatttgtaaattcgaacaaaatcatttagctttgc Mask Tandem Repeat Region ================================================ gcaaagctaaatgattttgttcgaatttacaaataaaacgaaagacgaagtgtccggaaatatcttctatggcatatggatgttaaaccgtatctttgccgaaagttggaaacatagactggt Find is-nt database================================================ Query_seq: TF2398:TF2399|TF2398:TF2399:magnesium chelatase, D/I family:precorrin-2 methyltransferase:->->:2571267..2571389 123 gcaaagctaaatgattttgttcgaatttacaaataaaacgaaagacgaagtgtccggaaatatcttctatggcatatggatgttaaaccgtatctttgccgaaagttggaaacatagactggt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2398:TF2399|TF2398:TF2399:magnesium chelatase, D/I family:precorrin-2 methyltransferase:->->:2571267..2571389 123 gcaaagctaaatgattttgttcgaatttacaaataaaacgaaagacgaagtgtccggaaatatcttctatggcatatggatgttaaaccgtatctttgccgaaagttggaaacatagactggt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2398:TF2399|TF2398:TF2399:magnesium chelatase, D/I family:precorrin-2 methyltransferase:->->:2571267..2571389 123 gcaaagctaaatgattttgttcgaatttacaaataaaacgaaagacgaagtgtccggaaatatcttctatggcatatggatgttaaaccgtatctttgccgaaagttggaaacatagactggt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gcaaagctaaatgattttgttcgaatttacaaataaaacgaaagacgaagtgtccggaaatatcttctatggcatatggatgttaaaccgtatctttgccgaaagttggaaacatagactggt Predict ORF larger than 30AA ================================================ Protein_Len: 37 Strand: + Start: 11 End: 121 .......... M I L F E F T N K T K D E V S G N I F Y G I W M L N R I F A E S W K H R L .. gcaaagctaaatgattttgttcgaatttacaaataaaacgaaagacgaagtgtccggaaatatcttctatggcatatggatgttaaaccgtatctttgccgaaagttggaaacatagactggt 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================================================ gcaaagctaaatgattttgttcgaatttacaaataaaacgaaagacgaagtgtccggaaatatcttctatggcatatggatgttaaaccgtatctttgccgaaagttggaaacatagactggt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF2398:TF2399|TF2398:TF2399:magnesium chelatase, D/I family:precorrin-2 methyltransferase:->->:2571267..2571389 123 gcaaagctaaatgattttgttcgaatttacaaataaaacgaaagacgaagtgtccggaaatatcttctatggcatatggatgttaaaccgtatctttgccgaaagttggaaacatagactggt Intra-Species Hit: Count: 1 Min: 1 Max: 123 Len: 123 Subject: tfor_TF2398_TF2399|magnesium chelatase, D/I family:precorrin-2 methyltransferase|POSITIVE:POSITIVE|[2571267, 2571389]|123 HSP 1 e-value: 6.0E-64 bit: 244.0 Len: 123 Query Start:1 Query End:123 Subject Strand: POSITIVE Subject Start: 1 Subject End: 123 gcaaagctaaatgattttgttcgaatttacaaataaaacgaaagacgaagtgtccggaaatatcttctatggcatatggatgttaaaccgtatctttgccgaaagttggaaacatagactggt gcaaagctaaatgattttgttcgaatttacaaataaaacgaaagacgaagtgtccggaaatatcttctatggcatatggatgttaaaccgtatctttgccgaaagttggaaacatagactggt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GCAAAGCUAAAUGAUUUUGUUCGAAUUUACAAAUAAAACGAAAGACGAAGUGUCCGGAAAUAUCUUCUAUGGCAUAUGGAUGUUAAACCGUAUCUUUGCCGAAAGUUGGAAACAUAGACUGGU .....(((.......(((((........))))).....(....)....)))..((((............(((((...(((((........))))).))))).....((....))....)))). (-20.00) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACCAGUCUAUGUUUCCAACUUUCGGCAAAGAUACGGUUUAACAUCCAUAUGCCAUAGAAGAUAUUUCCGGACACUUCGUCUUUCGUUUUAUUUGUAAAUUCGAACAAAAUCAUUUAGCUUUGC ........................((((((....(((.............))).((((.(((......((((.....))))((((.((((....))))..))))....))).)))).)))))) (-13.72) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 323 82 46 73 28 tfor:TF2722|5end_conserved_hypothetical_protein_2896792..2897022_POSITIVE 300 100 51 217 164 tfor:TF0091|5end_outer_membrane_protein_97701..97931_POSITIVE 295 109 63 116 77 tfor:TF3024|5end_periplasmic_protease_3247204..3247434_POSITIVE 293 90 46 153 111 tfor:TF1909|5end_cobalamin_(5`-phosphate)_synthase_2063207..2063437_POSITIVE 292 108 65 168 125 tfor:TF1767|5end_3-dehydroquinate_synthase_1905492..1905722_POSITIVE 291 100 54 100 50 tfor:TF1240|5end_conserved_hypothetical_protein_1324304..1324534_POSITIVE 290 90 41 76 20 tfor:TF2161|5end_conserved_hypothetical_protein_2336972..2337202_POSITIVE 290 90 45 224 179 tfor:TF1732|5end_conserved_hypothetical_protein_1854619..1854849_POSITIVE 287 100 53 200 156 tfor:TF2801|5end_outer_membrane_protein,_TonB_dependent_receptor_2986285..2986515_POSITIVE 287 85 44 202 163 tfor:TF2081|5end_phosphopantetheine_adenylyltransferase_2248475..2248705_POSITIVE 282 90 46 211 174 tfor:TF1235|5end_L-rhamnose/H+_symporter_1319708..1319938_POSITIVE 280 92 54 227 178 tfor:TF1327|5end_L-fucose_permease_1405790..1406020_POSITIVE 280 110 63 196 150 tfor:TF0617|5end_alpha-1,2-mannosidase_650862..651092_POSITIVE 277 110 63 225 168 tfor:TF2789|5end_enoyl-[acyl-carrier-protein]_reductase_2972431..2972661_POSITIVE 277 75 33 200 156 tfor:TF0144|5end_hypothetical_protein_151209..151439_POSITIVE 275 110 65 63 14 tfor:TF1713|5end_hypothetical_protein_1833442..1833672_POSITIVE 272 110 62 95 41 tfor:TF0879|5end_TraG_family_protein_932023..932253_POSITIVE 272 99 51 55 1 tfor:TF0661|5end_hypothetical_protein_707389..707619_POSITIVE 270 90 46 65 10 tfor:TF2552|5end_50S_ribosomal_protein_L3_2734758..2734988_POSITIVE 267 99 51 124 69 tfor:TF2918|5end_hypothetical_protein_3114084..3114314_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 307 64 21 134 96 tfor:TF0721|3end_aspartate_transaminase_772665..772815_POSITIVE 296 109 68 150 109 tfor:TF2446|3end_riboflavin-specific_deaminase_2623520..2623670_POSITIVE 295 109 63 133 94 tfor:TF3022|3end_chorismate_synthase_3247301..3247451_POSITIVE 290 90 41 73 17 tfor:TF2160|3end_magnesium_chelatase,_subunit_I_2337049..2337199_POSITIVE 276 108 64 54 11 tfor:TF1165|3end_conserved_hypothetical_protein_1245921..1246071_POSITIVE 275 110 65 65 16 tfor:TF1712|3end_conserved_hypothetical_protein_1833524..1833674_POSITIVE 269 74 46 150 112 tfor:TF2721|3end_conserved_hypothetical_protein_2896956..2897106_POSITIVE 267 99 51 121 66 tfor:TF2917|3end_conserved_hypothetical_protein_3114161..3114311_POSITIVE 263 106 64 75 33 tfor:TF1945|3end_glycerate_dehydrogenase_2094277..2094427_POSITIVE 263 78 32 49 7 tfor:TF1372|3end_ISPg4-related_transposase_(IS5_family)_1449960..1450110_POSITIVE 263 80 37 139 84 tfor:TF0239|3end_conserved_hypothetical_protein_270323..270473_POSITIVE 256 86 45 45 3 tfor:TF2326|3end_conserved_hypothetical_protein_2485755..2485905_POSITIVE 253 98 51 145 96 tfor:TF2803|3end_dehydrogenase,_possible_NADH-dependent_dehydrogenase_2993467..2993617_POSITIVE 251 116 71 83 44 tfor:TF3086|3end_conserved_hypothetical_protein_3319949..3320099_POSITIVE 251 90 44 64 11 tfor:TF0599|3end_hypothetical_protein_630130..630280_POSITIVE 248 100 51 148 96 tfor:TF0407|3end_lipoate-protein_ligase_B_(lipoyltransferase)_425844..425994_POSITIVE 247 102 63 70 15 tfor:TF1071|3end_hypothetical_protein_1141687..1141837_POSITIVE 246 90 44 81 15 tfor:TF3154|3end_conserved_hypothetical_protein_3390489..3390639_POSITIVE 244 82 44 53 19 tfor:TF0140|3end_exodeoxyribonuclease_VII,_small_subunit_148483..148633_POSITIVE 243 82 41 93 44 tfor:TF0558|3end_conserved_hypothetical_protein_591062..591212_POSITIVE