Origin IGS: tgatcccttaaaagaaaaataaacttagagctattctatataaaaaaaaaacttgcttttttagaaatagaagaacagaccgtttgttggcgacttttcc .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 ggaaaagtcgccaacaaacggtctgttcttctatttctaaaaaagcaagttttttttttatatagaatagctctaagtttatttttcttttaagggatca Mask Tandem Repeat Region ================================================ tgatcccttaaaagaaaaataaacttagagctattctatataaaaaaaaaacttgcttttttagaaatagaagaacagaccgtttgttggcgacttttcc Find is-nt database================================================ Query_seq: TF1020:TF1021|TF1020:TF1021:conserved hypothetical protein; possible ABC transporter permease:hypothetical protein:->->:1077553..1077652 100 tgatcccttaaaagaaaaataaacttagagctattctatataaaaaaaaaacttgcttttttagaaatagaagaacagaccgtttgttggcgacttttcc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1020:TF1021|TF1020:TF1021:conserved hypothetical protein; possible ABC transporter permease:hypothetical protein:->->:1077553..1077652 100 tgatcccttaaaagaaaaataaacttagagctattctatataaaaaaaaaacttgcttttttagaaatagaagaacagaccgtttgttggcgacttttcc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1020:TF1021|TF1020:TF1021:conserved hypothetical protein; possible ABC transporter permease:hypothetical protein:->->:1077553..1077652 100 tgatcccttaaaagaaaaataaacttagagctattctatataaaaaaaaaacttgcttttttagaaatagaagaacagaccgtttgttggcgacttttcc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tgatcccttaaaagaaaaataaacttagagctattctatataaaaaaaaaacttgcttttttagaaatagaagaacagaccgtttgttggcgacttttcc Predict ORF larger than 30AA ================================================ tgatcccttaaaagaaaaataaacttagagctattctatataaaaaaaaaacttgcttttttagaaatagaagaacagaccgtttgttggcgacttttcc 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================================================ tgatcccttaaaagaaaaataaacttagagctattctatataaaaaaaaaacttgcttttttagaaatagaagaacagaccgtttgttggcgacttttcc Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 38 HP_score: -2.0 Tail_Score: -2.76771 Start: 26 End: 38 Full_Region: agttttttttttata taga atagc tcta agtttatttttcttt .........................tagaatagctcta.............................................................. Find igs database================================================ Query_seq: TF1020:TF1021|TF1020:TF1021:conserved hypothetical protein; possible ABC transporter permease:hypothetical protein:->->:1077553..1077652 100 tgatcccttaaaagaaaaataaacttagagctattctatataaaaaaaaaacttgcttttttagaaatagaagaacagaccgtttgttggcgacttttcc Intra-Species Hit: Count: 1 Min: 1 Max: 100 Len: 100 Subject: tfor_TF1020_TF1021|conserved hypothetical protein; possible ABC transporter permease:hypothetical protein|POSITIVE:POSITIVE|[1077553,1077652]|100 HSP 1 e-value: 2.0E-32 bit: 139.0 Len: 100 Query Start:1 Query End:100 Subject Strand: POSITIVE Subject Start: 1 Subject End: 100 tgatcccttaaaagaaaaataaacttagagctattctatatnnnnnnnnnncttgcttttttagaaatagaagaacagaccgtttgttggcgacttttcc tgatcccttaaaagaaaaataaacttagagctattctatataaaaaaaaaacttgcttttttagaaatagaagaacagaccgtttgttggcgacttttcc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAUCCCUUAAAAGAAAAAUAAACUUAGAGCUAUUCUAUAUAAAAAAAAAACUUGCUUUUUUAGAAAUAGAAGAACAGACCGUUUGUUGGCGACUUUUCC .........(((((...(((((((.(((((...)))))..............(((.(((((((....))))))).)))...))))))).....))))).. (-11.70) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GGAAAAGUCGCCAACAAACGGUCUGUUCUUCUAUUUCUAAAAAAGCAAGUUUUUUUUUUAUAUAGAAUAGCUCUAAGUUUAUUUUUCUUUUAAGGGAUCA ((((((((.......((((.....(((.((((((....(((((((....))))))).....)))))).))).....))))))))))))............ (-13.81) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 278 92 69 118 95 tfor:TF0601|5end_aminomethyltransferase_(glycine_cleavage_system_T_protein)_631081..631311_POSITIVE 275 98 51 164 117 tfor:TF2391|5end_conserved_hypothetical_protein_2562128..2562358_POSITIVE 246 100 69 42 16 tfor:TF0065|5end_conserved_hypothetical_protein_70274..70504_POSITIVE 241 93 55 114 80 tfor:TF3068|5end_flavodoxin_A_3292812..3293042_POSITIVE 238 91 54 51 1 tfor:TF0721|5end_aspartate_transaminase_771353..771583_POSITIVE 233 92 73 227 210 tfor:TF1576|5end_hypothetical_protein_1685852..1686082_POSITIVE 227 100 54 83 43 tfor:TF2982|5end_O-unit_flippase_3196820..3197050_POSITIVE 227 100 69 81 48 tfor:TF2224|5end_CTn_excision_protein_2394592..2394822_POSITIVE 225 100 53 142 82 tfor:TF2453|5end_glutamate_racemase_2630422..2630652_POSITIVE 222 98 51 100 56 tfor:TF2709|5end_hypothetical_protein_2882160..2882390_POSITIVE 222 88 55 98 61 tfor:TF2092|5end_ribonuclease_III_2260949..2261179_POSITIVE 220 98 55 137 88 tfor:TF1961|5end_isoprenoid_biosynthesis_related_protein_2111420..2111650_POSITIVE 220 92 55 76 34 tfor:TF0914|5end_conserved_hypothetical_protein;_possible_ketosteroid_isomerase-related_protein_955332..955562_POSITIVE 219 100 73 30 1 tfor:TF2998|5end_surface_antigen_BspA_3211811..3212041_POSITIVE 219 99 75 193 163 tfor:TF2682|5end_N_utilization_substance_protein_A_2856308..2856538_POSITIVE 219 92 75 38 21 tfor:TF2344|5end_ATP/GTP_binding_protein_2507422..2507652_POSITIVE 218 100 80 126 104 tfor:TF1464|5end_conserved_hypothetical_protein_1553467..1553697_POSITIVE 218 97 62 153 114 tfor:TF0061|5end_hypothetical_protein_62833..63063_POSITIVE 217 95 75 36 17 tfor:TF0411|5end_methyltransferase_428917..429147_POSITIVE 216 93 55 47 2 tfor:TF1907|5end_ADP-heptose:LPS_heptosyltransferase_II_2061579..2061809_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 278 92 69 118 95 tfor:TF0600|3end_oxidoreductase/dehydrogenase_631161..631311_POSITIVE 275 98 51 89 42 tfor:TF2390|3end_conserved_hypothetical_protein_2562133..2562283_POSITIVE 248 95 54 129 83 tfor:TF2914|3end_hypothetical_protein_3109643..3109793_POSITIVE 246 100 69 100 74 tfor:TF0064|3end_conserved_hypothetical_protein_70412..70562_POSITIVE 241 93 55 99 65 tfor:TF3067|3end_conserved_hypothetical_protein_3292877..3293027_POSITIVE 227 100 54 83 43 tfor:TF2981|3end_conserved_hypothetical_protein_3196900..3197050_POSITIVE 227 100 69 41 8 tfor:TF2223|3end_CTn_excision__protein_2394632..2394782_POSITIVE 222 98 51 59 15 tfor:TF2708|3end_DNA_gyrase_subunit_B_2882199..2882349_POSITIVE 222 88 55 92 55 tfor:TF2091|3end_3-oxoacyl-acyl-carrier-protein_synthase_2261023..2261173_POSITIVE 219 92 75 38 21 tfor:TF2343|3end_ribosome_recycling_factor_2507502..2507652_POSITIVE 218 100 80 87 65 tfor:TF1462|3end_erythronate-4-phosphate_dehydrogenase_1553508..1553658_POSITIVE 218 97 62 103 64 tfor:TF0060|3end_conserved_hypothetical_protein_62863..63013_POSITIVE 215 100 56 55 5 tfor:TF2452|3end_outer_membrane_protein,_OmpH_family_2630415..2630565_POSITIVE 215 98 70 136 103 tfor:TF1579|3end_hypothetical_protein_1687274..1687424_POSITIVE 205 100 55 119 64 tfor:TF2911|3end_hypothetical_protein_3106640..3106790_POSITIVE 203 95 66 49 23 tfor:TF2964|3end_type_I_restriction_enzyme_3176273..3176423_POSITIVE 202 93 52 149 108 tfor:TF2378|3end_peptide_chain_release_factor_1_2543871..2544021_POSITIVE 202 100 51 111 52 tfor:TF0998|3end_[acyl-carrier-protein]_S-malonyltransferase_1052977..1053127_POSITIVE 200 94 51 148 104 tfor:TF3123|3end_dTDP-4-dehydrorhamnose_3,5-epimerase_3358721..3358871_POSITIVE 200 100 53 144 84 tfor:TF2383|3end_hypothetical_protein_2548565..2548715_POSITIVE