Origin IGS: aactttcttgtatgattttatggcgcaaaggtatgaaaattttggatatgctttttccccaacgctccgcttcgctacatattggactgaattaaggcaccctttcagggctgttttttta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taaaaaaacagccctgaaagggtgccttaattcagtccaatatgtagcgaagcggagcgttggggaaaaagcatatccaaaattttcatacctttgcgccataaaatcatacaagaaagtt Mask Tandem Repeat Region ================================================ aactttcttgtatgattttatggcgcaaaggtatgaaaattttggatatgctttttccccaacgctccgcttcgctacatattggactgaattaaggcaccctttcagggctgttttttta Find is-nt database================================================ Query_seq: TF2126:TF2127|TF2126:TF2127:S-adenosylhomocysteine hydrolase:hypothetical protein:->->:2304057..2304177 121 aactttcttgtatgattttatggcgcaaaggtatgaaaattttggatatgctttttccccaacgctccgcttcgctacatattggactgaattaaggcaccctttcagggctgttttttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2126:TF2127|TF2126:TF2127:S-adenosylhomocysteine hydrolase:hypothetical protein:->->:2304057..2304177 121 aactttcttgtatgattttatggcgcaaaggtatgaaaattttggatatgctttttccccaacgctccgcttcgctacatattggactgaattaaggcaccctttcagggctgttttttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2126:TF2127|TF2126:TF2127:S-adenosylhomocysteine hydrolase:hypothetical protein:->->:2304057..2304177 121 aactttcttgtatgattttatggcgcaaaggtatgaaaattttggatatgctttttccccaacgctccgcttcgctacatattggactgaattaaggcaccctttcagggctgttttttta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aactttcttgtatgattttatggcgcaaaggtatgaaaattttggatatgctttttccccaacgctccgcttcgctacatattggactgaattaaggcaccctttcagggctgttttttta Predict ORF larger than 30AA ================================================ Protein_Len: 38 Strand: + Start: 8 End: 121 ....... M Y D F M A Q R Y E N F G Y A F S P T L R F A T Y W T E L R H P F R A V F L Protein_Len: 36 Strand: - Start: 1 End: 108 V K K Y S K I A C L Y S F K P Y A K E G V S R K A V Y Q V S N L C G K M ............. aactttcttgtatgattttatggcgcaaaggtatgaaaattttggatatgctttttccccaacgctccgcttcgctacatattggactgaattaaggcaccctttcagggctgttttttta 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================================================ aactttcttgtatgattttatggcgcaaaggtatgaaaattttggatatgctttttccccaacgctccgcttcgctacatattggactgaattaaggcaccctttcagggctgttttttta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF2126:TF2127|TF2126:TF2127:S-adenosylhomocysteine hydrolase:hypothetical protein:->->:2304057..2304177 121 aactttcttgtatgattttatggcgcaaaggtatgaaaattttggatatgctttttccccaacgctccgcttcgctacatattggactgaattaaggcaccctttcagggctgttttttta Intra-Species Hit: Count: 1 Min: 1 Max: 113 Len: 113 Subject: tfor_TF2126_TF2127|S-adenosylhomocysteine hydrolase:hypothetical protein|POSITIVE:POSITIVE|[2304057,2304177]|121 HSP 1 e-value: 5.0E-58 bit: 224.0 Len: 113 Query Start:1 Query End:113 Subject Strand: POSITIVE Subject Start: 1 Subject End: 113 aactttcttgtatgattttatggcgcaaaggtatgaaaattttggatatgctttttccccaacgctccgcttcgctacatattggactgaattaaggcaccctttcagggctg........ aactttcttgtatgattttatggcgcaaaggtatgaaaattttggatatgctttttccccaacgctccgcttcgctacatattggactgaattaaggcaccctttcagggctg........ Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AACUUUCUUGUAUGAUUUUAUGGCGCAAAGGUAUGAAAAUUUUGGAUAUGCUUUUUCCCCAACGCUCCGCUUCGCUACAUAUUGGACUGAAUUAAGGCACCCUUUCAGGGCUG ..(..(((.(((((......(((.(.(((((((((...........))))))))).).)))..((........))..))))).)))..)......(((.((......))))). (-19.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CAGCCCUGAAAGGGUGCCUUAAUUCAGUCCAAUAUGUAGCGAAGCGGAGCGUUGGGGAAAAAGCAUAUCCAAAAUUUUCAUACCUUUGCGCCAUAAAAUCAUACAAGAAAGUU ..(((((....))).))...............((((..((((((..(((.(((..(((.........)))..))).)))....))))))..)))).................. (-21.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 683 100 52 97 51 tfor:TF1716|5end_hypothetical_protein_1837442..1837672_POSITIVE 632 110 61 121 72 tfor:TF0538|5end_hypothetical_protein_566891..567121_POSITIVE 632 110 61 114 65 tfor:TF0539|5end_hypothetical_protein_566884..567114_POSITIVE 606 90 44 94 46 tfor:TF0679|5end_hypothetical_protein_721155..721385_POSITIVE 596 90 45 180 139 tfor:TF1406|5end_transposase_1481758..1481988_POSITIVE 580 110 68 174 132 tfor:TF2517|5end_hypothetical_protein_2695089..2695319_POSITIVE 543 110 65 217 170 tfor:TF2478|5end_hypothetical_protein_2655375..2655605_POSITIVE 543 94 51 46 2 tfor:TF0678|5end_hypothetical_protein_721103..721333_POSITIVE 508 110 65 187 145 tfor:TF1183|5end_hypothetical_protein_1268391..1268621_POSITIVE 483 110 65 188 145 tfor:TF2824|5end_nucleoside-transporting_protein_nupG_3014701..3014931_POSITIVE 472 90 44 94 57 tfor:TF2191|5end_hypothetical_protein_2365934..2366164_POSITIVE 472 90 44 177 140 tfor:TF0828|5end_hypothetical_protein_887090..887320_POSITIVE 472 90 44 229 192 tfor:TF0823|5end_conserved_hypothetical_protein_880660..880890_POSITIVE 472 90 44 56 19 tfor:TF0822|5end_hypothetical_protein_880487..880717_POSITIVE 458 110 65 191 149 tfor:TF1186|5end_hypothetical_protein_1269568..1269798_POSITIVE 458 110 65 76 34 tfor:TF0821|5end_hypothetical_protein_879879..880109_POSITIVE 453 110 65 214 171 tfor:TF1184|5end_hypothetical_protein_1269004..1269234_POSITIVE 438 70 24 161 119 tfor:TF0307|5end_conserved_hypothetical_protein_332783..333013_POSITIVE 437 110 63 121 74 tfor:TF0534|5end_hypothetical_protein_559509..559739_POSITIVE 416 76 41 72 28 tfor:TF3107|5end_hypothetical_protein_3338459..3338689_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 617 110 62 80 32 tfor:TF2840|3end_hypothetical_protein_3031289..3031439_POSITIVE 464 79 45 150 120 tfor:TF1405|3end_conserved_hypothetical_protein_1481819..1481969_POSITIVE 458 110 65 106 64 tfor:TF1185|3end_hypothetical_protein_1269563..1269713_POSITIVE 458 110 65 59 17 tfor:TF0820|3end_hypothetical_protein_879942..880092_POSITIVE 453 110 65 68 25 tfor:TF1182|3end_hypothetical_protein_1268938..1269088_POSITIVE 447 76 44 40 5 tfor:TF0370|3end_hypothetical_protein_386317..386467_POSITIVE 438 70 24 47 5 tfor:TF0306|3end_transglutaminase-like_enzyme/cysteine_protease_332749..332899_POSITIVE 437 110 63 51 4 tfor:TF0533|3end_hypothetical_protein_559519..559669_POSITIVE 416 76 41 141 97 tfor:TF3106|3end_hypothetical_protein_3338608..3338758_POSITIVE 388 90 48 124 91 tfor:TF2547|3end_hypothetical_protein_2730947..2731097_POSITIVE 333 99 51 149 101 tfor:TF1407|3end_hypothetical_protein_1482441..1482591_POSITIVE 329 71 34 35 4 tfor:TF0828|3end_hypothetical_protein_887508..887658_POSITIVE 329 70 25 125 83 tfor:TF0432|3end_3-deoxy-manno-octulosonate_cytidylyltransferase_453366..453516_POSITIVE 310 80 39 150 98 tfor:TF0117|3end_2-dehydro-3-deoxygluconokinase_129808..129958_POSITIVE 308 63 21 115 81 tfor:TF0301|3end_outer_membrane_protein,_TonB_dependent_receptor_328176..328326_POSITIVE 307 76 57 21 1 tfor:TF0821|3end_hypothetical_protein_880195..880345_POSITIVE 300 97 51 77 34 tfor:TF0369|3end_hypothetical_protein_386186..386336_POSITIVE 297 91 51 90 63 tfor:TF0351|3end_hypothetical_protein_371226..371376_POSITIVE 294 110 61 102 35 tfor:TF1655|3end_long-chain-fatty-acid-CoA_ligase_1771068..1771218_POSITIVE 287 90 49 51 13 tfor:TF1493|3end_thioredoxin_family_protein_1594066..1594216_POSITIVE