Origin IGS: taaacagcttgaacgtttttcctaacacgctccgcatggggctgaactaatgcacccctgcggggctgtttttaaatcgtcaattgtcggttgttaatggctatatagcattcatttgtcagcattctgcattcataattcataatcgttcgttagcattcagcctttccgaggtttggttataaggtgagcctgtgtctctcgtttttgtttgacttcatcacgattacgatcttgcttacccacattttgcatatatgcgaaaaggaactatctttgtgaaaaataaaaaataaaaagtt .........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.........1.........2.........3.........4.........5.........6.........7.........8.........9 aactttttattttttatttttcacaaagatagttccttttcgcatatatgcaaaatgtgggtaagcaagatcgtaatcgtgatgaagtcaaacaaaaacgagagacacaggctcaccttataaccaaacctcggaaaggctgaatgctaacgaacgattatgaattatgaatgcagaatgctgacaaatgaatgctatatagccattaacaaccgacaattgacgatttaaaaacagccccgcaggggtgcattagttcagccccatgcggagcgtgttaggaaaaacgttcaagctgttta Mask Tandem Repeat Region ================================================ taaacagcttgaacgtttttcctaacacgctccgcatggggctgaactaatgcacccctgcggggctgtttttaaatcgtcaattgtcggttgttaatggctatatagcattcatttgtcagcattctgcattcataattcataatcgttcgttagcattcagcctttccgaggtttggttataaggtgagcctgtgtctctcgtttttgtttgacttcatcacgattacgatcttgcttacccacattttgcatatatgcgaaaaggaactatctttgtgaaaaataaaaaataaaaagtt Find is-nt database================================================ Query_seq: TF2342:TF2343|TF2342:TF2343:glutathione peroxidase:ribosome recycling factor:->->:2506700..2507001 302 taaacagcttgaacgtttttcctaacacgctccgcatggggctgaactaatgcacccctgcggggctgtttttaaatcgtcaattgtcggttgttaatggctatatagcattcatttgtcagcattctgcattcataattcataatcgttcgttagcattcagcctttccgaggtttggttataaggtgagcctgtgtctctcgtttttgtttgacttcatcacgattacgatcttgcttacccacattttgcatatatgcgaaaaggaactatctttgtgaaaaataaaaaataaaaagtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF2342:TF2343|TF2342:TF2343:glutathione peroxidase:ribosome recycling factor:->->:2506700..2507001 302 taaacagcttgaacgtttttcctaacacgctccgcatggggctgaactaatgcacccctgcggggctgtttttaaatcgtcaattgtcggttgttaatggctatatagcattcatttgtcagcattctgcattcataattcataatcgttcgttagcattcagcctttccgaggtttggttataaggtgagcctgtgtctctcgtttttgtttgacttcatcacgattacgatcttgcttacccacattttgcatatatgcgaaaaggaactatctttgtgaaaaataaaaaataaaaagtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF2342:TF2343|TF2342:TF2343:glutathione peroxidase:ribosome recycling factor:->->:2506700..2507001 302 taaacagcttgaacgtttttcctaacacgctccgcatggggctgaactaatgcacccctgcggggctgtttttaaatcgtcaattgtcggttgttaatggctatatagcattcatttgtcagcattctgcattcataattcataatcgttcgttagcattcagcctttccgaggtttggttataaggtgagcctgtgtctctcgtttttgtttgacttcatcacgattacgatcttgcttacccacattttgcatatatgcgaaaaggaactatctttgtgaaaaataaaaaataaaaagtt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taaacagcttgaacgtttttcctaacacgctccgcatggggctgaactaatgcacccctgcggggctgtttttaaatcgtcaattgtcggttgttaatggctatatagcattcatttgtcagcattctgcattcataattcataatcgttcgttagcattcagcctttccgaggtttggttataaggtgagcctgtgtctctcgtttttgtttgacttcatcacgattacgatcttgcttacccacattttgcatatatgcgaaaaggaactatctttgtgaaaaataaaaaataaaaagtt Predict ORF larger than 30AA ================================================ Protein_Len: 39 Strand: + Start: 66 End: 182 ................................................................. M F L N R Q L S V V N G Y I A F I C Q H S A F I I H N R S L A F S L S E V W L ........................................................................................................................ Protein_Len: 31 Strand: + Start: 187 End: 279 .......................................................................................................................................................................................... M S L C L S F L F D F I T I T I L L T H I L H I C E K E L S L ....................... Protein_Len: 35 Strand: - Start: 183 End: 287 ...................................................................................................................................................................................... L T L R H R E N K N S K M V I V I K S V W M K C I H S F S S D K H F M ............... Protein_Len: 31 Strand: - Start: 163 End: 255 .................................................................................................................................................................. G K R P K T I L H A Q T E R K Q K V E D R N R D Q K G V N Q M ............................................... taaacagcttgaacgtttttcctaacacgctccgcatggggctgaactaatgcacccctgcggggctgtttttaaatcgtcaattgtcggttgttaatggctatatagcattcatttgtcagcattctgcattcataattcataatcgttcgttagcattcagcctttccgaggtttggttataaggtgagcctgtgtctctcgtttttgtttgacttcatcacgattacgatcttgcttacccacattttgcatatatgcgaaaaggaactatctttgtgaaaaataaaaaataaaaagtt 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================================================ taaacagcttgaacgtttttcctaacacgctccgcatggggctgaactaatgcacccctgcggggctgtttttaaatcgtcaattgtcggttgttaatggctatatagcattcatttgtcagcattctgcattcataattcataatcgttcgttagcattcagcctttccgaggtttggttataaggtgagcctgtgtctctcgtttttgtttgacttcatcacgattacgatcttgcttacccacattttgcatatatgcgaaaaggaactatctttgtgaaaaataaaaaataaaaagtt Predict TransTerm conf > 70================================================ TransTerm Strand: + Conf: 77 HP_score: -6.4 Tail_Score: -4.68593 Start: 26 End: 68 Full_Region: GAACGTTTTTCCTAA CACGCTCCGCATGGGGCTGAA CTAA TGCACCCCTGCGGGGCTG TTTTTAAATCGTCAA .........................CACGCTCCGCATGGGGCTGAACTAATGCACCCCTGCGGGGCTG.......................................................................................................................................................................................................................................... TransTerm Strand: + Conf: 83 HP_score: -9.2 Tail_Score: -3.95883 Start: 29 End: 66 Full_Region: CGTTTTTCCTAACAC GCTCCGCATGGGGCTGAA CTAA TGCACCCCTGCGGGGC TGTTTTTAAATCGTC ............................GCTCCGCATGGGGCTGAACTAATGCACCCCTGCGGGGC............................................................................................................................................................................................................................................ Find igs database================================================ Query_seq: TF2342:TF2343|TF2342:TF2343:glutathione peroxidase:ribosome recycling factor:->->:2506700..2507001 302 taaacagcttgaacgtttttcctaacacgctccgcatggggctgaactaatgcacccctgcggggctgtttttaaatcgtcaattgtcggttgttaatggctatatagcattcatttgtcagcattctgcattcataattcataatcgttcgttagcattcagcctttccgaggtttggttataaggtgagcctgtgtctctcgtttttgtttgacttcatcacgattacgatcttgcttacccacattttgcatatatgcgaaaaggaactatctttgtgaaaaataaaaaataaaaagtt Intra-Species Hit: Count: 1 Min: 1 Max: 281 Len: 281 Subject: tfor_TF2342_TF2343|glutathione peroxidase:ribosome recycling factor|POSITIVE:POSITIVE|[2506700,2507001]|302 HSP 1 e-value: 1.0E-158 bit: 557.0 Len: 281 Query Start:1 Query End:281 Subject Strand: POSITIVE Subject Start: 1 Subject End: 281 taaacagcttgaacgtttttcctaacacgctccgcatggggctgaactaatgcacccctgcggggctgtttttaaatcgtcaattgtcggttgttaatggctatatagcattcatttgtcagcattctgcattcataattcataatcgttcgttagcattcagcctttccgaggtttggttataaggtgagcctgtgtctctcgtttttgtttgacttcatcacgattacgatcttgcttacccacattttgcatatatgcgaaaaggaactatctttgtg..................... taaacagcttgaacgtttttcctaacacgctccgcatggggctgaactaatgcacccctgcggggctgtttttaaatcgtcaattgtcggttgttaatggctatatagcattcatttgtcagcattctgcattcataattcataatcgttcgttagcattcagcctttccgaggtttggttataaggtgagcctgtgtctctcgtttttgtttgacttcatcacgattacgatcttgcttacccacattttgcatatatgcgaaaaggaactatctttgtg..................... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAACAGCUUGAACGUUUUUCCUAACACGCUCCGCAUGGGGCUGAACUAAUGCACCCCUGCGGGGCUGUUUUUAAAUCGUCAAUUGUCGGUUGUUAAUGGCUAUAUAGCAUUCAUUUGUCAGCAUUCUGCAUUCAUAAUUCAUAAUCGUUCGUUAGCAUUCAGCCUUUCCGAGGUUUGGUUAUAAGGUGAGCCUGUGUCUCUCGUUUUUGUUUGACUUCAUCACGAUUACGAUCUUGCUUACCCACAUUUUGCAUAUAUGCGAAAAGGAACUAUCUUUGUG ...((((.((((.((.(((....((((.((((((((.((((.((........))))))))))))))))))...))).)))))))))).(((((......((((....(((......)))..((.....)).......................))))...)))))....(((((..(((((....(((((((..(......((((..((((.((....))..))))..)))).)..)))))))....(((((((....)))))))...))))).))))).. (-72.20) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CACAAAGAUAGUUCCUUUUCGCAUAUAUGCAAAAUGUGGGUAAGCAAGAUCGUAAUCGUGAUGAAGUCAAACAAAAACGAGAGACACAGGCUCACCUUAUAACCAAACCUCGGAAAGGCUGAAUGCUAACGAACGAUUAUGAAUUAUGAAUGCAGAAUGCUGACAAAUGAAUGCUAUAUAGCCAUUAACAACCGACAAUUGACGAUUUAAAAACAGCCCCGCAGGGGUGCAUUAGUUCAGCCCCAUGCGGAGCGUGUUAGGAAAAACGUUCAAGCUGUUUA .....((((((((.......(((....)))....(((.(((.((((...((((((((((..((..(((..............)))...((((((((((....((.......)).)))).)))..)))..)).))))))))))....((....))...))))....((((...(((....)))))))....))).)))...((((.(((...((((((.((((((((((...........))))).))))).)).))))....))).))))..)))))))). (-63.34) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 575 70 21 222 170 tfor:TF2478|5end_hypothetical_protein_2655375..2655605_POSITIVE 569 70 21 193 145 tfor:TF2824|5end_nucleoside-transporting_protein_nupG_3014701..3014931_POSITIVE 551 67 21 189 145 tfor:TF1183|5end_hypothetical_protein_1268391..1268621_POSITIVE 548 67 28 176 137 tfor:TF2517|5end_hypothetical_protein_2695089..2695319_POSITIVE 525 70 28 119 77 tfor:TF0679|5end_hypothetical_protein_721155..721385_POSITIVE 525 70 28 67 25 tfor:TF0678|5end_hypothetical_protein_721103..721333_POSITIVE 513 70 21 219 171 tfor:TF1184|5end_hypothetical_protein_1269004..1269234_POSITIVE 499 70 21 119 72 tfor:TF2191|5end_hypothetical_protein_2365934..2366164_POSITIVE 499 70 21 81 34 tfor:TF0822|5end_hypothetical_protein_880487..880717_POSITIVE 499 70 21 81 34 tfor:TF0821|5end_hypothetical_protein_879879..880109_POSITIVE 475 67 21 199 155 tfor:TF0828|5end_hypothetical_protein_887090..887320_POSITIVE 472 67 21 123 69 tfor:TF0538|5end_hypothetical_protein_566891..567121_POSITIVE 472 67 21 116 62 tfor:TF0539|5end_hypothetical_protein_566884..567114_POSITIVE 454 70 21 206 155 tfor:TF2166|5end_hypothetical_protein_2342115..2342345_POSITIVE 447 67 21 193 149 tfor:TF1186|5end_hypothetical_protein_1269568..1269798_POSITIVE 415 70 21 210 148 tfor:TF1406|5end_transposase_1481758..1481988_POSITIVE 413 68 27 165 113 tfor:TF0633|5end_hypothetical_protein_668922..669152_POSITIVE 401 63 26 48 6 tfor:TF1682|5end_hydrolase_1796409..1796639_POSITIVE 391 64 28 226 186 tfor:TF2229.1|5end_rteR_regulatory_ortholog_(with_internal_stop)_2399454..2399684_POSITIVE 385 59 16 214 171 tfor:TF2036|5end_possible_pyruvate_formate-lyase_activating_enzyme_2196302..2196532_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 523 80 32 95 48 tfor:TF2840|3end_hypothetical_protein_3031289..3031439_POSITIVE 513 70 21 73 25 tfor:TF1182|3end_hypothetical_protein_1268938..1269088_POSITIVE 499 70 21 64 17 tfor:TF0820|3end_hypothetical_protein_879942..880092_POSITIVE 475 59 16 139 97 tfor:TF2547|3end_hypothetical_protein_2730947..2731097_POSITIVE 463 70 24 67 21 tfor:TF2342|3end_glutathione_peroxidase_2506639..2506789_POSITIVE 447 67 21 108 64 tfor:TF1185|3end_hypothetical_protein_1269563..1269713_POSITIVE 418 63 27 70 21 tfor:TF1683|3end_conserved_hypothetical_protein_1796511..1796661_POSITIVE 401 68 21 151 103 tfor:TF1590|3end_hypothetical_protein_1706043..1706193_POSITIVE 396 100 55 107 54 tfor:TF1762|3end_hypothetical_protein_1899648..1899798_POSITIVE 381 67 28 53 9 tfor:TF0533|3end_hypothetical_protein_559519..559669_POSITIVE 378 68 21 151 103 tfor:TF1592|3end_hypothetical_protein_1708557..1708707_POSITIVE 376 44 7 73 30 tfor:TF1655|3end_long-chain-fatty-acid-CoA_ligase_1771068..1771218_POSITIVE 370 100 55 73 27 tfor:TF0018|3end_hypothetical_protein_12091..12241_POSITIVE 368 80 38 130 82 tfor:TF3121|3end_nicotinate_phosphoribosyltransferase_3356124..3356274_POSITIVE 364 70 26 79 26 tfor:TF0664|3end_small_protein_B_(SMPB)_709570..709720_POSITIVE 357 64 28 81 32 tfor:TF2172|3end_hypothetical_protein_2346135..2346285_POSITIVE 357 64 28 128 79 tfor:TF0340|3end_hypothetical_protein_364257..364407_POSITIVE 353 68 21 65 21 tfor:TF1796|3end_ABC_transporter,_ATP-binding_protein_1937216..1937366_POSITIVE 349 195 153 141 96 tfor:TF0448|3end_hypothetical_protein_467911..468061_POSITIVE 344 69 21 73 26 tfor:TF0344|3end_hypothetical_protein_366963..367113_POSITIVE