Origin IGS: aatgcatgcttcatcagtccgacaaagatagtcaattggggagatatccgttagatttttttatacttgttcaaatctgtcgtatcaaaattttctatttcttttttttagctaaattacgccgaaaattacatacttttaacagctaaaaacgctccttctaagaatatattatccctttttgaaactgcgaaattgaccctatgtgaaatatcccacaatcaataaaaacgt .........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 acgtttttattgattgtgggatatttcacatagggtcaatttcgcagtttcaaaaagggataatatattcttagaaggagcgtttttagctgttaaaagtatgtaattttcggcgtaatttagctaaaaaaaagaaatagaaaattttgatacgacagatttgaacaagtataaaaaaatctaacggatatctccccaattgactatctttgtcggactgatgaagcatgcatt Mask Tandem Repeat Region ================================================ aatgcatgcttcatcagtccgacaaagatagtcaattggggagatatccgttagatttttttatacttgttcaaatctgtcgtatcaaaattttctatttcttttttttagctaaattacgccgaaaattacatacttttaacagctaaaaacgctccttctaagaatatattatccctttttgaaactgcgaaattgaccctatgtgaaatatcccacaatcaataaaaacgt Find is-nt database================================================ Query_seq: TF1289:TF1290|TF1289:TF1290:ribosomal protein L11 methyltransferase:hypothetical protein:->->:1371294..1371527 234 aatgcatgcttcatcagtccgacaaagatagtcaattggggagatatccgttagatttttttatacttgttcaaatctgtcgtatcaaaattttctatttcttttttttagctaaattacgccgaaaattacatacttttaacagctaaaaacgctccttctaagaatatattatccctttttgaaactgcgaaattgaccctatgtgaaatatcccacaatcaataaaaacgt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF1289:TF1290|TF1289:TF1290:ribosomal protein L11 methyltransferase:hypothetical protein:->->:1371294..1371527 234 aatgcatgcttcatcagtccgacaaagatagtcaattggggagatatccgttagatttttttatacttgttcaaatctgtcgtatcaaaattttctatttcttttttttagctaaattacgccgaaaattacatacttttaacagctaaaaacgctccttctaagaatatattatccctttttgaaactgcgaaattgaccctatgtgaaatatcccacaatcaataaaaacgt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF1289:TF1290|TF1289:TF1290:ribosomal protein L11 methyltransferase:hypothetical protein:->->:1371294..1371527 234 aatgcatgcttcatcagtccgacaaagatagtcaattggggagatatccgttagatttttttatacttgttcaaatctgtcgtatcaaaattttctatttcttttttttagctaaattacgccgaaaattacatacttttaacagctaaaaacgctccttctaagaatatattatccctttttgaaactgcgaaattgaccctatgtgaaatatcccacaatcaataaaaacgt Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 aatgcatgcttcatcagtccgacaaagatagtcaattggggagatatccgttagatttttttatacttgttcaaatctgtcgtatcaaaattttctatttcttttttttagctaaattacgccgaaaattacatacttttaacagctaaaaacgctccttctaagaatatattatccctttttgaaactgcgaaattgaccctatgtgaaatatcccacaatcaataaaaacgt Predict ORF larger than 30AA ================================================ Protein_Len: 47 Strand: + Start: 6 End: 146 ..... M L H Q S D K D S Q L G R Y P L D F F I L V Q I C R I K I F Y F F F L A K L R R K L H T F N S ........................................................................................ Protein_Len: 31 Strand: + Start: 133 End: 225 .................................................................................................................................... M L L T A K N A P S K N I L S L F E T A K L T L C E I S H N Q ......... Protein_Len: 30 Strand: - Start: 132 End: 221 ................................................................................................................................... M S K V A L F A G E L F I N D R K S V A F N V R H S I D W M ............. aatgcatgcttcatcagtccgacaaagatagtcaattggggagatatccgttagatttttttatacttgttcaaatctgtcgtatcaaaattttctatttcttttttttagctaaattacgccgaaaattacatacttttaacagctaaaaacgctccttctaagaatatattatccctttttgaaactgcgaaattgaccctatgtgaaatatcccacaatcaataaaaacgt 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================================================ aatgcatgcttcatcagtccgacaaagatagtcaattggggagatatccgttagatttttttatacttgttcaaatctgtcgtatcaaaattttctatttcttttttttagctaaattacgccgaaaattacatacttttaacagctaaaaacgctccttctaagaatatattatccctttttgaaactgcgaaattgaccctatgtgaaatatcccacaatcaataaaaacgt Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF1289:TF1290|TF1289:TF1290:ribosomal protein L11 methyltransferase:hypothetical protein:->->:1371294..1371527 234 aatgcatgcttcatcagtccgacaaagatagtcaattggggagatatccgttagatttttttatacttgttcaaatctgtcgtatcaaaattttctatttcttttttttagctaaattacgccgaaaattacatacttttaacagctaaaaacgctccttctaagaatatattatccctttttgaaactgcgaaattgaccctatgtgaaatatcccacaatcaataaaaacgt Intra-Species Hit: Count: 1 Min: 1 Max: 234 Len: 234 Subject: tfor_TF1289_TF1290|ribosomal protein L11 methyltransferase:hypothetical protein|POSITIVE:POSITIVE|[1371294,1371527]|234 HSP 1 e-value: 1.0E-103 bit: 375.0 Len: 234 Query Start:1 Query End:234 Subject Strand: POSITIVE Subject Start: 1 Subject End: 234 aatgcatgcttcatcagtccgacaaagatagtcaattggggagatatccgttagannnnnnnatacttgttcaaatctgtcgtatcaaaattttctatttcnnnnnnnnagctaaattacgccgaaaattacatacttttaacagctaaaaacgctccttctaagaatatattatccctttttgaaactgcgaaattgaccctatgtgaaatatcccacaatcaataaaaacgt aatgcatgcttcatcagtccgacaaagatagtcaattggggagatatccgttagatttttttatacttgttcaaatctgtcgtatcaaaattttctatttcttttttttagctaaattacgccgaaaattacatacttttaacagctaaaaacgctccttctaagaatatattatccctttttgaaactgcgaaattgaccctatgtgaaatatcccacaatcaataaaaacgt Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ AAUGCAUGCUUCAUCAGUCCGACAAAGAUAGUCAAUUGGGGAGAUAUCCGUUAGAUUUUUUUAUACUUGUUCAAAUCUGUCGUAUCAAAAUUUUCUAUUUCUUUUUUUUAGCUAAAUUACGCCGAAAAUUACAUACUUUUAACAGCUAAAAACGCUCCUUCUAAGAAUAUAUUAUCCCUUUUUGAAACUGCGAAAUUGACCCUAUGUGAAAUAUCCCACAAUCAAUAAAAACGU ..((((..(((..((.....))..)))....((((..(((((((((..((.(((((((...((....))...))))))).))))))............(((((.((((..((........))..))))...............(((.......)))......))))).......)))))..))))...))))..(((((.....((((........)))).)))))........ (-31.30) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACGUUUUUAUUGAUUGUGGGAUAUUUCACAUAGGGUCAAUUUCGCAGUUUCAAAAAGGGAUAAUAUAUUCUUAGAAGGAGCGUUUUUAGCUGUUAAAAGUAUGUAAUUUUCGGCGUAAUUUAGCUAAAAAAAAGAAAUAGAAAAUUUUGAUACGACAGAUUUGAACAAGUAUAAAAAAAUCUAACGGAUAUCUCCCCAAUUGACUAUCUUUGUCGGACUGAUGAAGCAUGCAUU ........(((((((.((.((....))...)).)))))))...(((((((((....((((....(((((((((((.......((((((((((.......(((((........)))))...))))))))))..............((((.((((...............)))).))))..))))).)))))).))))...(((((.......))))).....)))))).)))... (-45.36) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 328 77 34 63 12 tfor:TF0031|5end_N-acylglucosamine_2-epimerase_26705..26935_POSITIVE 281 53 15 82 32 tfor:TF0355|5end_transposase_element_372847..373077_POSITIVE 274 49 3 66 9 tfor:TF1386|5end_hypothetical_protein_1460103..1460333_POSITIVE 272 227 183 154 111 tfor:TF0422|5end_proline_dehydrogenase_437449..437679_POSITIVE 272 41 4 202 165 tfor:TF0292|5end_conserved_hypothetical_protein_320087..320317_POSITIVE 271 50 4 191 149 tfor:TF0969|5end_oxidoreductase_1019550..1019780_POSITIVE 269 50 3 105 52 tfor:TF0185|5end_4-alpha-glucanotransferase_(amylomaltase)_196486..196716_POSITIVE 266 228 181 123 70 tfor:TF2966|5end_hypothetical_protein_3176948..3177178_POSITIVE 265 54 13 122 87 tfor:TF2125|5end_conserved_hypothetical_protein_2302119..2302349_POSITIVE 262 54 15 39 1 tfor:TF2704|5end_ribonuclease_HII_2876242..2876472_POSITIVE 259 57 11 219 174 tfor:TF0418|5end_possible_methyl-accepting_chemotaxis_protein_434836..435066_POSITIVE 259 49 4 64 12 tfor:TF0303|5end_conserved_hypothetical_protein_328331..328561_POSITIVE 256 200 154 69 24 tfor:TF0330|5end_excinuclease_ABC,_subunit_A_356196..356426_POSITIVE 254 56 18 43 5 tfor:TF2982|5end_O-unit_flippase_3196820..3197050_POSITIVE 254 59 13 172 122 tfor:TF0818|5end_bifunctional_protein:__aspartokinase_I;_homoserine_dehydrogenase_876002..876232_POSITIVE 253 50 7 117 83 tfor:TF1431|5end_conserved_hypothetical_protein;_possible_acyltransferase_1515104..1515334_POSITIVE 251 66 27 215 163 tfor:TF2529|5end_nucleotidyl_transferase_family;_possible_mannose-1-phosphate_guanyltransferase_2710670..2710900_POSITIVE 251 50 5 229 194 tfor:TF0822|5end_hypothetical_protein_880487..880717_POSITIVE 251 50 5 229 194 tfor:TF0821|5end_hypothetical_protein_879879..880109_POSITIVE 249 88 50 96 57 tfor:TF1041|5end_dihydroorotate_dehydrogenase,_catalytic_subunit_1102029..1102259_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 328 77 34 60 9 tfor:TF0030|3end_N-acetylneuraminate_lyase_26782..26932_POSITIVE 272 227 183 63 20 tfor:TF0421|3end_alpha-L-fucosidase_437438..437588_POSITIVE 269 50 3 106 53 tfor:TF0183|3end_conserved_hypothetical_protein_196567..196717_POSITIVE 266 228 181 57 4 tfor:TF2965|3end_conserved_hypothetical_protein_3176962..3177112_POSITIVE 265 54 13 114 79 tfor:TF2124|3end_conserved_hypothetical_protein;_possible_TonB_dependent_receptor_2302191..2302341_POSITIVE 261 42 1 71 17 tfor:TF1582|3end_hypothetical_protein_1690506..1690656_POSITIVE 254 56 18 43 5 tfor:TF2981|3end_conserved_hypothetical_protein_3196900..3197050_POSITIVE 254 53 22 41 1 tfor:TF0354|3end_hypothetical_protein_372886..373036_POSITIVE 253 50 7 86 52 tfor:TF1430|3end_hypothetical_protein_1515153..1515303_POSITIVE 253 49 4 151 106 tfor:TF0417|3end_hypothetical_protein_434856..435006_POSITIVE 251 49 3 66 9 tfor:TF1382|3end_hypothetical_protein_1457777..1457927_POSITIVE 251 49 3 62 5 tfor:TF1383|3end_hypothetical_protein_1457773..1457923_POSITIVE 249 88 50 105 66 tfor:TF1040|3end_dihydroorotate_dehydrogenase,_electron_transfer_subunit_1102118..1102268_POSITIVE 248 50 13 81 38 tfor:TF1801|3end_conserved_hypothetical_protein;_possible_TPR-repeat-containing_protein_1945669..1945819_POSITIVE 244 187 144 68 22 tfor:TF1698|3end_mobilization_protein_1819782..1819932_POSITIVE 243 50 2 49 2 tfor:TF2170|3end_hypothetical_protein_2345070..2345220_POSITIVE 243 44 5 126 79 tfor:TF1697|3end_mobilizable_transposon,_excision_protein_1819293..1819443_POSITIVE 242 49 3 129 73 tfor:TF0542|3end_hypothetical_protein_572324..572474_POSITIVE 238 46 3 36 1 tfor:TF0837|3end_possible_transposase_fragment_890058..890208_POSITIVE 237 45 2 133 99 tfor:TF0301|3end_outer_membrane_protein,_TonB_dependent_receptor_328176..328326_POSITIVE