Origin IGS: tatgtggtgagctaaacaaaacggtggcggttttttccttccggcttccaagatcgtacagccatcggactatggctttggatacggccggtgcgcaaagataataaaagctcgttcagagcatgctttacggccagagcaatcgtttttgaagtgttaacacacatataaacctgatgatgctccatccaaaataagcttagcacgatattgtctgagagcgtagagaggaaaacgatcaggagtaaaaagtcaagaggataaacttctttgctctctatccgtgggcccgagaccatgaagagactttccgaga .........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 tctcggaaagtctcttcatggtctcgggcccacggatagagagcaaagaagtttatcctcttgactttttactcctgatcgttttcctctctacgctctcagacaatatcgtgctaagcttattttggatggagcatcatcaggtttatatgtgtgttaacacttcaaaaacgattgctctggccgtaaagcatgctctgaacgagcttttattatctttgcgcaccggccgtatccaaagccatagtccgatggctgtacgatcttggaagccggaaggaaaaaaccgccaccgttttgtttagctcaccacata Mask Tandem Repeat Region ================================================ tatgtggtgagctaaacaaaacggtggcggttttttccttccggcttccaagatcgtacagccatcggactatggctttggatacggccggtgcgcaaagataataaaagctcgttcagagcatgctttacggccagagcaatcgtttttgaagtgttaacacacatataaacctgatgatgctccatccaaaataagcttagcacgatattgtctgagagcgtagagaggaaaacgatcaggagtaaaaagtcaagaggataaacttctttgctctctatccgtgggcccgagaccatgaagagactttccgaga Find is-nt database================================================ Query_seq: PG2121:PG2123|PG2121:PG2123:L-asparaginase:hypothetical protein:<-->:2229715..2230030 316 tatgtggtgagctaaacaaaacggtggcggttttttccttccggcttccaagatcgtacagccatcggactatggctttggatacggccggtgcgcaaagataataaaagctcgttcagagcatgctttacggccagagcaatcgtttttgaagtgttaacacacatataaacctgatgatgctccatccaaaataagcttagcacgatattgtctgagagcgtagagaggaaaacgatcaggagtaaaaagtcaagaggataaacttctttgctctctatccgtgggcccgagaccatgaagagactttccgaga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 1 Min: 209 Max: 311 Len: 103 Subject: IS|ISPg2 HSP 1 e-value: 6.0E-19 bit: 93.7 Len: 103 Query Start:209 Query End:311 Subject Strand: NEGATIVE Subject Start: 82 Subject End: 184 ................................................................................................................................................................................................................tattgtctgagagcgtagagaggaaaacgatcaggagtaaaaagtcaagaggataaacttctttgctctctatccgtgggcccgagaccatgaagagactttc..... ................................................................................................................................................................................................................tattgcctgagagtgttgagaggaaaacgatcagcagtaaaaaatcaagaggataaatttttttacgctctatccgtgggtccggaaccatgcagaggctttc..... Find is-aa database================================================ Query_seq: PG2121:PG2123|PG2121:PG2123:L-asparaginase:hypothetical protein:<-->:2229715..2230030 316 tatgtggtgagctaaacaaaacggtggcggttttttccttccggcttccaagatcgtacagccatcggactatggctttggatacggccggtgcgcaaagataataaaagctcgttcagagcatgctttacggccagagcaatcgtttttgaagtgttaacacacatataaacctgatgatgctccatccaaaataagcttagcacgannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnncgaga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG2121:PG2123|PG2121:PG2123:L-asparaginase:hypothetical protein:<-->:2229715..2230030 316 tatgtggtgagctaaacaaaacggtggcggttttttccttccggcttccaagatcgtacagccatcggactatggctttggatacggccggtgcgcaaagataataaaagctcgttcagagcatgctttacggccagagcaatcgtttttgaagtgttaacacacatataaacctgatgatgctccatccaaaataagcttagcacgannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnncgaga Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 tatgtggtgagctaaacaaaacggtggcggttttttccttccggcttccaagatcgtacagccatcggactatggctttggatacggccggtgcgcaaagataataaaagctcgttcagagcatgctttacggccagagcaatcgtttttgaagtgttaacacacatataaacctgatgatgctccatccaaaataagcttagcacgannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnncgaga Predict ORF larger than 30AA ================================================ Protein_Len: 35 Strand: + Start: 53 End: 157 .................................................... M V Q P S D Y G F G Y G R C A K I I K A R S E H A L R P E Q S F L K C ............................................................................................................................................................... Protein_Len: 35 Strand: + Start: 64 End: 168 ............................................................... M G L W L W I R P V R K D N K S S F R A C F T A R A I V F E V L T H I .................................................................................................................................................... Protein_Len: 60 Strand: - Start: 15 End: 299 .............. A H K V A L A I T K S T N V C M Y V Q H H E M W F L S L V I N D S L T S L F V I L L L F D L P Y V E K S E I R P G S V M ................. tatgtggtgagctaaacaaaacggtggcggttttttccttccggcttccaagatcgtacagccatcggactatggctttggatacggccggtgcgcaaagataataaaagctcgttcagagcatgctttacggccagagcaatcgtttttgaagtgttaacacacatataaacctgatgatgctccatccaaaataagcttagcacgannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnncgaga 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================================================ tatgtggtgagctaaacaaaacggtggcggttttttccttccggcttccaagatcgtacagccatcggactatggctttggatacggccggtgcgcaaagataataaaagctcgttcagagcatgctttacggccagagcaatcgtttttgaagtgttaacacacatataaacctgatgatgctccatccaaaataagcttagcacgannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnncgaga Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 78 HP_score: -4.8 Tail_Score: -4.95302 Start: 110 End: 122 Full_Region: ctggccgtaaagcat gctc tgaac gagc ttttattatctttgc .............................................................................................................gctctgaacgagc.................................................................................................................................................................................................. Find igs database================================================ Query_seq: PG2121:PG2123|PG2121:PG2123:L-asparaginase:hypothetical protein:<-->:2229715..2230030 316 tatgtggtgagctaaacaaaacggtggcggttttttccttccggcttccaagatcgtacagccatcggactatggctttggatacggccggtgcgcaaagataataaaagctcgttcagagcatgctttacggccagagcaatcgtttttgaagtgttaacacacatataaacctgatgatgctccatccaaaataagcttagcacgannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnncgaga Intra-Species Hit: Count: 1 Min: 1 Max: 208 Len: 208 Subject: NC_002950_PG2121_PG2123|L-asparaginase:hypothetical protein|NEGATIVE:POSITIVE|[2229715,2230030]|316 HSP 1 e-value: 1.0E-114 bit: 412.0 Len: 208 Query Start:1 Query End:208 Subject Strand: POSITIVE Subject Start: 1 Subject End: 208 tatgtggtgagctaaacaaaacggtggcggttttttccttccggcttccaagatcgtacagccatcggactatggctttggatacggccggtgcgcaaagataataaaagctcgttcagagcatgctttacggccagagcaatcgtttttgaagtgttaacacacatataaacctgatgatgctccatccaaaataagcttagcacga............................................................................................................ tatgtggtgagctaaacaaaacggtggcggttttttccttccggcttccaagatcgtacagccatcggactatggctttggatacggccggtgcgcaaagataataaaagctcgttcagagcatgctttacggccagagcaatcgtttttgaagtgttaacacacatataaacctgatgatgctccatccaaaataagcttagcacga............................................................................................................ Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAUGUGGUGAGCUAAACAAAACGGUGGCGGUUUUUUCCUUCCGGCUUCCAAGAUCGUACAGCCAUCGGACUAUGGCUUUGGAUACGGCCGGUGCGCAAAGAUAAUAAAAGCUCGUUCAGAGCAUGCUUUACGGCCAGAGCAAUCGUUUUUGAAGUGUUAACACACAUAUAAACCUGAUGAUGCUCCAUCCAAAAUAAGCUUAGCACGA ..((((.((((((........(((((((((......))...(((((....)).)))....))))))).........(((((((..(((((....(((............((((.....)))).)))....))))).(((((.(((((((((..((((....))))...))))...)))))))))).)))))))...)))))).)))). (-60.12) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UCGUGCUAAGCUUAUUUUGGAUGGAGCAUCAUCAGGUUUAUAUGUGUGUUAACACUUCAAAAACGAUUGCUCUGGCCGUAAAGCAUGCUCUGAACGAGCUUUUAUUAUCUUUGCGCACCGGCCGUAUCCAAAGCCAUAGUCCGAUGGCUGUACGAUCUUGGAAGCCGGAAGGAAAAAACCGCCACCGUUUUGUUUAGCUCACCACAUA ..(.(((((((.....((((((((((((..(((..((((....((((....)))).....)))))))))))).(((((....(((.((((.....))))............)))....))))).)))))))((((((......))))))..(((....(((...((....))......)))....)))...))))))).)........ (-56.82) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 1082 90 41 181 132 NC_002950:PG2121|5end_L-asparaginase_2229624..2229854_NEGATIVE 629 190 142 173 125 NC_002950:PG1788|5end_cysteine_peptidase,_putative_1875976..1876206_POSITIVE 493 180 131 227 176 NC_002950:PG1397|5end_bifunctional_phosphoribosylaminoimidazolecarboxamide_formyltransferase/IMP_cyclohydrolase_1480355..1480585_NEGATIVE 432 177 132 190 139 NC_002950:PG2221|5end_MiaB-like_tRNA_modifying_enzyme_2335426..2335656_POSITIVE 420 88 42 215 167 NC_002950:PG0447|5end_hypothetical_protein_487278..487508_POSITIVE 396 90 41 159 103 NC_002950:PG0607|5end_hypothetical_protein_662552..662782_POSITIVE 390 70 22 172 102 NC_002950:PG0934|5end_hypothetical_protein_994318..994548_NEGATIVE 382 68 22 123 56 NC_002950:PG1494|5end_hypothetical_protein_1569841..1570071_POSITIVE 382 90 42 205 145 NC_002950:PG0201|5end_ribonuclease_P_238770..239000_NEGATIVE 380 90 41 69 24 NC_002950:PG2156|5end_conserved_hypothetical_protein_TIGR00046_2262645..2262875_NEGATIVE 377 95 54 150 108 NC_002950:PG1481|5end_conjugative_transposon_protein_TraG_1558447..1558677_NEGATIVE 376 180 136 194 150 NC_002950:PG0500|5end_queuine_tRNA-ribosyltransferase_539197..539427_POSITIVE 374 90 42 194 145 NC_002950:PG2107|5end_thiamine_biosynthesis_protein_ThiH_2216658..2216888_NEGATIVE 374 177 132 206 160 NC_002950:PG0801|5end_polyA_polymerase_family_protein_857714..857944_NEGATIVE 373 70 21 67 15 NC_002950:PG2046|5end_hypothetical_protein_2144349..2144579_POSITIVE 365 89 42 119 64 NC_002950:PG1837|5end_hemagglutinin_protein_HagA_1930337..1930567_POSITIVE 365 88 41 175 122 NC_002950:PG1042|5end_glycogen_synthase,_putative_1110638..1110868_NEGATIVE 364 90 41 221 174 NC_002950:PG1125|5end_hypothetical_protein_1201727..1201957_NEGATIVE 360 94 51 64 10 NC_002950:PG1847|5end_endoribonuclease_L-PSP,_putative_1946607..1946837_NEGATIVE 360 58 22 228 181 NC_002950:PG0923|5end_ribosome-binding_factor_A_982814..983044_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 444 180 133 59 11 NC_002950:PG0879|3end_hypothetical_protein_941931..942081_NEGATIVE 432 177 132 52 1 NC_002950:PG2220|3end_hypothetical_protein_2335368..2335518_POSITIVE 405 81 41 140 76 NC_002950:PG0129|3end_mannosyltransferase_151789..151939_POSITIVE 403 177 135 52 10 NC_002950:PG1251|3end_hypothetical_protein_1328212..1328362_POSITIVE 398 87 42 64 23 NC_002950:PG2047|3end_helicase,_putative_2145758..2145908_NEGATIVE 394 97 60 98 55 NC_002950:PG0453|3end_hypothetical_protein_496670..496820_POSITIVE 389 77 32 109 56 NC_002950:PG0361|3end_hypothetical_protein_395481..395631_POSITIVE 388 69 21 122 63 NC_002950:PG1392|3end_rod_shape-determining_protein_RodA,_putative_1472959..1473109_NEGATIVE 376 180 136 59 15 NC_002950:PG0499|3end_hypothetical_protein_539142..539292_POSITIVE 375 88 42 140 100 NC_002950:PG1482|3end_conjugative_transposon_protein_TraF_1558444..1558594_NEGATIVE 365 88 41 138 85 NC_002950:PG1043|3end_ferrous_iron_transport_protein_B_1110675..1110825_NEGATIVE 356 95 52 121 79 NC_002950:PG1366|3end_UDP-N-acetylglucosamine_1-carboxyvinyltransferase_1446076..1446226_NEGATIVE 353 90 43 98 44 NC_002950:PG1012|3end_tRNA-i(6)A37_modification_enzyme_MiaB_1070089..1070239_NEGATIVE 353 94 51 150 106 NC_002950:PG0042|3end_serine_hydroxymethyltransferase_50989..51139_POSITIVE 352 53 22 149 123 NC_002950:PG0278|3end_hypothetical_protein_310477..310627_POSITIVE 349 63 22 128 66 NC_002950:PG0471|3end_hypothetical_protein_513432..513582_POSITIVE 348 90 42 122 79 NC_002950:PG1389|3end_DNA-binding_protein,_histone-like_family_1470870..1471020_NEGATIVE 345 87 42 70 20 NC_002950:PG0075|3end_phosphoribosylformylglycinamidine_cyclo-ligase,_putative_89197..89347_NEGATIVE 344 97 54 148 91 NC_002950:PG2092|3end_hypothetical_protein_2191651..2191801_NEGATIVE 343 118 72 137 86 NC_002950:PG2145|3end_polysaccharide_deacetylase_2253938..2254088_POSITIVE