Origin IGS: accgtataagcccatagatatgatacagaatatcctcacagccataacgggtattgtcgtcctcggcctgattatttatcgtttggttcgtctctggaagcgaaaagattcgggtggagcatgctccggttgttcatccaaatccgattgtgccttatcttccaaggcgacagagaagaagaacaatccatcatccctcaaataaaactctc .........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 gagagttttatttgagggatgatggattgttcttcttctctgtcgccttggaagataaggcacaatcggatttggatgaacaaccggagcatgctccacccgaatcttttcgcttccagagacgaaccaaacgataaataatcaggccgaggacgacaatacccgttatggctgtgaggatattctgtatcatatctatgggcttatacggt Mask Tandem Repeat Region ================================================ accgtataagcccatagatatgatacagaatatcctcacagccataacgggtattgtcgtcctcggcctgattatttatcgtttggttcgtctctggaagcgaaaagattcgggtggagcatgctccggttgttcatccaaatccgattgtgccttatcttccaaggcgacagagaagaagaacaatccatcatccctcaaataaaactctc Find is-nt database================================================ Query_seq: PG1294:PG1296|PG1294:PG1296:ferrous iron transport protein B:hypothetical protein:->->:1374722..1374933 212 accgtataagcccatagatatgatacagaatatcctcacagccataacgggtattgtcgtcctcggcctgattatttatcgtttggttcgtctctggaagcgaaaagattcgggtggagcatgctccggttgttcatccaaatccgattgtgccttatcttccaaggcgacagagaagaagaacaatccatcatccctcaaataaaactctc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PG1294:PG1296|PG1294:PG1296:ferrous iron transport protein B:hypothetical protein:->->:1374722..1374933 212 accgtataagcccatagatatgatacagaatatcctcacagccataacgggtattgtcgtcctcggcctgattatttatcgtttggttcgtctctggaagcgaaaagattcgggtggagcatgctccggttgttcatccaaatccgattgtgccttatcttccaaggcgacagagaagaagaacaatccatcatccctcaaataaaactctc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PG1294:PG1296|PG1294:PG1296:ferrous iron transport protein B:hypothetical protein:->->:1374722..1374933 212 accgtataagcccatagatatgatacagaatatcctcacagccataacgggtattgtcgtcctcggcctgattatttatcgtttggttcgtctctggaagcgaaaagattcgggtggagcatgctccggttgttcatccaaatccgattgtgccttatcttccaaggcgacagagaagaagaacaatccatcatccctcaaataaaactctc Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 accgtataagcccatagatatgatacagaatatcctcacagccataacgggtattgtcgtcctcggcctgattatttatcgtttggttcgtctctggaagcgaaaagattcgggtggagcatgctccggttgttcatccaaatccgattgtgccttatcttccaaggcgacagagaagaagaacaatccatcatccctcaaataaaactctc Predict ORF larger than 30AA ================================================ Protein_Len: 60 Strand: + Start: 14 End: 202 ............. M D M I Q N I L T A I T G I V V L G L I I Y R L V R L W K R K D S G G A C S G C S S K S D C A L S S K A T E K K N N P S .......... Protein_Len: 39 Strand: + Start: 94 End: 210 ............................................................................................. M E A K R F G W S M L R L F I Q I R L C L I F Q G D R E E E Q S I I P Q I K L .. Protein_Len: 45 Strand: + Start: 78 End: 212 ............................................................................. M V W F V S G S E K I R V E H A P V V H P N P I V P Y L P R R Q R R R T I H H P S N K T L Protein_Len: 41 Strand: - Start: 79 End: 201 .............................................................................. R K T R R Q F R F S E P P A H E P Q E D L D S Q A K D E L A V S F F F L G D D R M ........... Protein_Len: 40 Strand: - Start: 75 End: 194 .......................................................................... K D N P E D R S A F L N P H L M S R N N M W I R N H R I K W P S L S S S C D M M .................. Protein_Len: 36 Strand: - Start: 2 End: 109 . R I L G Y I H Y L I D E C G Y R T N D D E A Q N N I T Q N T E P L S F M ....................................................................................................... accgtataagcccatagatatgatacagaatatcctcacagccataacgggtattgtcgtcctcggcctgattatttatcgtttggttcgtctctggaagcgaaaagattcgggtggagcatgctccggttgttcatccaaatccgattgtgccttatcttccaaggcgacagagaagaagaacaatccatcatccctcaaataaaactctc 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================================================ accgtataagcccatagatatgatacagaatatcctcacagccataacgggtattgtcgtcctcggcctgattatttatcgtttggttcgtctctggaagcgaaaagattcgggtggagcatgctccggttgttcatccaaatccgattgtgccttatcttccaaggcgacagagaagaagaacaatccatcatccctcaaataaaactctc Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PG1294:PG1296|PG1294:PG1296:ferrous iron transport protein B:hypothetical protein:->->:1374722..1374933 212 accgtataagcccatagatatgatacagaatatcctcacagccataacgggtattgtcgtcctcggcctgattatttatcgtttggttcgtctctggaagcgaaaagattcgggtggagcatgctccggttgttcatccaaatccgattgtgccttatcttccaaggcgacagagaagaagaacaatccatcatccctcaaataaaactctc Intra-Species Hit: Count: 1 Min: 1 Max: 212 Len: 212 Subject: NC_002950_PG1294_PG1296|ferrous iron transport protein B:hypothetical protein|POSITIVE:POSITIVE|[1374722,1374933]|212 HSP 1 e-value: 1.0E-117 bit: 420.0 Len: 212 Query Start:1 Query End:212 Subject Strand: POSITIVE Subject Start: 1 Subject End: 212 accgtataagcccatagatatgatacagaatatcctcacagccataacgggtattgtcgtcctcggcctgattatttatcgtttggttcgtctctggaagcgaaaagattcgggtggagcatgctccggttgttcatccaaatccgattgtgccttatcttccaaggcgacagagaagaagaacaatccatcatccctcaaataaaactctc accgtataagcccatagatatgatacagaatatcctcacagccataacgggtattgtcgtcctcggcctgattatttatcgtttggttcgtctctggaagcgaaaagattcgggtggagcatgctccggttgttcatccaaatccgattgtgccttatcttccaaggcgacagagaagaagaacaatccatcatccctcaaataaaactctc Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ ACCGUAUAAGCCCAUAGAUAUGAUACAGAAUAUCCUCACAGCCAUAACGGGUAUUGUCGUCCUCGGCCUGAUUAUUUAUCGUUUGGUUCGUCUCUGGAAGCGAAAAGAUUCGGGUGGAGCAUGCUCCGGUUGUUCAUCCAAAUCCGAUUGUGCCUUAUCUUCCAAGGCGACAGAGAAGAAGAACAAUCCAUCAUCCCUCAAAUAAAACUCUC .((((....((.....(((((........)))))......))....)))).....(.(((.(((.((((((...(((.((((((.............)))))))))...)))))).))).))))...((((((((.((....((....((((((((.......))))).)))))...)).))))))))........................ (-44.92) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GAGAGUUUUAUUUGAGGGAUGAUGGAUUGUUCUUCUUCUCUGUCGCCUUGGAAGAUAAGGCACAAUCGGAUUUGGAUGAACAACCGGAGCAUGCUCCACCCGAAUCUUUUCGCUUCCAGAGACGAACCAAACGAUAAAUAAUCAGGCCGAGGACGACAAUACCCGUUAUGGCUGUGAGGAUAUUCUGUAUCAUAUCUAUGGGCUUAUACGGU (((((........((((((..(....)..))))))))))).((((((((((..............(((..((((((.........((((....))))...((((....))))..))))))..))).......(((.....)))...)))))).)))).....((((...((((....((((((........))))))...))))...)))). (-58.60) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 410 129 81 226 179 NC_002950:PG2112|5end_hypothetical_protein_2221471..2221701_POSITIVE 376 96 53 231 198 NC_002950:PG1626|5end_hypothetical_protein_1708742..1708972_POSITIVE 371 130 81 216 151 NC_002950:PG1316|5end_hypothetical_protein_1396771..1397001_NEGATIVE 363 128 83 98 45 NC_002950:PG1057|5end_hypothetical_protein_1123419..1123649_POSITIVE 361 128 88 159 115 NC_002950:PG0229|5end_hypothetical_protein_264872..265102_POSITIVE 360 169 121 214 160 NC_002950:PG2075|5end_hypothetical_protein_2176466..2176696_NEGATIVE 354 130 86 43 1 NC_002950:PG2095|5end_lipoprotein,_putative_2200617..2200847_NEGATIVE 345 133 93 108 56 NC_002950:PG1594|5end_ComEC/Rec2-related_protein_1673587..1673817_NEGATIVE 339 138 91 50 1 NC_002950:PG1063|5end_transcriptional_regulator,_putative_1131056..1131286_POSITIVE 338 154 111 76 19 NC_002950:PG0608|5end_hypothetical_protein_662945..663175_POSITIVE 338 90 48 59 10 NC_002950:PG0422|5end_hypothetical_protein_462302..462532_NEGATIVE 337 129 84 57 13 NC_002950:PG0936|5end_xanthine/uracil_permease_family_protein_996451..996681_NEGATIVE 337 146 111 171 133 NC_002950:PG0713|5end_anthranilate_synthase_component_II_767749..767979_NEGATIVE 337 156 111 145 102 NC_002950:PG0446|5end_thiF_protein_486599..486829_POSITIVE 337 160 111 142 79 NC_002950:PG0098|5end_hypothetical_protein_115843..116073_NEGATIVE 336 90 41 134 71 NC_002950:PG0560|5end_hypothetical_protein_617423..617653_POSITIVE 335 147 101 75 30 NC_002950:PG1167|5end_hypothetical_protein_1248427..1248657_POSITIVE 335 132 97 147 116 NC_002950:PG0647|5end_iron_compound_ABC_transporter,_permease_protein_700113..700343_NEGATIVE 334 130 81 155 110 NC_002950:PG1542|5end_collagenase_1620788..1621018_POSITIVE 331 154 118 220 187 NC_002950:PG0213|5end_precorrin-3_methylase/precorrin-8X_methylmutase_250464..250694_NEGATIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 425 140 94 147 86 NC_002950:PG0569|3end_hypothetical_protein_624697..624847_NEGATIVE 398 159 112 127 78 NC_002950:PG1409|3end_hypothetical_protein_1492873..1493023_NEGATIVE 376 96 53 127 94 NC_002950:PG1625|3end_hypothetical_protein_1708718..1708868_POSITIVE 376 132 93 64 25 NC_002950:PG0381|3end_cell_volume_regulation_protein_CvrA_411185..411335_NEGATIVE 363 133 93 61 17 NC_002950:PG1410|3end_hypothetical_protein_1493436..1493586_POSITIVE 363 128 83 78 25 NC_002950:PG1056|3end_hypothetical_protein_1123479..1123629_POSITIVE 358 160 112 60 15 NC_002950:PG1866|3end_hypothetical_protein_1964736..1964886_POSITIVE 356 138 94 87 31 NC_002950:PG1837|3end_hemagglutinin_protein_HagA_1936734..1936884_POSITIVE 348 72 31 58 8 NC_002950:PG0334|3end_glycosyl_transferase,_group_2_family_protein_368792..368942_NEGATIVE 345 133 93 101 49 NC_002950:PG1595|3end_ribulose-phosphate_3-epimerase_1673594..1673744_NEGATIVE 337 160 112 151 111 NC_002950:PG1174|3end_thioesterase_family_protein_1253210..1253360_NEGATIVE 337 129 81 132 80 NC_002950:PG0897|3end_alpha-amylase_family_protein_960868..961018_NEGATIVE 336 129 85 151 99 NC_002950:PG1979|3end_hypothetical_protein_2067519..2067669_POSITIVE 335 132 97 150 119 NC_002950:PG0648|3end_iron_compound_ABC_transporter,_periplasmic_iron_compound-binding_protein,_putative_700110..700260_NEGATIVE 334 158 111 82 39 NC_002950:PG2126|3end_conserved_hypothetical_protein_TIGR00044_2232438..2232588_NEGATIVE 334 130 81 142 97 NC_002950:PG1541|3end_2-amino-4-hydroxy-6-_hydroxymethyldihydropteridine_pyrophosphokinase_1620855..1621005_POSITIVE 334 128 81 147 98 NC_002950:PG0300|3end_TPR_domain_protein_337942..338092_POSITIVE 332 77 33 151 109 NC_002950:PG0520|3end_chaperonin_GroEL_563618..563768_NEGATIVE 330 128 82 96 46 NC_002950:PG1759|3end_adhesion_protein,_putative_1846597..1846747_POSITIVE 330 138 93 80 35 NC_002950:PG0672|3end_iron_compound_ABC_transporter,_ATP-binding_protein_723840..723990_POSITIVE