Origin IGS: ccaatgagtagtccccgatttggaatctcaccgatttagatactaaactcaagcgcatttccatactgctgaaaacgtaaagcaagccttttgcccacgttccacagtatatatagcagtgtgatta .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 taatcacactgctatatatactgtggaacgtgggcaaaaggcttgctttacgttttcagcagtatggaaatgcgcttgagtttagtatctaaatcggtgagattccaaatcggggactactcattgg Mask Tandem Repeat Region ================================================ ccaatgagtagtccccgatttggaatctcaccgatttagatactaaactcaagcgcatttccatactgctgaaaacgtaaagcaagccttttgcccacgttccacagtatatatagcagtgtgatta Find is-nt database================================================ Query_seq: PI1800:PI1801|PI1800:PI1801:hypothetical protein:30S ribosomal protein S9:->->:1733962..1734088 127 ccaatgagtagtccccgatttggaatctcaccgatttagatactaaactcaagcgcatttccatactgctgaaaacgtaaagcaagccttttgcccacgttccacagtatatatagcagtgtgatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI1800:PI1801|PI1800:PI1801:hypothetical protein:30S ribosomal protein S9:->->:1733962..1734088 127 ccaatgagtagtccccgatttggaatctcaccgatttagatactaaactcaagcgcatttccatactgctgaaaacgtaaagcaagccttttgcccacgttccacagtatatatagcagtgtgatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI1800:PI1801|PI1800:PI1801:hypothetical protein:30S ribosomal protein S9:->->:1733962..1734088 127 ccaatgagtagtccccgatttggaatctcaccgatttagatactaaactcaagcgcatttccatactgctgaaaacgtaaagcaagccttttgcccacgttccacagtatatatagcagtgtgatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ccaatgagtagtccccgatttggaatctcaccgatttagatactaaactcaagcgcatttccatactgctgaaaacgtaaagcaagccttttgcccacgttccacagtatatatagcagtgtgatta Predict ORF larger than 30AA ================================================ Protein_Len: 37 Strand: - Start: 2 End: 112 . L S Y D G I Q F R V S K S V L S L R M E M S S F V Y L L G K A W T G C Y M ............... ccaatgagtagtccccgatttggaatctcaccgatttagatactaaactcaagcgcatttccatactgctgaaaacgtaaagcaagccttttgcccacgttccacagtatatatagcagtgtgatta 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================================================ ccaatgagtagtccccgatttggaatctcaccgatttagatactaaactcaagcgcatttccatactgctgaaaacgtaaagcaagccttttgcccacgttccacagtatatatagcagtgtgatta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: PI1800:PI1801|PI1800:PI1801:hypothetical protein:30S ribosomal protein S9:->->:1733962..1734088 127 ccaatgagtagtccccgatttggaatctcaccgatttagatactaaactcaagcgcatttccatactgctgaaaacgtaaagcaagccttttgcccacgttccacagtatatatagcagtgtgatta Intra-Species Hit: Count: 1 Min: 1 Max: 127 Len: 127 Subject: pint_PI1800_PI1801|hypothetical protein:30S ribosomal protein S9|POSITIVE:POSITIVE|[1733962,1734088]|127 HSP 1 e-value: 2.0E-66 bit: 252.0 Len: 127 Query Start:1 Query End:127 Subject Strand: POSITIVE Subject Start: 1 Subject End: 127 ccaatgagtagtccccgatttggaatctcaccgatttagatactaaactcaagcgcatttccatactgctgaaaacgtaaagcaagccttttgcccacgttccacagtatatatagcagtgtgatta ccaatgagtagtccccgatttggaatctcaccgatttagatactaaactcaagcgcatttccatactgctgaaaacgtaaagcaagccttttgcccacgttccacagtatatatagcagtgtgatta Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ CCAAUGAGUAGUCCCCGAUUUGGAAUCUCACCGAUUUAGAUACUAAACUCAAGCGCAUUUCCAUACUGCUGAAAACGUAAAGCAAGCCUUUUGCCCACGUUCCACAGUAUAUAUAGCAGUGUGAUUA ....((((((((..(..(.((((.......)))).)..)..)))..)))))..........((((((((((..(((((...(((((...)))))..)))))............)))))))))).... (-26.34) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUCACACUGCUAUAUAUACUGUGGAACGUGGGCAAAAGGCUUGCUUUACGUUUUCAGCAGUAUGGAAAUGCGCUUGAGUUUAGUAUCUAAAUCGGUGAGAUUCCAAAUCGGGGACUACUCAUUGG ...(((...(((....((((((((.((((((((((((.....)))).))))))))...)))))))).....)))..)))...............(((((((.((((......))))...))))))). (-33.80) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 341 100 53 100 47 pint:PI0715|5end_hypothetical_protein_652311..652541_POSITIVE 334 99 52 125 82 pint:PI1784|5end_possible_dTDP-glucose_4,6-dehydratase,_NAD-dependent_epimerase/dehydratase_family_1716201..1716431_POSITIVE 329 68 30 88 52 pint:PI0953|5end_hypothetical_protein_885119..885349_POSITIVE 309 95 52 172 122 pint:PI1639|5end_conserved_hypothetical_protein_1556725..1556955_POSITIVE 298 107 61 48 11 pint:PI1011|5end_cytochrome_c_biogenesis_protein_CycY_932115..932345_POSITIVE 298 99 55 203 138 pint:PI0197|5end_acetate_kinase_188602..188832_POSITIVE 292 108 68 159 125 pint:PI1232|5end_conserved_hypothetical_protein_1152757..1152987_POSITIVE 289 116 72 215 160 pint:PI1463|5end_fumarate_hydratase,_class_I_1385349..1385579_POSITIVE 289 86 50 181 144 pint:PI0032|5end_hypothetical_protein_36085..36315_POSITIVE 287 96 51 150 112 pint:PI1381|5end_conserved_hypothetical_protein_1303060..1303290_POSITIVE 280 108 61 77 30 pint:PI1364|5end_dipeptidyl_peptidase_IV_1281862..1282092_POSITIVE 278 100 51 159 112 pint:PI0654|5end_K+-dependent_Na+/Ca+_exchanger_related-protein_596283..596513_POSITIVE 278 108 61 65 9 pint:PI0611|5end_hypothetical_protein_559387..559617_POSITIVE 276 102 66 145 96 pint:PI1931|5end_alpha_glycan_phosphorylase,_maltodextrin_phosphorylase_1875456..1875686_POSITIVE 274 77 32 215 175 pint:PI1171|5end_hypothetical_protein_1091328..1091558_POSITIVE 272 119 71 227 169 pint:PI0125|5end_undecaprenyl_pyrophosphate_synthase_117106..117336_POSITIVE 270 97 55 104 68 pint:PI1104|5end_GDP-4-keto-6-deoxy-D-mannose-3,5-epimerase-4-redu_ctase_1027749..1027979_POSITIVE 263 96 52 65 19 pint:PI2126|5end_conserved_hypothetical_protein_2074907..2075137_POSITIVE 263 109 66 202 153 pint:PI1525|5end_CDP-diacylglycerol--serine_O-phosphatidyltransferase_1446758..1446988_POSITIVE 262 90 43 141 96 pint:PI0756|5end_50S_ribosomal_protein_L7/L12_687146..687376_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 322 106 62 83 32 pint:PI0418|3end_hypothetical_protein_386856..387006_POSITIVE 322 106 62 55 4 pint:PI0420|3end_hypothetical_protein_386828..386978_POSITIVE 302 109 63 58 12 pint:PI0042|3end_hypothetical_protein_43444..43594_POSITIVE 298 107 61 48 11 pint:PI1010|3end_conserved_hypothetical_protein_932195..932345_POSITIVE 292 108 68 51 17 pint:PI1230|3end_probable_metallo-beta-lactamase_family_protein_1152729..1152879_POSITIVE 290 97 55 145 99 pint:PI0196|3end_hypothetical_protein_188643..188793_POSITIVE 289 86 50 147 110 pint:PI0031|3end_peptidylprolyl_isomerase_36131..36281_POSITIVE 280 108 61 57 10 pint:PI1363|3end_hypothetical_protein_1281922..1282072_POSITIVE 270 99 51 149 101 pint:PI1891|3end_hypothetical_protein_1835917..1836067_POSITIVE 269 107 62 84 34 pint:PI0365|3end_hypothetical_protein_336118..336268_POSITIVE 266 105 72 151 114 pint:PI1462|3end_hypothetical_protein_1385383..1385533_POSITIVE 263 96 52 57 11 pint:PI2125|3end_D-tyrosyl-tRNA(Tyr)_deacylase_2074979..2075129_POSITIVE 261 97 52 42 2 pint:PI2036|3end_hypothetical_protein_1989516..1989666_POSITIVE 260 120 73 81 12 pint:PI1048|3end_1,4-dihydroxy-2-naphthoate_octaprenyltransferase_967193..967343_POSITIVE 258 100 54 64 8 pint:PI1608|3end_possible_Na+/H+_anti-porter_1536300..1536450_POSITIVE 257 109 61 83 46 pint:PI0683|3end_hypothetical_protein_619797..619947_POSITIVE 256 90 42 80 34 pint:PI0553|3end_recombination_protein_504383..504533_POSITIVE 251 34 3 51 24 pint:PI0220|3end_conserved_hypothetical_protein_212341..212491_POSITIVE 248 99 53 131 81 pint:PI0700|3end_UDP-glucose_4-epimerase_638413..638563_POSITIVE 247 109 61 106 62 pint:PI0704|3end_conserved_hypothetical_protein_641364..641514_POSITIVE