Origin IGS: taagacaaacgatagaagataatgtagaaatacatagacatctttatctaaaaaaagcagaaaacatcgctccttttcattttttcacacaacagaagcaatgttttcctgctttttccatttagtacataataaatagaaaagacaacaaaagaaacaaagaacaattatgaagaagaatttaagcaaaattatgttgattgcatttgctggtatagca .........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 tgctataccagcaaatgcaatcaacataattttgcttaaattcttcttcataattgttctttgtttcttttgttgtcttttctatttattatgtactaaatggaaaaagcaggaaaacattgcttctgttgtgtgaaaaaatgaaaaggagcgatgttttctgctttttttagataaagatgtctatgtatttctacattatcttctatcgtttgtctta Mask Tandem Repeat Region ================================================ taagacaaacgatagaagataatgtagaaatacatagacatctttatctaaaaaaagcagaaaacatcgctccttttcattttttcacacaacagaagcaatgttttcctgctttttccatttagtacataataaatagaaaagacaacaaaagaaacaaagaacaattatgaagaagaatttaagcaaaattatgttgattgcatttgctggtatagca Find is-nt database================================================ Query_seq: PI2000:PI2001|PI2000:PI2001:conserved hypothetical protein; possible membrane protein:hypothetical protein:->->:1959770..1959989 220 taagacaaacgatagaagataatgtagaaatacatagacatctttatctaaaaaaagcagaaaacatcgctccttttcattttttcacacaacagaagcaatgttttcctgctttttccatttagtacataataaatagaaaagacaacaaaagaaacaaagaacaattatgaagaagaatttaagcaaaattatgttgattgcatttgctggtatagca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: PI2000:PI2001|PI2000:PI2001:conserved hypothetical protein; possible membrane protein:hypothetical protein:->->:1959770..1959989 220 taagacaaacgatagaagataatgtagaaatacatagacatctttatctaaaaaaagcagaaaacatcgctccttttcattttttcacacaacagaagcaatgttttcctgctttttccatttagtacataataaatagaaaagacaacaaaagaaacaaagaacaattatgaagaagaatttaagcaaaattatgttgattgcatttgctggtatagca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: PI2000:PI2001|PI2000:PI2001:conserved hypothetical protein; possible membrane protein:hypothetical protein:->->:1959770..1959989 220 taagacaaacgatagaagataatgtagaaatacatagacatctttatctaaaaaaagcagaaaacatcgctccttttcattttttcacacaacagaagcaatgttttcctgctttttccatttagtacataataaatagaaaagacaacaaaagaaacaaagaacaattatgaagaagaatttaagcaaaattatgttgattgcatttgctggtatagca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 taagacaaacgatagaagataatgtagaaatacatagacatctttatctaaaaaaagcagaaaacatcgctccttttcattttttcacacaacagaagcaatgttttcctgctttttccatttagtacataataaatagaaaagacaacaaaagaaacaaagaacaattatgaagaagaatttaagcaaaattatgttgattgcatttgctggtatagca Predict ORF larger than 30AA ================================================ Protein_Len: 37 Strand: + Start: 12 End: 122 ........... M E D N V E I H R H L Y L K K A E N I A P F H F F T Q Q K Q C F P A F S I .................................................................................................. Protein_Len: 43 Strand: - Start: 88 End: 216 ....................................................................................... V V S A I N E Q K K W K T C L L Y F L C C F F C L V I I F F F K L L I I N I A N A P M .... Protein_Len: 39 Strand: - Start: 51 End: 167 .................................................. F F C F V D S R K M K E C L L L L T K R S K G N L V Y Y I S F V V F S V F F M ..................................................... taagacaaacgatagaagataatgtagaaatacatagacatctttatctaaaaaaagcagaaaacatcgctccttttcattttttcacacaacagaagcaatgttttcctgctttttccatttagtacataataaatagaaaagacaacaaaagaaacaaagaacaattatgaagaagaatttaagcaaaattatgttgattgcatttgctggtatagca 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================================================ taagacaaacgatagaagataatgtagaaatacatagacatctttatctaaaaaaagcagaaaacatcgctccttttcattttttcacacaacagaagcaatgttttcctgctttttccatttagtacataataaatagaaaagacaacaaaagaaacaaagaacaattatgaagaagaatttaagcaaaattatgttgattgcatttgctggtatagca Predict TransTerm conf > 70================================================ TransTerm Strand: - Conf: 71 HP_score: -2.9 Tail_Score: -5.47218 Start: 57 End: 112 Full_Region: tactaaatggaaaaa gcaggaaaacattgcttctgttgtgt gaaa aaatgaaaaggagcgatgttttctgc tttttttagataaag ........................................................gcaggaaaacattgcttctgttgtgtgaaaaaatgaaaaggagcgatgttttctgc............................................................................................................ Find igs database================================================ Query_seq: PI2000:PI2001|PI2000:PI2001:conserved hypothetical protein; possible membrane protein:hypothetical protein:->->:1959770..1959989 220 taagacaaacgatagaagataatgtagaaatacatagacatctttatctaaaaaaagcagaaaacatcgctccttttcattttttcacacaacagaagcaatgttttcctgctttttccatttagtacataataaatagaaaagacaacaaaagaaacaaagaacaattatgaagaagaatttaagcaaaattatgttgattgcatttgctggtatagca Intra-Species Hit: Count: 1 Min: 1 Max: 220 Len: 220 Subject: pint_PI2000_PI2001|conserved hypothetical protein; possible membrane protein:hypothetical protein|POSITIVE:POSITIVE|[1959770,1959989]|220 HSP 1 e-value: 1.0E-109 bit: 394.0 Len: 220 Query Start:1 Query End:220 Subject Strand: POSITIVE Subject Start: 1 Subject End: 220 taagacaaacgatagaagataatgtagaaatacatagacatctttatctnnnnnnngcagaaaacatcgctccttttcattttttcacacaacagaagcaatgttttcctgctttttccatttagtacataataaatagaaaagacaacaaaagaaacaaagaacaattatgaagaagaatttaagcaaaattatgttgattgcatttgctggtatagca taagacaaacgatagaagataatgtagaaatacatagacatctttatctaaaaaaagcagaaaacatcgctccttttcattttttcacacaacagaagcaatgttttcctgctttttccatttagtacataataaatagaaaagacaacaaaagaaacaaagaacaattatgaagaagaatttaagcaaaattatgttgattgcatttgctggtatagca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAGACAAACGAUAGAAGAUAAUGUAGAAAUACAUAGACAUCUUUAUCUAAAAAAAGCAGAAAACAUCGCUCCUUUUCAUUUUUUCACACAACAGAAGCAAUGUUUUCCUGCUUUUUCCAUUUAGUACAUAAUAAAUAGAAAAGACAACAAAAGAAACAAAGAACAAUUAUGAAGAAGAAUUUAAGCAAAAUUAUGUUGAUUGCAUUUGCUGGUAUAGCA ...(.(((.(((((.......(((((....))))).....(((((((........((((((((((((.(((.((...................)).))).))))))).)))))(((((.(((((........))))).)))))..........................)))))))..................))))).))))...(((((...))))) (-34.41) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGCUAUACCAGCAAAUGCAAUCAACAUAAUUUUGCUUAAAUUCUUCUUCAUAAUUGUUCUUUGUUUCUUUUGUUGUCUUUUCUAUUUAUUAUGUACUAAAUGGAAAAAGCAGGAAAACAUUGCUUCUGUUGUGUGAAAAAAUGAAAAGGAGCGAUGUUUUCUGCUUUUUUUAGAUAAAGAUGUCUAUGUAUUUCUACAUUAUCUUCUAUCGUUUGUCUUA ........(((((((.((((..((((............................))))..))))....)))))))..(((((((((((........))))))))))).((((.((((((((((((((....(((......)))...))))))))))))))))))........((((((((((...(((((....))))))))))).)))).......... (-48.99) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 275 110 62 153 106 pint:PI1139|5end_endopeptidase,_endothelin-converting_enzyme_1065216..1065446_POSITIVE 261 119 72 64 21 pint:PI0011|5end_conserved_hypothetical_protein_12142..12372_POSITIVE 255 110 63 192 147 pint:PI0809|5end_hypothetical_protein_746630..746860_POSITIVE 251 99 65 225 193 pint:PI0365|5end_hypothetical_protein_335721..335951_POSITIVE 241 120 92 57 27 pint:PI0902|5end_hypothetical_protein_832291..832521_POSITIVE 237 70 23 66 7 pint:PI2148|5end_ribonuclease_III_2094505..2094735_POSITIVE 236 112 71 152 119 pint:PI1628|5end_hypothetical_protein_1551082..1551312_POSITIVE 232 113 79 147 111 pint:PI0230|5end_hypothetical_protein_228590..228820_POSITIVE 229 118 71 116 53 pint:PI0263|5end_conjugative_transposon_protein,_TraM_255256..255486_POSITIVE 228 98 55 74 33 pint:PI1230|5end_probable_metallo-beta-lactamase_family_protein_1151840..1152070_POSITIVE 227 114 77 126 81 pint:PI1068|5end_nucleolar_protein,_Sun_(Fmu)_family_protein;_tRNA/rRNA_cytosine-C5-methylase_984743..984973_POSITIVE 224 103 65 35 3 pint:PI0873|5end_conserved_hypothetical_protein;_possible_permease_807968..808198_POSITIVE 220 219 172 202 160 pint:PI1755|5end_RNA_polymerase_sigma-70_factor,_ECF_subfamily_1681930..1682160_POSITIVE 216 129 93 219 178 pint:PI0832|5end_sigma-54-dependent_transcriptional_regulator_768834..769064_POSITIVE 216 220 171 58 1 pint:PI0516|5end_ferredoxin,_4Fe-4S_475864..476094_POSITIVE 213 210 170 231 185 pint:PI0370|5end_conserved_hypothetical_protein_340453..340683_POSITIVE 210 123 91 122 93 pint:PI1726|5end_ATP-dependent_DNA_helicase_1643402..1643632_POSITIVE 210 219 171 157 115 pint:PI1233|5end_conserved_hypothetical_protein;_possible__MazG_family_protein_1153334..1153564_POSITIVE 209 212 183 123 91 pint:PI1841|5end_conserved_hypothetical_protein_1786960..1787190_POSITIVE 207 114 76 227 174 pint:PI2086|5end_signal_peptidase_I_2041835..2042065_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 268 120 73 145 93 pint:PI1981|3end_hypothetical_protein_1938138..1938288_POSITIVE 262 112 76 141 106 pint:PI1554|3end_hypothetical_protein_1470483..1470633_POSITIVE 242 148 102 76 31 pint:PI0926|3end_hypothetical_protein_857047..857197_POSITIVE 242 103 65 147 108 pint:PI0203|3end_conserved_hypothetical_protein_196064..196214_POSITIVE 237 219 174 122 68 pint:PI0369|3end_hypothetical_protein_340409..340559_POSITIVE 236 112 71 147 114 pint:PI1627|3end_hypothetical_protein_1551157..1551307_POSITIVE 230 126 81 133 68 pint:PI2085|3end_conserved_hypothetical_protein_2041803..2041953_POSITIVE 229 125 94 82 43 pint:PI1941|3end_outer_membrane_receptor;_ragA_protein_1900619..1900769_POSITIVE 227 70 24 105 53 pint:PI1393|3end_aldose_1-epimerase_1313823..1313973_POSITIVE 227 114 77 114 69 pint:PI1067|3end_thymidylate_synthase_984811..984961_POSITIVE 227 115 73 148 95 pint:PI0238|3end_two-component_system_response_regulator_237826..237976_POSITIVE 223 148 103 141 85 pint:PI0210|3end_hypothetical_protein_203798..203948_POSITIVE 221 200 152 59 15 pint:PI2008|3end__ABC_transporter,_ATP-binding_protein_1967961..1968111_POSITIVE 210 219 171 134 92 pint:PI1232|3end_conserved_hypothetical_protein_1153391..1153541_POSITIVE 209 212 183 107 75 pint:PI1840|3end_conserved_hypothetical_protein_1787024..1787174_POSITIVE 207 220 187 133 100 pint:PI0160|3end_conserved_hypothetical_protein_153268..153418_POSITIVE 206 74 31 52 3 pint:PI0901|3end_hypothetical_protein_832207..832357_POSITIVE 205 219 171 139 92 pint:PI1537|3end_predicted_TPR-repeat-containing_protein_1459392..1459542_POSITIVE 204 218 175 70 22 pint:PI0083|3end_tyrosyl-tRNA_synthetase_84115..84265_POSITIVE 203 70 22 54 7 pint:PI2065|3end_hypothetical_protein_2027253..2027403_POSITIVE