Origin IGS: gcaagtttgtttaagtaaaacatctcgaccattaaataaatcaacattttatatcaggcttacagccctccgcaggagtgggtattcttttcccccaacgctttgcttcgctacacattgggctgaattaacgcatcccttcggagctgttacagtggtcagccgtcagttccgcattcctccttggaaggggggaaagggggatgttcatatcggcatta .........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 taatgccgatatgaacatccccctttccccccttccaaggaggaatgcggaactgacggctgaccactgtaacagctccgaagggatgcgttaattcagcccaatgtgtagcgaagcaaagcgttgggggaaaagaatacccactcctgcggagggctgtaagcctgatataaaatgttgatttatttaatggtcgagatgttttacttaaacaaacttgc Mask Tandem Repeat Region ================================================ gcaagtttgtttaagtaaaacatctcgaccattaaataaatcaacattttatatcaggcttacagccctccgcaggagtgggtattcttttcccccaacgctttgcttcgctacacattgggctgaattaacgcatcccttcggagctgttacagtggtcagccgtcagttccgcattcctccttggaaggggggaaagggggatgttcatatcggcatta Find is-nt database================================================ Query_seq: TF0361:TF0362|TF0361:TF0362:hypothetical protein:hypothetical protein:->->:379871..380091 221 gcaagtttgtttaagtaaaacatctcgaccattaaataaatcaacattttatatcaggcttacagccctccgcaggagtgggtattcttttcccccaacgctttgcttcgctacacattgggctgaattaacgcatcccttcggagctgttacagtggtcagccgtcagttccgcattcctccttggaaggggggaaagggggatgttcatatcggcatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0361:TF0362|TF0361:TF0362:hypothetical protein:hypothetical protein:->->:379871..380091 221 gcaagtttgtttaagtaaaacatctcgaccattaaataaatcaacattttatatcaggcttacagccctccgcaggagtgggtattcttttcccccaacgctttgcttcgctacacattgggctgaattaacgcatcccttcggagctgttacagtggtcagccgtcagttccgcattcctccttggaaggggggaaagggggatgttcatatcggcatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0361:TF0362|TF0361:TF0362:hypothetical protein:hypothetical protein:->->:379871..380091 221 gcaagtttgtttaagtaaaacatctcgaccattaaataaatcaacattttatatcaggcttacagccctccgcaggagtgggtattcttttcccccaacgctttgcttcgctacacattgggctgaattaacgcatcccttcggagctgttacagtggtcagccgtcagttccgcattcctccttggaaggggggaaagggggatgttcatatcggcatta Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 gcaagtttgtttaagtaaaacatctcgaccattaaataaatcaacattttatatcaggcttacagccctccgcaggagtgggtattcttttcccccaacgctttgcttcgctacacattgggctgaattaacgcatcccttcggagctgttacagtggtcagccgtcagttccgcattcctccttggaaggggggaaagggggatgttcatatcggcatta Predict ORF larger than 30AA ================================================ Protein_Len: 31 Strand: + Start: 36 End: 128 ................................... M N Q H F I S G L Q P S A G V G I L F P Q R F A S L H I G L N ............................................................................................. Protein_Len: 31 Strand: + Start: 127 End: 219 .............................................................................................................................. M N A S L R S C Y S G Q P S V P H S S L E G G K G G C S Y R H .. Protein_Len: 56 Strand: + Start: 53 End: 220 .................................................... M R L T A L R R S G Y S F P P T L C F A T H W A E L T H P F G A V T V V S R Q F R I P P W K G G K G D V H I G I . Protein_Len: 37 Strand: - Start: 52 End: 162 ................................................... I L S V A R R L L P Y E K G G V S Q K A V C Q A S N V C G K P A T V T T M ........................................................... gcaagtttgtttaagtaaaacatctcgaccattaaataaatcaacattttatatcaggcttacagccctccgcaggagtgggtattcttttcccccaacgctttgcttcgctacacattgggctgaattaacgcatcccttcggagctgttacagtggtcagccgtcagttccgcattcctccttggaaggggggaaagggggatgttcatatcggcatta 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================================================ gcaagtttgtttaagtaaaacatctcgaccattaaataaatcaacattttatatcaggcttacagccctccgcaggagtgggtattcttttcccccaacgctttgcttcgctacacattgggctgaattaacgcatcccttcggagctgttacagtggtcagccgtcagttccgcattcctccttggaaggggggaaagggggatgttcatatcggcatta Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF0361:TF0362|TF0361:TF0362:hypothetical protein:hypothetical protein:->->:379871..380091 221 gcaagtttgtttaagtaaaacatctcgaccattaaataaatcaacattttatatcaggcttacagccctccgcaggagtgggtattcttttcccccaacgctttgcttcgctacacattgggctgaattaacgcatcccttcggagctgttacagtggtcagccgtcagttccgcattcctccttggaaggggggaaagggggatgttcatatcggcatta Intra-Species Hit: Count: 9 Min: 1 Max: 221 Len: 221 Subject: tfor_TF0361_TF0362|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[379871,380091]|221 HSP 1 e-value: 1.0E-122 bit: 438.0 Len: 221 Query Start:1 Query End:221 Subject Strand: POSITIVE Subject Start: 1 Subject End: 221 gcaagtttgtttaagtaaaacatctcgaccattaaataaatcaacattttatatcaggcttacagccctccgcaggagtgggtattcttttcccccaacgctttgcttcgctacacattgggctgaattaacgcatcccttcggagctgttacagtggtcagccgtcagttccgcattcctccttggaaggggggaaagggggatgttcatatcggcatta gcaagtttgtttaagtaaaacatctcgaccattaaataaatcaacattttatatcaggcttacagccctccgcaggagtgggtattcttttcccccaacgctttgcttcgctacacattgggctgaattaacgcatcccttcggagctgttacagtggtcagccgtcagttccgcattcctccttggaaggggggaaagggggatgttcatatcggcatta Subject: tfor_TF0365_TF0366|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[383213,383703]|491 HSP 1 e-value: 1.0E-120 bit: 430.0 Len: 221 Query Start:1 Query End:221 Subject Strand: POSITIVE Subject Start: 271 Subject End: 491 gcaagtttgtttaagtaaaacatctcgaccattaaataaatcaacattttatatcaggcttacagccctccgcaggagtgggtattcttttcccccaacgctttgcttcgctacacattgggctgaattaacgcatcccttcggagctgttacagtggtcagccgtcagttccgcattcctccttggaaggggggaaagggggatgttcatatcggcatta gcaagtttgtttaagtaaaacatctcgaccattaaataaatcaacattttatatcaggcttacagccctccgcaggagtgggtattcttttcccccaacgctttgcttcgctacacattgggctgaattaacgcaccccttcggagctgttacagtggtcagccgtcagttccgcattcctccttggaaggggggaaagggggatgttcatatcggcatta Subject: tfor_TF2169_TF2171|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[2345415,2345624]|210 HSP 1 e-value: 9.0E-92 bit: 337.0 Len: 206 Query Start:12 Query End:217 Subject Strand: POSITIVE Subject Start: 1 Subject End: 206 ...........taagtaaaacatctcgaccattaaataaatcaacattttatatcaggcttacagccctccgcaggagtgggtattcttttcccccaacgctttgcttcgctacacattgggctgaattaacgcatcccttcggagctgttacagtggtcagccgtcagttccgcattcctccttggaaggggggaaagggggatgttcatatcggc.... ...........taagtaaaacatctcgaccattaaataaatcaacattttatatcaggcttacagccctccgcaggagtgggtattcttttttcccaatgcttcgcttcgctacacattgggctgaattaatgcgcccctgcggagctgttacagcggtcagccgtcagttccgcattcctccttggaaggggggaaagggggatgttcatatcggc.... Subject: tfor_TF0358_TF0359|hypothetical protein:conserved hypothetical protein|POSITIVE:POSITIVE|[376365,377082]|718 HSP 1 e-value: 3.0E-79 bit: 295.0 Len: 161 Query Start:1 Query End:161 Subject Strand: POSITIVE Subject Start: 266 Subject End: 426 gcaagtttgtttaagtaaaacatctcgaccattaaataaatcaacattttatatcaggcttacagccctccgcaggagtgggtattcttttcccccaacgctttgcttcgctacacattgggctgaattaacgcatcccttcggagctgttacagtggtca............................................................ gcaagtttgtttaagtaaaacatctcgaccattaaataaatcaacattttatatcaggctttcagccctccgcaggagtgggtattcttttcccccaacgcttcgcttcgctacacattgggctgaattaacgcaccccttcggagctgttacagtggtca............................................................ Subject: tfor_TF0349_TF0350|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[370780,370933]|154 HSP 1 e-value: 2.0E-77 bit: 289.0 Len: 154 Query Start:1 Query End:154 Subject Strand: POSITIVE Subject Start: 1 Subject End: 154 gcaagtttgtttaagtaaaacatctcgaccattaaataaatcaacattttatatcaggcttacagccctccgcaggagtgggtattcttttcccccaacgctttgcttcgctacacattgggctgaattaacgcatcccttcggagctgttaca................................................................... gcaagtttgtttaagtaaaacatctcgaccattaaataaatcaacattttatatcagacttacagccctccgcaggagtgggtattcttttcccccaacgctttgcttcgctacacattgggctgaattaacgcaccccttcggagctgttaca................................................................... Subject: tfor_TF2108_TF2109|hypothetical protein:possible metallo-beta-lactamase family protein|POSITIVE:POSITIVE|[2277750,2278081]|332 HSP 1 e-value: 3.0E-64 bit: 246.0 Len: 159 Query Start:5 Query End:163 Subject Strand: POSITIVE Subject Start: 1 Subject End: 160 ....gtttgtttaagtaaaacatctcgaccattaaataaatcaacattttatatcaggcttacagccctccgcaggagtgggtattc-ttttcccccaacgctttgcttcgctacacattgggctgaattaacgcatcccttcggagctgttacagtggtcagc.......................................................... ....gtttgtttaagtaaaacatctcgaccattaaataaattaatattttatataaggtttacagccctccgcaggagtgggtattcttttttccccaacgcttcgcttcgctacacattgggctgaattaacgcaccccttcggagctgttacagtggtcagc.......................................................... Subject: tfor_TF2165_TF2166|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[2341983,2342254]|272 HSP 1 e-value: 3.0E-39 bit: 163.0 Len: 102 Query Start:116 Query End:217 Subject Strand: POSITIVE Subject Start: 167 Subject End: 268 ...................................................................................................................cattgggctgaattaacgcatcccttcggagctgttacagtggtcagccgtcagttccgcattcctccttggaaggggggaaagggggatgttcatatcggc.... ...................................................................................................................cattgggctgaattaatgcgcccctgcggagctgttacagcggtcagccgtcagttccgcattcctccttggaaggggggaaagggggatgttcatatcggc.... HSP 2 e-value: 2.0E-31 bit: 137.0 Len: 69 Query Start:1 Query End:69 Subject Strand: POSITIVE Subject Start: 62 Subject End: 130 gcaagtttgtttaagtaaaacatctcgaccattaaataaatcaacattttatatcaggcttacagccct........................................................................................................................................................ gcaagtttgtttaagtaaaacatctcgaccattaaataaatcaacattttatatcaggcttacagccct........................................................................................................................................................ Subject: tfor_TF0344_TF0346|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[367024,367187]|164 HSP 1 e-value: 1.0E-29 bit: 131.0 Len: 106 Query Start:116 Query End:221 Subject Strand: POSITIVE Subject Start: 59 Subject End: 164 ...................................................................................................................cattgggctgaattaacgcatcccttcggagctgttacagtggtcagccgtcagttccgcattcctccttggaaggggggaaagggggatgttcatatcggcatta ...................................................................................................................cattgggctgaattaacacgccctttcagggctcttacagcagtcagccgtcagttccgcattcctccttggaagggggggaagggggatgttcatatcggcatta HSP 2 e-value: 1.0E-7 bit: 58.0 Len: 29 Query Start:46 Query End:74 Subject Strand: POSITIVE Subject Start: 2 Subject End: 30 .............................................attttatatcaggcttacagccctccgca................................................................................................................................................... .............................................attttatatcaggcttacagccctccgca................................................................................................................................................... Subject: tfor_TF0339_TF0340|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[363808,364032]|225 HSP 1 e-value: 3.0E-27 bit: 123.0 Len: 102 Query Start:116 Query End:217 Subject Strand: POSITIVE Subject Start: 120 Subject End: 221 ...................................................................................................................cattgggctgaattaacgcatcccttcggagctgttacagtggtcagccgtcagttccgcattcctccttggaaggggggaaagggggatgttcatatcggc.... ...................................................................................................................cattgggctgaattaacacgccctttcagggctcttacagcagtcagccgtcagttccgcattcctccttggaaggggggaaagggggatgtgcatatcggc.... Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ GCAAGUUUGUUUAAGUAAAACAUCUCGACCAUUAAAUAAAUCAACAUUUUAUAUCAGGCUUACAGCCCUCCGCAGGAGUGGGUAUUCUUUUCCCCCAACGCUUUGCUUCGCUACACAUUGGGCUGAAUUAACGCAUCCCUUCGGAGCUGUUACAGUGGUCAGCCGUCAGUUCCGCAUUCCUCCUUGGAAGGGGGGAAAGGGGGAUGUUCAUAUCGGCAUUA .......(((((.....)))))....(((((((..(((((.......))))).........(((((..((((.(((..((.((((((......(((((.(....((...))....).)))))..))))..)).))..))).)))))))))...))))))).((((...(((((.(.((((((((.....)))))))).).)))))........)))).... (-63.50) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UAAUGCCGAUAUGAACAUCCCCCUUUCCCCCCUUCCAAGGAGGAAUGCGGAACUGACGGCUGACCACUGUAACAGCUCCGAAGGGAUGCGUUAAUUCAGCCCAAUGUGUAGCGAAGCAAAGCGUUGGGGGAAAAGAAUACCCACUCCUGCGGAGGGCUGUAAGCCUGAUAUAAAAUGUUGAUUUAUUUAAUGGUCGAGAUGUUUUACUUAAACAAACUUGC ....(((..........((((((.((((..(((....))).)))).((...((....((((((......((((.(((((....))).))))))..))))))....))...)).............))))))............((((...))))))).(((((..............((((((........))))))..(((((.....)))))..))))) (-55.70) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 863 110 61 73 23 tfor:TF1716|5end_hypothetical_protein_1837442..1837672_POSITIVE 730 169 121 211 162 tfor:TF2824|5end_nucleoside-transporting_protein_nupG_3014701..3014931_POSITIVE 717 140 93 114 68 tfor:TF0538|5end_hypothetical_protein_566891..567121_POSITIVE 717 140 93 107 61 tfor:TF0539|5end_hypothetical_protein_566884..567114_POSITIVE 664 127 82 181 133 tfor:TF1406|5end_transposase_1481758..1481988_POSITIVE 662 210 161 213 163 tfor:TF0536|5end_conserved_hypothetical_protein_561917..562147_POSITIVE 651 130 81 98 47 tfor:TF0679|5end_hypothetical_protein_721155..721385_POSITIVE 637 140 93 55 8 tfor:TF0678|5end_hypothetical_protein_721103..721333_POSITIVE 628 209 170 47 5 tfor:TF0828|5end_hypothetical_protein_887090..887320_POSITIVE 625 208 163 201 152 tfor:TF1840|5end_transposase_1990221..1990451_POSITIVE 620 100 54 78 33 tfor:TF2191|5end_hypothetical_protein_2365934..2366164_POSITIVE 620 100 54 213 168 tfor:TF0823|5end_conserved_hypothetical_protein_880660..880890_POSITIVE 587 110 63 186 141 tfor:TF2478|5end_hypothetical_protein_2655375..2655605_POSITIVE 585 106 61 46 2 tfor:TF0822|5end_hypothetical_protein_880487..880717_POSITIVE 575 160 116 228 184 tfor:TF1184|5end_hypothetical_protein_1269004..1269234_POSITIVE 568 109 61 68 20 tfor:TF3107|5end_hypothetical_protein_3338459..3338689_POSITIVE 566 148 101 176 130 tfor:TF2517|5end_hypothetical_protein_2695089..2695319_POSITIVE 563 169 121 214 166 tfor:TF1186|5end_hypothetical_protein_1269568..1269798_POSITIVE 549 100 54 212 166 tfor:TF1187|5end_hypothetical_protein_1269625..1269855_POSITIVE 546 106 61 46 2 tfor:TF0821|5end_hypothetical_protein_879879..880109_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 665 190 141 114 63 tfor:TF1182|3end_hypothetical_protein_1268938..1269088_POSITIVE 654 138 94 72 28 tfor:TF2840|3end_hypothetical_protein_3031289..3031439_POSITIVE 603 217 173 97 50 tfor:TF2651|3end_hypothetical_protein_2822014..2822164_POSITIVE 578 220 171 92 30 tfor:TF0828|3end_hypothetical_protein_887508..887658_POSITIVE 570 188 141 151 101 tfor:TF1185|3end_hypothetical_protein_1269563..1269713_POSITIVE 568 109 61 137 89 tfor:TF3106|3end_hypothetical_protein_3338608..3338758_POSITIVE 559 110 63 145 97 tfor:TF1405|3end_conserved_hypothetical_protein_1481819..1481969_POSITIVE 547 209 163 96 49 tfor:TF0821|3end_hypothetical_protein_880195..880345_POSITIVE 537 100 54 108 62 tfor:TF2547|3end_hypothetical_protein_2730947..2731097_POSITIVE 527 209 163 117 68 tfor:TF0370|3end_hypothetical_protein_386317..386467_POSITIVE 522 207 162 151 106 tfor:TF2816|3end_hypothetical_protein_3007184..3007334_POSITIVE 511 97 54 132 88 tfor:TF1274|3end_hypothetical_protein_1357895..1358045_POSITIVE 508 138 99 43 4 tfor:TF0533|3end_hypothetical_protein_559519..559669_POSITIVE 453 179 134 89 38 tfor:TF0685|3end_hypothetical_protein_731132..731282_POSITIVE 439 150 101 63 22 tfor:TF0820|3end_hypothetical_protein_879942..880092_POSITIVE 415 97 54 80 35 tfor:TF0340|3end_hypothetical_protein_364257..364407_POSITIVE 412 85 54 151 122 tfor:TF0678|3end_hypothetical_protein_721335..721485_POSITIVE 404 176 131 79 30 tfor:TF0825|3end_hypothetical_protein_883850..884000_POSITIVE 376 197 153 40 1 tfor:TF1169|3end_lipoprotein_ABC_transporter,_permease_component_1251573..1251723_POSITIVE 375 99 57 60 7 tfor:TF0289|3end_conserved_hypothetical_protein_319363..319513_POSITIVE