Origin IGS: ttgttaattgtcaatggctattttctaaatacatgattcggcgtgtaccacgcataacaattgacaattaaccattgacaattaacaactgaatttgtcattca .........1.........2.........3.........4.........5.........6.........7.........8.........9.........1.........2.........3.........4.........5.........6.........7.........8.........9 tgaatgacaaattcagttgttaattgtcaatggttaattgtcaattgttatgcgtggtacacgccgaatcatgtatttagaaaatagccattgacaattaacaa Mask Tandem Repeat Region ================================================ ttgttaattgtcaatggctattttctaaatacatgattcggcgtgtaccacgcannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnctgaatttgtcattca Find is-nt database================================================ Query_seq: TF0469:TF0470|TF0469:TF0470:hypothetical protein:hypothetical protein:->->:487289..487392 104 ttgttaattgtcaatggctattttctaaatacatgattcggcgtgtaccacgcataacaattgacaattaaccattgacaattaacaactgaatttgtcattca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find is-aa database================================================ Query_seq: TF0469:TF0470|TF0469:TF0470:hypothetical protein:hypothetical protein:->->:487289..487392 104 ttgttaattgtcaatggctattttctaaatacatgattcggcgtgtaccacgcataacaattgacaattaaccattgacaattaacaactgaatttgtcattca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 Find nr database================================================ Query_seq: TF0469:TF0470|TF0469:TF0470:hypothetical protein:hypothetical protein:->->:487289..487392 104 ttgttaattgtcaatggctattttctaaatacatgattcggcgtgtaccacgcataacaattgacaattaaccattgacaattaacaactgaatttgtcattca Intra-Species Hit: Count: 0 Inter-species Hit: Count: 0 ttgttaattgtcaatggctattttctaaatacatgattcggcgtgtaccacgcataacaattgacaattaaccattgacaattaacaactgaatttgtcattca Predict ORF larger than 30AA ================================================ ttgttaattgtcaatggctattttctaaatacatgattcggcgtgtaccacgcataacaattgacaattaaccattgacaattaacaactgaatttgtcattca 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================================================ ttgttaattgtcaatggctattttctaaatacatgattcggcgtgtaccacgcataacaattgacaattaaccattgacaattaacaactgaatttgtcattca Predict TransTerm conf > 70================================================ Find igs database================================================ Query_seq: TF0469:TF0470|TF0469:TF0470:hypothetical protein:hypothetical protein:->->:487289..487392 104 ttgttaattgtcaatggctattttctaaatacatgattcggcgtgtaccacgcataacaattgacaattaaccattgacaattaacaactgaatttgtcattca Intra-Species Hit: Count: 1 Min: 1 Max: 104 Len: 104 Subject: tfor_TF0469_TF0470|hypothetical protein:hypothetical protein|POSITIVE:POSITIVE|[487289,487392]|104 HSP 1 e-value: 1.0E-52 bit: 206.0 Len: 104 Query Start:1 Query End:104 Subject Strand: POSITIVE Subject Start: 1 Subject End: 104 ttgttaattgtcaatggctattttctaaatacatgattcggcgtgtaccacgcataacaattgacaattaaccattgacaattaacaactgaatttgtcattca ttgttaattgtcaatggctattttctaaatacatgattcggcgtgtaccacgcataacaattgacaattaaccattgacaattaacaactgaatttgtcattca Inter-species Hit: Count: 0 Predict Forward Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UUGUUAAUUGUCAAUGGCUAUUUUCUAAAUACAUGAUUCGGCGUGUACCACGCAUAACAAUUGACAAUUAACCAUUGACAAUUAACAACUGAAUUUGUCAUUCA (((((((((((((((((......((.........))....(((((...)))))..................)))))))))))))))))..((((.....)))). (-27.80) Predict Reverse Strand Minimun Free Energy by RNAFold (ViennaRNA) ================================================ UGAAUGACAAAUUCAGUUGUUAAUUGUCAAUGGUUAAUUGUCAAUUGUUAUGCGUGGUACACGCCGAAUCAUGUAUUUAGAAAAUAGCCAUUGACAAUUAACAA (((((.....)))))..(((((((((((((((((((....((.......(((((((((.(.....).)))))))))...))...))))))))))))))))))). (-35.20) Find mRNA Target Using Conserved IGS================================================ 5'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 728 57 11 134 88 tfor:TF2817|5end_hypothetical_protein_3007358..3007588_POSITIVE 610 77 31 202 163 tfor:TF0679|5end_hypothetical_protein_721155..721385_POSITIVE 610 77 31 150 111 tfor:TF0678|5end_hypothetical_protein_721103..721333_POSITIVE 582 65 30 159 124 tfor:TF0822|5end_hypothetical_protein_880487..880717_POSITIVE 582 65 30 159 124 tfor:TF0821|5end_hypothetical_protein_879879..880109_POSITIVE 563 79 31 192 144 tfor:TF1716|5end_hypothetical_protein_1837442..1837672_POSITIVE 548 88 41 105 65 tfor:TF0828|5end_hypothetical_protein_887090..887320_POSITIVE 523 80 31 186 128 tfor:TF1260|5end_chaperone_protein_DnaJ_1345325..1345555_POSITIVE 520 88 42 118 79 tfor:TF1846|5end_hypothetical_protein_1996726..1996956_POSITIVE 494 71 37 95 57 tfor:TF2746|5end_hypothetical_protein_2927996..2928226_POSITIVE 482 49 1 174 126 tfor:TF2191|5end_hypothetical_protein_2365934..2366164_POSITIVE 459 76 31 168 131 tfor:TF2796|5end_cytochrome_D_ubiquinol_oxidase,_subunit_II_2981269..2981499_POSITIVE 450 58 11 183 131 tfor:TF1655|5end_long-chain-fatty-acid-CoA_ligase_1769279..1769509_POSITIVE 439 88 42 104 65 tfor:TF1183|5end_hypothetical_protein_1268391..1268621_POSITIVE 417 80 31 181 132 tfor:TF2994|5end_hypothetical_protein_3210605..3210835_POSITIVE 406 80 35 184 135 tfor:TF2816|5end_hypothetical_protein_3006925..3007155_POSITIVE 406 80 37 111 64 tfor:TF1842|5end_hypothetical_protein_1992571..1992801_POSITIVE 398 78 35 231 190 tfor:TF1850|5end_Na+/H+-exchanging_protein_1998542..1998772_POSITIVE 391 86 42 189 153 tfor:TF2202|5end_hypothetical_protein_2378682..2378912_POSITIVE 377 79 37 231 192 tfor:TF2818|5end_acetylornithine_aminotransferase_3007739..3007969_POSITIVE 3'END mRNA Target Prediction=================================== Score srna_start srna_end target_start tegart_end seq_id 582 65 30 142 107 tfor:TF0820|3end_hypothetical_protein_879942..880092_POSITIVE 431 78 38 89 38 tfor:TF1483|3end_glycosyltransferase_family_protein_1578825..1578975_POSITIVE 423 58 30 140 112 tfor:TF2840|3end_hypothetical_protein_3031289..3031439_POSITIVE 413 78 31 127 78 tfor:TF3003|3end_hypothetical_protein_3220629..3220779_POSITIVE 410 78 39 51 1 tfor:TF2817|3end_hypothetical_protein_3007626..3007776_POSITIVE 408 78 37 91 52 tfor:TF2823|3end_TPR-containing_protein_3014337..3014487_POSITIVE 386 83 41 71 24 tfor:TF2816|3end_hypothetical_protein_3007184..3007334_POSITIVE 362 90 42 44 5 tfor:TF0021|3end_outer_membrane_phospholipase_A_16919..17069_POSITIVE 358 100 62 90 53 tfor:TF0017|3end_hypothetical_protein_11231..11381_POSITIVE 358 100 62 98 61 tfor:TF0016|3end_hypothetical_protein_10581..10731_POSITIVE 351 100 53 40 1 tfor:TF0603|3end_glycosyltransferase_634838..634988_POSITIVE 302 79 31 55 5 tfor:TF2438|3end_hypothetical_protein_2616157..2616307_POSITIVE 299 50 1 52 1 tfor:TF2574|3end_preprotein_translocase_SecY_2745200..2745350_POSITIVE 297 88 41 90 38 tfor:TF0469|3end_hypothetical_protein_487228..487378_POSITIVE 295 99 60 75 36 tfor:TF0468|3end_hypothetical_protein_487188..487338_POSITIVE 292 57 16 68 18 tfor:TF1755|3end_periplasmic_protease_1892867..1893017_POSITIVE 289 60 15 106 51 tfor:TF2038|3end_hypothetical_protein_2199222..2199372_POSITIVE 264 58 29 52 23 tfor:TF3106|3end_hypothetical_protein_3338608..3338758_POSITIVE 251 63 32 119 89 tfor:TF3026|3end_conserved_hypothetical_protein_3250254..3250404_POSITIVE 247 70 25 90 48 tfor:TF2839|3end_ATP-dependent_exodeoxyribonuclease_3031035..3031185_POSITIVE