biotech report

Assignment instructions（请回答highlight的问题，以及按照rubric进行文章部分的划分）
Background
In this exercise, you will look into different gene-finding approaches learn various things about a contig from a genome assembly and annotate the genes it encodes (see sequence assembly lecture if you need a reminder of the vocabulary).

There are two main methods for automatic gene prediction: ab initio methods and comparative methods. Ab initio methods use the DNA sequence as the only input and are referred to as intrinsic methods. There are several features that can be identified in a genomic sequence and used to identify genes computationally. Such features are related either to the signals that regulate the biological mechanisms of gene expression (signal sensors), or to biases in sequence composition in DNA regions that are translated into proteins (content sensors). Signal sensors are typically splice-sites (donor: GTRAGT, acceptor: YAG, branch-site: CTRAY), the start of translation (codon ATG), and the end of translation (codons TGA, TAA, and TAG).

The content sensor most commonly used is bias in codon usage: regions of DNA coding for a protein use some codons more frequently than others. Both signal sensors and content sensors must be trained, i.e., we must start from a set of observations (such as known genes) from which we build a sensor model. Predicting a gene therefore involves looking for new features in the genomic sequence that resemble our model. The resemblance can be established in terms of probabilities.

Comparative methods are called extrinsic methods. They include two strategies: those that use homology with sequences from other genes, also called homology-based, and those that make comparisons with genomic sequence from other genomes, also called comparative-genomics-based. Homology-based methods predict a gene from the alignment of a protein sequence, or an RNA sequence in the form of a full-length mRNA, cDNA or EST (expressed sequence tag), with the genome sequence that we want to annotate. The known sequence (also called evidence) guides the prediction. There are several ways of applying homology-based methods. The simplest is to accept the alignment of the known sequence to the genome as the gene prediction. More advanced methods use the known sequence as a guide and try to complete the evidence to yield a complete gene structure. The efficacy of the latter method depends on the number of known gene sequences; hence it is limited by the completeness of biological databases. Comparative-genomics-based methods hypothesise that any sequences conserved between two relatively closely-related genomes are functional and likely to code for a gene.

The annotation of a genome involves a combination of several gene prediction methods, and perhaps the prediction of other biological signals (such as transcription start sites, promoter regions, etc). In this practical we will use different ab initio (FGENESH and AUGUSTUS) and homology-based (BLAST) approaches to annotate a DNA sequence.

You are required to write a more than 1,250 words report on your analysis. 
Refer to the general assignment preparation guidelines given to you before. 


Introduction: Provide appropriate background to the aims of your analysis. Include the difference between ab initio and homology-based approaches and explain under what circumstances one approach would be more suitable than the other. 


Methods: Make sure in your methods section that you state which kind of BLAST you used for each task and explain why. （还要包括fgenesh 和augustus两个database的说明。）


Results: Based on the tasks carried out in the prac on your allocated 20-kb DNA sequence （attachment：） (make sure you note which sequence you worked on), present the findings in this section of the report. Specifically, we are looking for:
1. A summary diagram of the gene models from the program you believe represents the best, most accurate ab initio annotation. Provide a summary diagram showing the entire 20kb of DNA annotated with all predicted genes. Your diagram should indicate the base-pair positions of all gene features. You must show exons, introns, start and stop sites and the gene direction. You should also provide the polypeptide sequence encoded by each gene. Include in the text the annotation method you chose to depict in your diagram, and why you chose it (i.e. strengths and weaknesses compared to other methods). Explain the support you obtained for these predictions. Use the appropriate BLAST program to determine the type of protein produced from each gene predicted by your chosen ab initio method. Present the evidence and comment on your confidence in each BLAST result. 

2. Report on the homology-based method to give an independent prediction of the gene models in your 20-kb sequence. Provide a summary diagram showing the entire 20 kb of DNA, annotated with all predicted genes. Your diagram should indicate the base-pair positions of all gene features. You must show exons, introns, start and stop sites and the gene direction. You should also provide the polypeptide sequence encoded by each gene. Determine the type of protein produced by each gene predicted by the homology- based search. Present the evidence and comment on how confident you are in each BLASTx result.
3. Find and identify the one type of gene that is found on all DNA fragments for the class. Either download another few sequences to identify the gene type in common, or check with your colleagues which gene types they found.
Tip for visualisation purposes: Geneious Prime is very convenient to show annotations along a sequence. You can download a free trial from here: https://www.geneious.com/prime-features (Links to an external site.). Alternatively, visualise the results in PowerPoint or similar software.

Discussion: Include the following discussion points:
1. Compare the ab initio predictions and the BLASTx-based homology predictions for your sequence and comment on which approach worked best for annotating your sequence. 

2. Comment on why BLASTx was used for the homology-based prediction. How is BLASTx different to the other kinds of BLAST? 

3. Discuss the predicted biological and/or biochemical function of the gene found in Results #3 above. Include the nature of the conserved functional motif(s) and the homology to characterised genes. You will need to search the scientific literature in order to determine the biological and/or biochemical function of the chosen gene. 


Visualisation results：
Fgenesh:

Augustus:
>42
CTGGTTCATCCACCTCGTGGTAGTTCTGCTTTACACTCAACCACGGAACCAGGACACTGCCAAAGACGGA
GAGAGCGGCCATGGCAGCAGCTGCCAAGAATGCCTGGTCTAGAGCATGGTTGTATGCTATGAGTACCTTG
GGCAGCTCCTCCGCGGATACGATATTCTTGATGTCAGTTGCTCCGGTTGTAGTGATAATGGTTGGATTTA
CCGATGGCACATTGTGAGCAAGTGAGTTGACAAGGGAGTTTGTAAAGATCGAGTTTCCGATACTGACAAA
GATCATTCCGCCAAGTGTTTGCAGAAACATAATGATAGATGTACCAATAGGTATGTCCTTTGTTTCTAGG
GCTGCCTGAACAGCCACCAAAGGCTGTCTTGAACCGAGACTGTATCCGATGCCGAACAGGATCTGATAAC
CAATCCATTTCCCGCTTGAGGTATGAACTGCAAAAGTAGAGAGAAGACCTGCTCCGACAGAGGAAAGAAT
TGCTGCCGCAATCATGAACGGCGTATAGTATCCTAGAGCCGTCACCAGGCCGCCGACCATTATAGACATG
AGAATTGTTGAAATCATCATTGGAAGGTTTCGAATGCCGGATTCAATAGCTGAAACTCCTTGTATTGCCT
GGAACCAAATGGGGATGTAGTATATGACAAGAAAAAATGCCGAACTTGTACAAAACCCGTAGAGGCAACC
AGCCCACACGGAACGATTGCGAAAGATGCGCGGAGGCACTGTTGCAGCTTCTTGTAGGCGAAGCTGGATA
AGCAGAAAAGCTATGATCAGAACGCCAGAAAGAACCAGAAGAGCAATGATTCGCCCATCATTCCAGCTGT
ACTTCGAACCTCCCCATTGTAGGGTGAGCAACAGGCAAACCATTGCTGGTAAGAAAATCAGGGTCCCAAT
GGGATCCAAGACTCTTATGCGATCCATCCAAGTTTGAAGCGTTGGCACATCTCGTTGCGGATCCTTGAGG
ATCAACCAGATGGCCAGAGCCGTAACGCCGCCCAGTGGTAGATTTATATAAAAGCACCATCGCCAAGACT
AGTGGTATGAATGTTAATAAGAAAAAGGCGCATTTGGTATTCATAATCCTTTGTGTTTGGAACGTACCAC
ATTGTCAGTAAGGACGCCTCCGATGATAGGACCAGCCACAGATGCTATCCCATACATACCGCCCGCTAAA
CCGATATATGTTGGTCGTTTTGCCAGAGGAGAAGTATGGGTGATGATGAGCAGAGCACCGGAAAATATAC
CGGCAGAACCAGATCCAGCAATTGCTCGTCCGACGATAAAAGCCGTTGATGAAGGTGCGACGGCGCATAT
TAAGCTACCGAGCTCGAATACGGCGATGGTCGATAAGAAAACCAATTTGATGCTCCAAAATGTGTAAATC
TTGCCGAAAATGAGTTGCAGGGAGGCAGTTGTCAGCAAGTAAGCTATAGTCAAGTAGTATTTAGTAGGAG
TTTTCAAGGTACTGTAGTAAATGCTTTCTAGGTTGGCCTACCACTTCCGTACCACCCTACATCTAACACG
CTACCAAAGTCATCAGTGATTTTTGGAATCGCTGTGGTTATCACCGAGTTGCTTTATCACGGTCATAGTA
TTAGTTCCTTCAATAGCAAAGTGCGAGAGAAATGAAAACCATACTCTAAAGCCATCAAGAAGACTGCAAG
ACACAGAGAGACCACTATGAGAAACATTTTCGCGCCCTTTGGGTAATTTGTGTCATCTTTCGCTCGGCCA
ACTGTTTCTCGTGATCCTGAAGTAGAGCTGTCATTTTTTTCACAGATATCCTCATTGGCCAGTGTTGATA
GTGTGCCATTTTTCAGAACATCTGTCAATTCTAAGGAATCGCCAGTAGTTCCCTTCGACCGTTCTGTGTT
AAGCGAGAGCATGATATTGAGCTATAATGAGTATAACGACGTTCAGTGTTTTCTCTAAATTCTTCCCTCC
TCATTTGCGACAATGGAATCTACGAAACACAGCTTTCGCTAAGTAGCTACCAGACTACTATTGCATAATA
AGACACGTGAAATTAGTGCTGCTCCGGTTTTTGCGACAATTACCTAAGAGAGCCAAAAGCGACTTTTCAA
GGTGGAGCTTAGGTACCGGTACTGGTAGTGATCTAACGTACATATCCTAGCTTTCTTGAGACCATACACG
AGAAGACGGTGTTCGGCATCTTACTTTTCGTCCGGTGCCTAGTGGATTACTTGCGCAGGAAAGCCATCAT
TCGGTGACTTTTTACCAGTCAAGTCGTTCAAAATTTCATCGGCTGCACTAGGAAGTATCGAGGCGACTGT
GCGTATCAGGGCTAATACTTCGGCTGATATAGTCCTCCCTAGAAACAAGGACATGGTCATAGAGGCCCCG
ACAACTTGAAATGCGAGAGAAGGAATCTCACTGGTACTCTTGAATTCATGCTGCTGCCCGTCGACAGAGC
TTCTAGAAATACGGAGGATGATATGCTTGCATGAAATAATGGACCCATTCGGGTTCGGTTTCCTATTGCA
GAAGGCCTGCATCAAATGAAACCGTCATCTCGGTTGAAGTAGTCAGCATAGAGTTAGTGCTAAAACACAC
AAAATTGATTTGGATGCTATGAGACAAGACGAGGAGACCGACTTCTACCTACGTAATACGATTATCGTGC
AAGGTTATGATATGCACGGAGGCGGCCTATAGCACTCGGAATCAGCCCTAGGTATCAATATTGTAAAGGT
TGAAAAGCCGTTAAGTTAGAGTAAAATATTATTATGTATATGATGTGATGCAAATAAGATCAGCCATGTG
CCCTGAATAACCCTAATTCAACTCCGCATACTATGGCAGCAGCAATAACAGCAAGAAGGAATCACCCTTT
CGCAGAGAAATGGCCATCTCTAAAACACAAACAGCAGTCATCCAGACAAACGAAAAGTCATCGCTTCCAT
TGATCGTATCGCAGTCGGTACCAACGTTTCAACTGCCTTCCGAGCAATATGTACTGGTTCGTGTGCTGGC
CGTGGCCCTGAATCCTACAGATTTCAAAATGGTACAGCACTTTCCAATCGGAGACAATCTCGCTGGTTGC
GACTTTTGCGGAATTATCGAGGCATGCGGCAGCAACGACACTGCCAACCAATTTCCAATTGGAACACGAG
TATGCGGTGCGGTGTTTCCTTACAACCCCAGTCAGCGCCAAAGCGGTGCCTTTGCGGAATGGGTGATTGC
CGACTCTGGTTTATTGCTGAAGGTCCCGGAAGGTTGGGATGACCTCGATGCAGCGGCTTTAGGTGGAGTC
AGCTGGGGTACCTCAGTACTGGCTTTTTATGATCCTGATGCGCTGGCACTCATTGGTCGTCCCACTAAGC
CGAGTGAGAAAAGGGAACCAGTTTTGGTTTACGGAGCTGGCACAGGATCTGGCACAATGGCTTGTCAATT
ACTAAGGCTGTAAGTCATACCGTATACAGCTTGATAGACAGAGATAATTGCAGGCTAACTCAAAGATCGT
CTACATTTCCAGAGCTGGATACGCACCAATTGCAGTTGCTTCTTCGAAATCGGCAGCTATGGCTATGGAA
TACGGCGCAATTGGTGTTGCAGATTATACATCCTCAACTTGTGCTGAAACAATCAAACAACTCGCTGGCG
GCGCTCCAATCCGATATGTTCTTGATTGCATAACCACGGCGGAATCAGCTGCACTTTGCTTCAGTCTTAT
TGCCCGTACTGGTGGTCGCTATGCTTGCCTTGAAGAGTTGAGACCAGCTTGGAGAACACGTCGAACAGTT
CGCGTTAAGGAAGTCATGGGCTTCGAAGGCCTTGGAATAAAAATTGATTTAGGACCGACGGCCTATTCAC
GCGACGTCAATCTTACCCTTCGCAAAATTTGCTGCGAAGCTACCAAGGAGATTCAGACGGTTCTCGATGA
AGGGTTACTAAAGCCACATCCTGTTCGTGAGGTTACAGGACAATGGCAAGGCATCATTGATGGACTAGCT
ATGCTTCAGCGAGGAGACGTAAAAGGACAAAAGCTAGTGGTCAGGGTTTCTACGATATAAACGTAGAAGC
AATAGCAAGAAAAGAGTTGGAAGGGAAGCCAGCGATGTATATTCTTTTCTTGTATGTACCTAGGTAGCCA
TACGAACCATATTTTCTCTGGGGTGTTCCTTTTTCAGCTGCTGCATATATCTACTTGTTACGAAACCGAC
TTGCAGGGATTGTAAGATCATTTAGGAAAAGCGTGTATTAGACAGGACATCAGAATGTGGAAAGCTGATT
GTTCCCAGCCCTCCTCTCCTCAGCCATCATTTTAGGCATCTGCGTCTCCTCCCCTTCTTCATCTCAGTCA
ACCTGCGCACTACCTTTACACCGGCACGCACCGTAATTGATGAATGCTCATTCAACAAATTGGACAAAAA
ACATGCTACTTAGTATTCACGGATCAGTTGGCGGGGTCATCCGAGGTCAGATGGTCTGTGAGAGACTACC
TTCGAACTTCTGTTGCAAATAATTTTGTCTCCATATTGCCATCGACAGTAGTCTTTATCACCACAACTAT
GGATGAGAAGTGTGAAATGATCAAGTTGCTTGGGGGAATTTTTATTACTGATCTAAAGAAGTACCCTTTC
TTAGATTTGCCTGAATGATGCCTGAGCTCCTGCACATCCCTCGTCTTCTGAGGTCAATTGCTTTGTTTGA
TTGTTGATGATATTGGTAGAGGGTCTGATCTTCGGTGAGTGTCGCCAAAGCAGCCCTCCTTTGTCTGTAT
GTTTTCAATGTAAAATCATGACTATTATAAGAATCCGGCTTGCATGAAGCTCTCTATTGTTCATTCTATT
TAGCAGGAGTCTCTCTTCGCAATCGTTCTTCCGCTCTTATGAACATAAAGCGAGCCGAACTGCTGAGGAC
ATCAGGTATAAGACGACTCGCCGGTAAGCCTAAGATTCCATTTTCGGGAAAGAAACATCATTGTATATTT
GATCACTCTTCTGGAACCGGACGTTAAGAGGCATAATCAAATATAGTCCTTGATTTGCTGCTCAGTCCAC
TCCCAAAATTTATACGCACCACCTGTGCCACCCTCCGACTCGAGCTTCGTCGCATTTATCAGGTCCGGTC
GCAAGGGGTAGAATCTTCCGAAAGGAGCCACTAGAGAAAATCGCTAATATTAGCAACTGGATAGGAAAAC
AGAAAGTATGGTGTAATACGTACCCCATTCTCCCGACTTTTCCAAGGTGATTTCTGGCGACAATGCGGCA
AAAAGCTCGGTGTATGCACCCATTATAGGGGGATAACCGACTACTTTGACAATTGCCTTCAAGGCTGCGG
GTTGGTCGCGAGCAAGTTCCGAGGTCAGATTACCTGGGTTGATCGGTACACTCACAATGCCATCTGCTTT
GTGACGCCGGGCATACTCCACACCAAGTGCCCAAGCACCACACTTGCTGATTCCGTATCTCTCAGTTGCT
GGTTTGGGCTCATGATAATCCAGATTGTCGAGTGCAACGCCCACATTTTCTGCACCGAAAAGCTCTAATC
CAAATGAAGAAAGCCAGATCACACGGACCGAACCTTCGGGCTCGGATTTTGCTGTCTTTGCCAGAAGAGC
TGTAACAAGCCTGGTGAAGAGATGCGTTCCGATACAATTGACACCGAGCGCAAGCTCATGGCCTTGAACA
GTATTCGTTGCCTCTGGTGTCCCAACCATTACGCCGGCATTGTTGAAAAGAACATGGAGCGTTTGTTCCT
GCGACAAGAATAGCTCGGCGGATTGCTTCACCGTGCTGAGATCGCTAAGATCCAAATGAAGAAAATGCAA
TGAACCGGTAGAACTGGGCTGAGAATTCCTGATCTCGTCAATAGCTACGCTCGCCTTCTCCGTAGAGCGC
GCAGCCATCCACACTTTAGCCCCCTTTGAGTAGAGAATGCGAGCTGTTTCTTTTCCAACCCCTGTGTTGG
AGCCGGTAACTAGATACACCTTGCCTTCAAGACTAGGCACATTTTTCTCGGTAAATTCGGGTTTAGGAGG
GCGAAATGAAGCCCAAGTGCTTCGTAGTGATGGACCAGGTGCCATTACTTTTCTTATCGTATTGCAGATT
GACGTGTTTTCCGGGTCGTAAATGTTTCGTAGAAGTAAACACAGCTCTGGTTGACATGTATCTTTTCCAT
AAATAGTGTACCAAGCGCCATTGGACGACTAGAATTTACGGTAGTAACTCGGAGTTGTTGGATCATGGCC
CTTCAGCCGGTGCATTCGATTCGGATTCGGAGCATCAGCAAACCAGAATCTAGTTTGTCAAAAGTCATAA
TCTACTACCTAACTACTACACACCAGCCGGCTCATCTATTTATGAAAAGTTGACACATTATTGCAACCCG
CCATCCTTGTTATGCGACTTACTGTTAAAGCTACAATTAGTACTGTTTTATAATTTGGCCATACTCAAAC
TAAACGACTCACAAATTTGGGACATATCTGCTTCAATCTCTGCCACATGAATAGCTCCTCTCGGAGCGAT
ACATGCACATACTTTGATTGTCCTCCAGGATGCTCACTGATTTAAGTATATGGCATTTGTATGGGAATGT
AGGTTTTATCTTCGCAATAATATCGGAGTTCTATACTGGAGTGATTAATGTCGAGATAATAATAGTCGAT
CGTCTACGAGAAGTAAACGAATACCAAAGTGGCTTGAAGTAATAGCGTCTCATTCTTACCGTGTTTAATG
ATATTCAGAAACTAGTTTCGTGGTCTCACTCATTGAAGACACATCTCAACTTCATGCGTATCTAGAAGAA
AATAGGACAAAGACCTCACATAAATGTGGAATGAAAATTACAGGACTACCATCAGGGAGGACAAATTCTG
ACCTTGGTATCGATCTACAGTCGATAACCAACTTACCAAAGTCGCTTTATTCTGATCTTCATCTCACGAT
CTGGAGGCATAGTACCTGCTCCGCAATAGGTTTGGTTATTCTGCGCTGGTCGGTCTGAAGGAGATCCGTC
CAATTTCACCCATTTAACAACCTCTATGTCGAATTTCGATACTAACATGCCTATTGTAGTCAGGATCTCG
TGTTTAGCGAAGTGTCGTCCAGGACAAACGGGTGGACCGCCGCCTACAATGATGGATTAAATTAGTATCA
CGATGAATGGATGAGCACGAAAATGAGAGTTGATCATACCGAAAGGAAAGTAGGAACTCGGCCGCCCCGC
CATAGCAAAGACACGTCTGCGCTCAGTCTTGCCGTCCTCCTTGGTGTCCTCCACGTATTTGATGTGTCGC
TCAGCCCAGAATTCAGAAGCAGGGTGTCCACTTGATCCCCAGACACTTTCTTCGTAATGCGCAGCCATCA
TAGGGACCTGTAACATGGCCCCCTTTCGAATATTGTATCCGTCCATGGTGATGTTTTCTTTGGCGTGGCG
AATAATGTTGAAATTCATGTGCAATCGCAGAACTTCGGTAAAAACTGACTGTAGCAAGGGCAAGACTACT
AACTTCTGAATATCACAAATATGTTCACCAGTTACAGGGTCGATGGAGTAGGTTGTAGCTACTTCTTCCC
GGACCGCTTGTAGTAGGCACGAATCCTGGAAGATCCGGAGAATCATCCACATTGTGGTTGGGATAGTATT
GGAATTCTGTCTGTAGATAACCAATGTTAGAAAGAAGCGTGCGAATGATATCTCACATCTCATGAGAGAG
GAGAACGTACGCGAAGAGAAGAGTTCCAAGTGCACCAGATATGGATACGTCTGGAAAGCCACTTTCCTTG
AACCACTTTGCAATCTCGCGACAAACGCGAGCACCGAAATGAGGTTCCCAGCTCGATTCGGCGTCCGGCC
CATTCCAGTCAAAGTTGTCCCAAGCAGCATGAACATACCTCTCGATCGTAGAGAGGTACTTGTCCTGGGC
ATTGTAAGGGCCTGGGTTGAGCCATTTGGGAAAGCCCAATGTAAGCATAAACACATTATGATCGAATTCC
CAAAATGTATCCAAGAAGTCTGGGTCCAACTCGAAGACCTTAGGGCCCAACAAAGTACTCATGGCGCATT
TGGTCACCTCGCGTCGGCACGTTTCAACCACACCTAGCGTAGTCCACTTTTCAAGAGGATATTTATTAAG
ATCGTGCGCAAGCTGATTGCTATATGCCTGAATAATAGGCTTCAAGTGTTGCGTTCTCGCCAAATATTCT
GTATGAATTTGTTCGTATCTCGCCCAGTATCGCTGTTCCTTTGGTGTGCCTTCCGTGCCTGGTGCAGGAA
CATGACCTCGCCCGGACTTGTCGTTGGCAAAGCGCTCTACATGGCTCTTGGGCATTTTGTAAAGAGTGGG
AAGAACAGCCTGAGTGAAAATTTCTTCGCTTCCGACTTTGTTGTCCCTGCCGAATATGGACTGTATATGT
TTTGTTCCGGAGATGAGGTAGACCGGCACTGTTCCCATGTAGAATTTCGCAATGCTGTTCTTGCTCAGTA
GTTTCCTGTTGGCAATAACAAGCCACGTTATCAGTTCATGAATTCCCCCATATTGGAATATACCCAGTAG
AATCAACACCGAGGGAAATCGATAGTACTAACATTACGCGTTTCATAAACTTTTCATTATTGGTCAAGAA
CTGAACAGTGTTATATATGCCAGGAATCGGGTCAGATAGTTTGACGGGCTCTCCCCGTGAACTTATAAAC
CTCCATGCTGTGAGGGACAAAAGGATGAGGAGCGGCCAAATGACGTTACGATTTCCAAGGATTCCCAGCG
TATATTGTGTTAGAGGTTCCGTGACCTGCATTGCTTGACTGAGACGTTGATCCATCGTTGCCCCCATAAG
AAGCTCGTCCTCACAATCAAGTTGCAAATATCATCCGTTCTTCAGTCAAGCGGACTCGACTATGGAAACA
ATATATGGCTATGACACAGTGAAACAATCGACTACAAACGTATAATCGTATTGATTCAGTTGTTCTATGA
TACTACTTCAGTAGGTACATAGGTTTTAGAGCTGACACTTGGTCATCAGGTGGTTATTTCAGTAAAGTCT
CCTCCGATTGGTGCGAGACCCCGATTTCACAGACGTCTCCCCGAATACATACCCCGATCCCGAAGTGCTC
TCAGAGGATCCATTTCAGCCGAGGTGATTTCCAGCAACGTAAGTAATTTGACCATTTAGAATCCCTAATT
CTTGCTTTATCAGTGTGTCATGAATGCTTATTTGACTACCATAATCCGAGCCAGTGAATGACGGTAGCTA
ACTAGGGCGAGGATGATAAAGCCCCAACGAAGGCCTAACACCACCAGCAAGACGTTGACGAGACCGTCAC
ATACTCGACATACACATTATATCGCCTATCGATAAATAAGACCTGTAAAATAAGCTTCATATCAAGAAAT
GAGACAATAATGTACAGTGTCCATCGAATCTTAATGTATTTAGCCCGTGCCTTCAGTAGCTGAGATTCAT
TCCAAGGTTCTTAACTCTTTACTTTAACTCGCTCAGTATATCAAACATTCCTGCAAGCACTGTCATAATT
CAAGGTTCAACAAACATTGTCACAGGCTATTTCACTTCGACGGGCGTTAAAGTCACATTCAATGGTATCC
GATCCCACACGTTGTAATTCTTCTGCCTCTCGATCCAGCTATGGCTGCCATTCGCAAGTTTCATATCAAA
ATTATAGAGAATCTTAGCCAAGATAAGACGCATTTCCGTCATTGCAAGACTAGGGAGTGTTAGGTATGTC
CAATACCGGTACGCACGAGCTCAACAAGGGTAAACAGAAAGATGAAGAGTACTAACTTTCTTCCGATGCA
ATTCCGCGGTCCCATGCTAAATGCTTGAACGGCTTCCAACATATCACTGTGTTCCTTGGCTACTTTGACA
TCCACCATAAAACGTTCAGGGCGAAACGACCAAGGGTCGACCCAGTTCTCCTTGCTGTGATTTATCGACC
AATGTTGGATCTCAACTAGGGTCTAAGTTTTAAGAGATGAGCTTGGATAGTCACAAGAAAGCTTTTGCTG
AAACGGGAGAAAAGAAAGAAAAAAAAAAAACTAAACTCACATCACCGGGAACGAATCGCCCTGCGATCTC
AGCACCTCCTGTAGGGACTTCTCGCACCATTCCAGAGGTCAAAGGTGGGTACATTCGCAAAGATTCGTTT
AATACAGGAATCAAGTATGTCAATTTGTTTACTGATTGAATATTTATATCCGCGTCTGTTGAGAAGGCAG
ATCTGATCTCCGCGGTCACCTTCTCCAAGACCTCTGGATGCGTCAGAAGGAAATAGGTTGTGCCAGATAG
ACAAGTTGCAGTGGTTTCGGAGCCAGCTAGGAGTAGGACAGTGGCATTCACGCTGAGTTTATCCTAATAG
ATTTTTAGTAGAGAGTCCCGCAATACACAGAGTGTCCTGGATTGCGTGGGTGCATGAGAGGATCACTTAC
TAGAAGTGGTTTTGTTAGCCACCATATTACCACCAATCATCATTTTAAGCAAAGAGCTTACTTACCAAAA
GATAGCCCCTAAAGAATGGAGACTCAAGATTTAGTTACGGTTATTCCCGTTTTCAGCAGACCTGGTGAGG
ACAACATTACCCATTCATCTCGTCTTTTAGCCAAACCTTCAAAAAGGTCATCATGCCTTTGCTTCATTGC
CAGCCTTGACTTTAGCATACTATCGATATAACCGCGCATTGTTTTCATCGCGAGAAATCCACCGGCTTTG
TGGATCAATTCGACCAGCGGCCTAGCACCGCCATAACCTAGAGCTACCATGAACGCATGAAACTTGATAG
CCTTCATGATAGTAGCAACCCATGGGTGATAATTGACTGTTTGAAGACAATGGAACGACTCTCCAAAAAT
CAGATCACTCGAGAGGTCAAAGGTTGTCCAGTTATACCATGCCGCCATATCCGGATTTTTGCCAGACTCC
GTTCGTAGTCTATCCACTAGCATGTTTATGTGTTTGAGCATGGTGGGTTCTTGCTGTCTCATGGAGCTGT
CCGAGAAGCCATGAGAAAGCGCTCGTCTCAGTTGTTGATGTTCGTCTTGGTCGGCATTAACAATGGTGGT
AAGTTGGCCTTTGACATTTCGCGTGAACTCGGTAGACTTGGCCATTTCCACCATACCACCTACAGCCCCA
ACACGGTGGTAATAAATATCCTTCCATGCCCGTGGATCGGTGAATGAGAGGTGGTTGGGCGCAATGCGCA
CAACCGGCCCATACATGTCATGGAGTCGTTGGGTGTAAAATGCTTGTTCGCCGCGCGCATGACGAATAGC
CCATGGAATACGGGAGATACAATGAACTATTGGCCCAGGAAAGTGACACAAAGGGTGGAAGAAGATATTG
TATATGGCCGTTACTGCGCTCCAAAGACAAAATACCTTTCGAGCTGAAATATCAGTTGTTGCAAGAGATT
CCAGGGTATAGAAAGGTAATGGTAAGAGACACTTCACGCACCGCTGTTAGGATAATTCCAAGATTGACCC
AAAAGCCCAACTTATCAGGTTGGAGAAGTTGCCAAAGAGCTATAATAGTAGTCATGTTGTTCTTGGTTCC
AAGGTTTTACGTGGTCTGGAGATTGCTCAATAGGACTGTTGATTCATCAGGGACAAAGAAATATGGAAGG
AAGCTAGACTGGTTCTTACTATCTAATAGCTCGTACTTACGACCGTTTTGGAACCAACCAACCTGCTGTA
GCGCCATTCAACATACTATTCCACCTGAACTTCATGATTGTGTATTATTCTCCATCCGGCATTTTCGGCA
AACCTTTGATTGTCGCAAACAATACAAGCCACGTTGCCTAAGCGAATAGGGAGTGAAATTATCTGGAAAC
GCCCAAGTTAATACATCAAGTTAGTGACAGCTGGAAGAAGAGAAGAAGGAAACACAAGCATACATCGGCT
GTGTATAGAATCGGACGTCGTAGCCCTAACTAGCCATCCGAATCGGCCCCTACAGCCCAATCAGATGCCG
AGCAATGGTCGGGTCATGTCTAAACACCGCCGAATTTACGAATGGAAGGTGTAAGAACAAAAGTTTCAGA
AGTAGGATTATTATTGTACATTGCGATTCCAGCGGAAATAGTAATTTCTGTTTCGTTATGTCCGTTTTGA
TTCGCCTGGAGTCCGTTGTTGTATCCATGCCCCCCGTTGATTGTAGACATGCACCCAGTTAGCTAAGCTC
AGTCACCACGTTATTGAAATATCTGACCTGAGTGAAGTTTTGCCACTCTTCCCTTCTGGCATTTGGTCAA
ATTGTAAGTGGTGCAATAGAAGCCTTTTGGCCTCTAGGATTCAGATTGTCGAAACCTTACATTGTGGGAC
TGTTATCCATGTGCAAAACATCTCAAAGTACTACTGATTTAGACTCCAATAAATCACTTTCTTTATCCAC
AAACACCAGATACATACATACATACGTGAGGCATCGTATGCACCAGGCATTATGGAGGCCGTCTTAGAGA
CAGGAATGACATTCGTGTCGAGCCTCACAATGAGGGACATGTTGGCTTTGGCCGTTTCCACGGTTTGAGA
ACATCTAAAGTACTGGAATATGATGAACGTTATCTCATGATACTATTGTGTACAGACTCTTCTGGTGCCA
ATCACTTGGATGATCTATAACCTCTATTTTCACCCGCTGGCGCGCTTCCCTGGACCCTTTTGGCACCGTG
CTACACGTCTTGCATACGTTATCAAAATGAACAAAGGAACACTTGCTTTCGACGTGCTTCCTATGCATAA
GAAGTACGGTCCCGTTGTTCGAATTGCGCCTAACGAACTCTCCTTTCAAACTCCCCAGGCATGGAAAGAT
ATTTATGGTCATCGGACCGGCACCGCTGCCGGAGCTGAGGAAATGGACAAGTATCATACATTCTACCGTA
CCAAGGGAGAGGTTCTCAGCATCAGCTCAGGAGGTCGCGAGTATCATGGAATTCTTCGTCGTCAATTAGC
ATACGGATTCAGCGACCGCGCCATGCGCGAGCAGGAGCCTATCATTGGCAGTTACATTGATTTGCTGATC
AAGAGACTCCATGAAAACTGCGTTGATCCCAACGTGAAGGATCCCAAGACAGGAAACCCAGCGGAGAAAA
TGCTAAACATGGTCTCCTGGTACAATTGGACCACATTTGATGTGATTGGTGATTTGGTCTTTGGCGAGTC
CTTTGGATCGCTTGAAAATGGAAACTATGACCCTTGGGTAGCCGCTATCAATGACTCTATCAAATTCCTT
GGTGTTATCAATGGAGTCAAGCATATGGGTCTTGAATCTCTGTTCATTTGGGTTGTTAAAAAACTTAATA
CCGGCCGCCGTGAGCACACAGATCGATTGGTCAAGAAGCTTCAGAAACGTATCAATCTCGGCGTTGAGCG
TTTAGACTTGATCGAAGGCTTGCTACAGAAGAAAGATGAATGGGTGAGGGAGGCCCCTCTTCTCAAAGTC
TCTGAGATTGAACAATGTTTTTTTTTTTTTTTTTTTTTGTTTTGTTTTTCTTACATCCGAGTGCATGCTG
ACATTTTATAGAACCTATCTATTCACCACCTTGAAGCCAACGGAAGTAGCATCTTGATTGCCGGTTCAGA
AACAACAGCTACAATGTTGAGTGGTGTTACCTATATGCTCCTTACACACCCAGAGGCCCTCCGCAAAGTT
ACCAAAGAAGTGCGCACCACTTTCAAGTCCAGCGAAGAGATCACATTGACATCTGTCAGTTCTCTTACGT
ATATGCTTGCCTGCTTGAATGAGTCACTGCGTGCTTACCCTCCTGTCCCTTTTGGCATGCCTCGCCAGGT
TCCAAAGGGCGGAGCCACCATTGCCGGAGAATATGTCCCAGAAGACGTGAGTTTATTCCCCACTGTTGTT
GTCCATGGCTCCCACTCCATGGGCTTCTCGTTGTTTGTTTCAACTTACTAAACATGGACCAATCCAAGAC
CGTCGTCGCTATTTGGCACTGGGCTGCCTACCATAACGACCAGCTATGGACCGATCCATTCGGCTATCAT
CCAGAGCGCTATCTCCACGATCCCAGATTTGCTAATGATGCTTTTGCAATCCACAATCCATTCTCCCACG
GGCCCAGAAATTGCATTGGAAGACAGTAAGCCAAACCAACAACTCACAAGGATGAGATGAACTATTAATT
GTATGATGTTATTGTCACTGACTTTCTCGTCTAGTTTGGCATACGCAGAAATGAGACTTGTATTGGCGCG
CCTCCTTTTCGATTTTGAGATGCGTTTGGCAGATCCTGACTTAGACTGGTTGAACCACAAATCTTATGTG
CTGTGGTCGAAGCCAGCTTTGAACGTATATTTGACTCCTCGTGAATTTTAAATACGTTTTCATGGAATTT
ATATACTGGTATCCTCCTGAGGTGGAATCTGCCAGCAATGAGAGCTAACCTTGATTACAACTAGAATGAA
ATCCTTCCAAGGTTATTGTTCTTGATTTTAGTGACTGCCTTTTTGTTTTATTTAAATTTGGAGGTTTGGC
GATACAACATTGAATAGATTGTAGCAAGGAATCCTGCCAGGCTTGATTAGTTTCTCAGAGTAAGTTTGTA
CCTCTGCCGGTATATATATACATGGATGTATATGTAGATCTTCAAAGTATGTCATGAGGAACATCAGGGG
AGACGTCTACATATGACATAAATTATCCACTATGAATAAATAATTCATGGAATCCATGGGTCCCAAATTC
ATCTACCCTGGACCTACACCGAAATTACAACTGGCACGCTTTACTTCCACAAATGTTGTAAGGTGCCAAT
AGTATGGGCCTCAAGGCTGGCAGGGCTGGGATGTCTAAGTAAGAAGTCTAAACGTGGGCAGACCACCAGT
AACTAGATCTAATAATACATGGCAGTCTGCGTCTGGTTGCATATGTAACAGTTTATCTCCTGCATATGCC
TCGGTGATCTGAAAATACTGCAACTTCATAACCGCAACTGAATCACATTGAACGTATCCGCTAAATCTAA
CATCAGCTCATCGCAAGAACGCACAGATTTCACGTTAAACGCAGAGTCAAATCAAGCACAATGCAGCTCA
CGCATTACGTCGTTAAAGGTCAACCCCAAAGCATTCGGGCGACCATTCCATATGGGGCAAGATTGTCCCG
TATCCTCTCATTATGGGACCTTGTGTATCCCCTCGTGTCCTCGTATCGTTATACCGCATTTGATATTAAC
CACTCAGATGTTCCACCTCCTTCGGAAAAATTCATGATCAACCACTTCACGCAGACTCACAACATTCTCG
ATCCTCACTTGTTCTTCGGCGTGTTCAACTGCGCAAGCTTCTTCTGCACCTCCGCCTCGACCCTCCGCTG
CAACTCCGGCCGATACCCAAACATAAACAAATACTCCAAAAACACAAACAACGGCGCCAAAAACAGCGCC
TGGAAAAGATTATCCAACAAAGCCGGCGATCGTCCCTCGTAGGCTCCATGGCCAATAAACTGAGCAATCC
ATGACACGATAAAGATTCCGAAGGACCAGGATGTAGCAGTCGCGCCGTAGGTCATTGTGAGGTAATTCAT
GTAGGCGGCGGCACCCAGCAGAGTAGGAACGCATATCAGACCGACGACCGGCTCGAGGAGGATGTAGCCC
AGGGCGTAGATTAGGGATTGGATTGTGCCGGCGTTGAGAGGGAGGTATTTGTATTGAAGAAAGTCCGGCA
GGGGGATGAGCGTTGGTGTGTTGGTGAACTGTGATGAGACGACGGTCAATACACAATACCCCTTTATAAA
GGAGGAAGAAAGAAGCTTACCAATTGAATACTGGTTATGAGGATGACGGGAACGAAGATCATGTGTATCC
GGACATTGACCTGTGGGACGTTTATCAGCTGGCTGGCAATAAATAATAGCATGAGAGGATCGTCAGGAAC
CGCATACCGGATTATGGTGGTAAGTGCCATACTATTTGAATGTTAGCGACGATTCTCTGGTCTAAATAGG
TACAGTATCTGCTGGAGAAACTCACAAAGACGAGTTGTCTCTCAAGATCCAAAGTCATCATTATGAGATG
ATATTGTGTGTGGGGTTTCAATCCCCAACAGTCAACGACAGGGTGTTGAGCTTCAGTGGGCGGTGGTCTT
ATGAAAAGAACTATAAAACAGTTCAAGTGTCAATATAGCTATCAGCGCGGTTGTTAGGTCTTGTTTTGCG
ACGTTGCAGATCGTTGCGTGGTTGTCGAAACAGTTGTTGTCTGAACTGTTGGGCTGTCGTTGGATGATGA
TATGATAAGATGTTCTGGTAATACGTAGTTAACTAACTGAGAACGGACTTAGCAATACCTAACCAGCGCT
GGATGCCGAGGCCACGTCCACCAAGCAAATGTGTCTGGATCACATGCCCTCCCTATCCCCCGCACTCGAT
TTCATGCTCGATTATGGGGTGATGATATGGCACGAAATTTAGGCCTGAAATCGATTTATCGATCCATCGA
TTGATTGATTGATTGATTGATTGATTTCACTCGACTATGGTACAGGGAACATGATCTATTACTGTGTACA
ACGTAGCGACCCGTTCTGATGCATTCGATAATATCTGTACGAGCCATGACATGTTACGATACAATGGGAA
TTGGTGTAGTCTGGTATTTCCCTACCTATGGCCCCGGCATACGGGTGTCTCAGTTGCTCAGTTGAAAATA
CGTACAAAATATTTGCAAGCGCAGGGTTGAAGAGTCAAGACCATTGAGTTTTGGCGTGGCTTGTCAAGAC
TTTCCAGGCAATGGTGGGTCACAGGTCACGGATCACGTGATCGAATGGAAACCCGCTCAGAATCCCGCGT
CGTTAAGATGACTCTGCAGAGTACTCTATTTCAACAGTCTCGGGGCAGAAGACGTTGACTGGCGACATCC
ATCGCAGGCGCAGCACAGAGCAGAATTTGCCTCTCGATAAGATAGACAAAAAACTTCTGCGACAAGAATA
TCTGTGTCCATCCTGGTCTCCATGTCTTTAGTCTAAAGAGCTCTTCTTTTCGCATTGCCTTTGGACATGC
TGAGCTTGGCCGGTTCCTTCTTTTGATTCTGATCGAGGGCTATTGCATAGCGGTTATTATCGCATACGCT
TCGATTTCCGCATACATTCATTCCCACCGAACACCCCTCGGAAGCACAGAGAATGTTCTTCCTCAAAGAG
GAAACCAAAGTCGTCACCCTCCACCCGTCCTTTTTCGGACCCAATGTCAAGGAATATCTGATCAACCGCT
TGAACGAAGAAGAAGAGGGACGATGTACGGGTGATCATTTCGTGATTTGTGTCATGGACATGGTGGATAT
TGGCGACGGGCGAGTGATACCGGGCAGTGGACATGCAGAATATACTATCAAATATCGCGCGATCATATGG
AAGCCTTTCCGAGGGGAGACGGTACGCTTGTCTTTTCTTTCCATCTCGTATCTGTGGTTGTATGCTAACT
CGCGTATAGGTCGATGCCATCGTGACCTCGGTTAAACCCACCGGTATCTTCACGCTCGCGGGCCCTCTGT
CGGTGTTTATTGCGCGCAAAAATATACCATCAGATATCAAATGGGAACCCGGCACCGTGCCGCCCCAATA
TACGGATCATGCAGACCAGGTTATTGAGCGAGGAACGAGTCTGCGGTTGAAGATACTGGGTGTGAAGCCA
GATGTGTCTGCGATTAATGCGATTGGCACCATTAAGGAGGATTATCTTGGGTAAGATTATGCACATGACT
GTTACTGAATTTGCTACTGACAGTTTTACGATAGCACCCTCTAAGGTTCCTTCACTATTTATAGAGAATC
GTCTCCCTCAGCACTCGATGATGCCGAATTTCTACCCGCGACTGCCCTACGAAGAATGGCGGCGTATATG
CCTGGTTCTGCGAGTGTTCGACAACAAGTGACTTCGGGCTGGTGATATGTCACTCGCAAGGAAGCTACCA
AGTGCAGACGTCACAACCGGATAGTAATGAGCACGAACTATTTTGGCGACATCAGAAAAAGAAAATATTC
TGTATCGTTATACATTATACAACAAAACGTGGATGAGTCGGGCGCACTATGTAGTAAATTGTACTTGACG
GCGCATCACAGAATTGGCATAGTCAGCGTACATAATACAAATTAAGTTACAGTAACTAGTTAGTTACGAG
CTGCGTATGTACGTAGTTGCTTTAAGTTTACTCTGATACAGTAAGCAACACAACAGAGGCTAGAATGGTG
TGGGCCTTGCGATCCTCTAATAAGAGTTCTAGAATGAAGATTAGGCTCGGGCAATTTCGCAGGGCGGAGA
AGAGAGAATATGCCCTGCCATGCGAATCATATTTCTACAGCATATGTAGCACACTGCTCTCAGAGGCAGG
GCCGGTGGTTCGCTGAATCTCCGTATTTCTTACTTGACAGCAGAGACTGTACATCAATAACAACCAGTTT
CCTGCCTTCGTTCTGGGAGGAGGACCGTTGCACTAGTTAACCCGTTCTGTGCTAAATTACTCGCAGACCC
TACTAGCGCGGCGGACTAAAGATGAAACGCTGGTGCCCTTGCTTAGTCCCTCCCTGCCATAGTTATTTGA
TTAGATTATCGTCTTGGAGCACCGGCCCTGGTCCTACACTACGTAGTAGTATGTGACTATGTATGCAGCC
TGTATGGAGTAAGCCCAGAGACTGACTTTATGGAGTATGGCGTGTAACAACAAGACTACGTGTAACAAAA
TAAATGAAGGAAACGCGTGGAGAACTACGGCGTAGTTCCTCTGTTGTTCCTCAGCTCCTGTCGCAAACCA
AGGGTTCTAGCGGAGCGCGAACCAAACAACGAAGTTACTCTAGATCGAGTCTAGATAAAGACAAAAACAA
TTGCTTTCGTCCTGACTCTTCCTCTTTTTCTTTTCCTCTTTTTCACTCCTCTCTCATTCCTTTGACATTG
TTTACATCTGCAGTCCCGCCACCCCGGCATCTTCCTTCCTCTCGCTCCTCTTGCATCCCTCTCCCTCGCA
TCAACATTGAACAAACAGTTCTCTGTTCTGTTGATTGTTTACATACCCCGCCGTCCTTCCTGAGTCGCAC
AGTGTCAACAATCTTTTCGAACAAACTTGATCCTAAGACGACAAACAATGGCGCTCAAAGCAGTCTACGA
GCGATTCCTCTCCTCCCCAACCTCTGGCGCCCTGAGCGCCGATGTCTCAGTCAACTACATCACGACGGCA
ACCTCAATCACGGGCAGCGAACAGGTCCTCAAGCATCTGAGTAACCAGGAGAAGGCAGTCAAGAAAAAGG
GAGACAAGATCCTCGGCATCGTCGAGACTCCGGATACTATTGTCCTGGACGTGGAGACTACACTGGAGTT
TGTGACTGGGGGTGGGGCTTATCTGCCCTCGCTGGACGATAATTTCCTAGCCGACCGCGTAGTGACTTTT
CCCACGGTACGTTTTGTGTTTTCTCTATCGTCGTATGTAATAGGCCCCTTTGCTGATTGATGACTGCAGA
TACACATTGTTCACTTCAATTCGCAATCCCAGATCCAACAGGTCAGAGTCTATTGGGACCAGGGTTCGCT
CTTGAAACAAGTCGACGTCATCGGTTCTCGTGGAAAGAATTGGCCCATTCGCGATGCTAAGGATCAGTCG
AAGTTGATTGCCAATGTAGCAACTGCACAGGGTATCACCACACCCCCGCCCCAAAAACAGGTCCCCGTCG
CAGTTGGAAAAGCGCCTGGTTCGTCTAGACCTCCTTCGCGCTCGCCCAGCGAGATTTTTGGCGGCAGTGA
TGACGTTGAGAACGAGCCCACTCCTCGCGCTCGCGATAGCATCATTTCGCCTCGAGCTGGCGCTGCGAAG
CACTTCCGACCTGTCCGTGTTTTTGGTGAAGACGATGAAGATGTCACTTCAAGCCCCATCAAGCCCAAGA
TTGGTTCGAACAAGGGATTCCAACCCGTGCGCGTATTCGACGTAGAGCAACATGAAGCCGAAGTCGCTCA
GCAGCCACGAGCCGGAGCGACTAAGAACTTCCAACCCATCCGTGTCTTCGA

42_002196668.1[
250000..270000].fa