Banana Slug Genomics

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EADING READS Lib1:


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        Total inserted pairs = 1237731


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READING READS Lib2:


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        Total inserted pairs = 657883


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CONTIG EXTENSION:


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        Number of contig sequences =1450447


        Number of unmapped reads used for contig extension = 1146283


        Number of contigs extended = 11448


        Number of bases extended = 35147


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LIBRARY Lib1 STATS:


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MAPPING READS TO CONTIGS:


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        Number of single reads found on contigs = 942825


        Number of read-pairs used for pairing contigs / total pairs = 384640 / 384640


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READ PAIRS STATS:


        Assembled pairs: 384640 (769280 sequences)


                Satisfied in distance/logic within contigs (i.e. -> <-, distance on target: 1500 +/-1500): 196624


                Unsatisfied in distance within contigs (i.e. distance out-of-bounds): 53


                Unsatisfied pairing logic within contigs (i.e. illogical pairing ->->, <-<- or <-->): 24900


                ---


                Satisfied in distance/logic within a given contig pair (pre-scaffold): 120711


                Unsatisfied in distance within a given contig pair (i.e. calculated distances out-of-bounds): 42352


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        Total satisfied: 317335 unsatisfied: 67305








        Estimated insert size statistics (based on 196624 pairs):


                Mean insert size = 348


                Median insert size = 111





REPEATS:


        Number of repeated edges = 101


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LIBRARY Lib2 STATS:


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MAPPING READS TO CONTIGS:


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        Number of single reads found on contigs = 596841


        Number of read-pairs used for pairing contigs / total pairs = 250690 / 250690


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READ PAIRS STATS:


        Assembled pairs: 250690 (501380 sequences)


                Satisfied in distance/logic within contigs (i.e. -> <-, distance on target: 2000 +/-2000): 136202


                Unsatisfied in distance within contigs (i.e. distance out-of-bounds): 22


                Unsatisfied pairing logic within contigs (i.e. illogical pairing ->->, <-<- or <-->): 14684


                ---


                Satisfied in distance/logic within a given contig pair (pre-scaffold): 77447


                Unsatisfied in distance within a given contig pair (i.e. calculated distances out-of-bounds): 22335


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        Total satisfied: 213649 unsatisfied: 37041








        Estimated insert size statistics (based on 136202 pairs):


                Mean insert size = 443


                Median insert size = 143





REPEATS:


        Number of repeated edges = 51


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SUMMARY:


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        Inserted contig file;


                Total number of contigs = 1450447


                Sum (bp) = 2245788654


                        Total number of N's = 1255300


                        Sum (bp) no N's = 2244533354


                GC Content = 41.32%


                Max contig size = 153999


                Min contig size = 17


                Average contig size = 1548


                N25 = 17545


                N50 = 8429


                N75 = 3132





        After extension;


                Total number of contigs = 1450447


                Sum (bp) = 2245823801


                        Total number of N's = 1255300


                        Sum (bp) no N's = 2244568501


                GC Content = 41.32%


                Max contig size = 154009


                Min contig size = 17


                Average contig size = 1548


                N25 = 17545


                N50 = 8429


                N75 = 3132





        After scaffolding Lib1:


                Total number of scaffolds = 1448501


                Sum (bp) = 2246969737


                        Total number of N's = 2428590


                        Sum (bp) no N's = 2244541147


                GC Content = 41.32%


                Max scaffold size = 154009


                Min scaffold size = 17


                Average scaffold size = 1551


                N25 = 17609


                N50 = 8465


                N75 = 3143





        After scaffolding Lib2:


                Total number of scaffolds = 1446991


                Sum (bp) = 2248205142


                        Total number of N's = 3679315


                        Sum (bp) no N's = 2244525827


                GC Content = 41.32%


                Max scaffold size = 154009


                Min scaffold size = 17


                Average scaffold size = 1553


                N25 = 17673


                N50 = 8498


                N75 = 3156





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Banana Slug Genomics

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