EADING READS Lib1: ------------------------------------------------------------ Total inserted pairs = 1237731 ------------------------------------------------------------ READING READS Lib2: ------------------------------------------------------------ Total inserted pairs = 657883 ------------------------------------------------------------ CONTIG EXTENSION: ------------------------------------------------------------ Number of contig sequences =1450447 Number of unmapped reads used for contig extension = 1146283 Number of contigs extended = 11448 Number of bases extended = 35147 ------------------------------------------------------------ LIBRARY Lib1 STATS: ################################################################################ MAPPING READS TO CONTIGS: ------------------------------------------------------------ Number of single reads found on contigs = 942825 Number of read-pairs used for pairing contigs / total pairs = 384640 / 384640 ------------------------------------------------------------ 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 --- 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 ------------------------------------------------------------ ################################################################################ LIBRARY Lib2 STATS: ################################################################################ MAPPING READS TO CONTIGS: ------------------------------------------------------------ Number of single reads found on contigs = 596841 Number of read-pairs used for pairing contigs / total pairs = 250690 / 250690 ------------------------------------------------------------ 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 --- 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 ------------------------------------------------------------ ################################################################################ SUMMARY: ------------------------------------------------------------ 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 ------------------------------------------------------------