Version Differences for PBcR

=1=

+

genomeSize=4650000

{| {{table}} border="1"

| align="center" style="background:#f0f0f0;"|'''Statistics without reference '''

| align="center" style="background:#f0f0f0;"|'''6 SMRT cells : 3rd Set'''

|-

-

|# contigs||[[Media:pbcr_d6_all.fa | 2]]||[[Media:pbcr_d6_rg4_1.fa | 8]]||[[Media:pbcr_d6_rg4_2.fa | 10]]||[[Media:pbcr_d6_rg4_3.fa | 14]]||[[Media:pbcr_d6_rg6_1.fa | 1]]||[[Media:pbcr_d6_rg6_2.fa | 1]]||[[Media:pbcr_d6_rg6_3.fa | 4]]

+

|# contigs||[[Media:pbcr_d6_all.fa | 2]]||[[Media:pbcr_d6_rg4_1.fa | 51]]||[[Media:pbcr_d6_rg4_2.fa | 44]]||[[Media:pbcr_d6_rg4_3.fa | 76]]||[[Media:pbcr_d6_rg6_1.fa | 6]]||[[Media:pbcr_d6_rg6_2.fa | 6]]||[[Media:pbcr_d6_rg6_3.fa | 6]]

|-

-

|Largest contig||4 278 957||2 277 010||1 213 670||984 459||4 641 350||4 640 250||3 162 440

+

|Largest contig||3 835 938||300 354||500 180||250 542||2 045 145||2 044 223||2 542 485

|-

-

|Total length||4 650 771||4 648 304||4 644 602||4 656 274||4 641 350||4 640 250||4 653 394

+

|Total length||4 640 874||4 437 792||4 476 210||4 297 112||4 636 889||4 635 531||4 645 642

|-

-

|N50||4 278 957||622 425||800 993||565 251||4 641 350||4 640 250||3 162 440

+

|N50||3 835 938||105 841||117 447||69 771||1 293 614||1 522 526||2 542 485

|-

| style="background:#f0f0f0;"| [[Media:SCA_d6.pdf | '''Misassemblies''']]||||||||||||||

-

|# misassemblies||9||9||9||8||8||8||9

+

|# misassemblies||8||6||7||6||7||8||9

|-

-

|Misassembled contigs length ||4 278 957||2 809 129||2 085 482||1 947 163||4 641 350||4 640 250||3 209 090

+

|Misassembled contigs length ||3 835 938||678 934||950 771||435 912||3 567 800||3 623 564||3 630 045

|-

| style="background:#f0f0f0;"| '''Mismatches'''||||||||||||||

-

|# mismatches per 100kbp||0.37||2.49||1.88||5.38||0.69||0.67||0.86

+

|# mismatches per 100kbp||0.19||1.65||1.61||3.74||0.35||0.24||0.35

|-

-

|# indels per 100kbp||3.58||53.34||45.82||73.07||10.65||11.28||10.46

+

|# indels per 100kbp||4.81||56.36||39.36||65.58||9.72||9.72||9.84

|-

-

|# N's per 100kbp ||0||0.04||0.02||0.09||0||0||0

+

|# N's per 100kbp ||0||0||0||0||0||0||0

|-

| style="background:#f0f0f0;"| '''Genome Statistics'''||||||||||||||

-

|Genome fraction(%) ||99.993||99.733||99.67||99.693||99.972||99.946||99.968

+

|Genome fraction(%) ||99.938||95.61||96.483||92.288||99.828||99.762||99.86

|-

-

|Duplication ratio ||1.002||1.005||1.006||1.007||1.001||1.001||1.003

+

|Duplication ratio ||1.001||1.005||1.006||1.007||1.001||1.001||1.003

|-

-

|# genes ||4492+5 part||4475+10 part||4467+12 part||4469+13 part||4492+4 part||4491+4 part||4492+4 part

+

|# genes ||4490 +5 part||4229 +71 part||4288 +65 part||4094 +105 part||4481 +10 part||4475 +11 part||4485 +8 part

|-

-

|NGA50 ||859 464||621 281||572 455||436 292||1 098 529||1 096 784||859 502

+

|NGA50 ||949 276||89 654||111 935||53 222||857 569||857 671||859 217

|-

| align="left" style="background:#f0f0f0;"|''' Running Time '''||2hr 9m||28m 59s||33m 32s||32m 21s||50m 17s||38m 36s||11m22s

 =1=
 								genomeSize=4650000
 {| {{table}} border="1"
 | align="center" style="background:#f0f0f0;"|'''Statistics without reference '''
 | align="center" style="background:#f0f0f0;"|'''6 SMRT cells : 3rd Set'''
 |-
-								|# contigs||[[Media:pbcr_d6_all.fa | 2]]||[[Media:pbcr_d6_rg4_1.fa | 8]]||[[Media:pbcr_d6_rg4_2.fa | 10]]||[[Media:pbcr_d6_rg4_3.fa | 14]]||[[Media:pbcr_d6_rg6_1.fa | 1]]||[[Media:pbcr_d6_rg6_2.fa | 1]]||[[Media:pbcr_d6_rg6_3.fa | 4]]
+								|# contigs||[[Media:pbcr_d6_all.fa | 2]]||[[Media:pbcr_d6_rg4_1.fa | 51]]||[[Media:pbcr_d6_rg4_2.fa | 44]]||[[Media:pbcr_d6_rg4_3.fa | 76]]||[[Media:pbcr_d6_rg6_1.fa | 6]]||[[Media:pbcr_d6_rg6_2.fa | 6]]||[[Media:pbcr_d6_rg6_3.fa | 6]]
 |-
-								|Largest contig||4 278 957||2 277 010||1 213 670||984 459||4 641 350||4 640 250||3 162 440
+								|Largest contig||3 835 938||300 354||500 180||250 542||2 045 145||2 044 223||2 542 485
 |-
-								|Total length||4 650 771||4 648 304||4 644 602||4 656 274||4 641 350||4 640 250||4 653 394
+								|Total length||4 640 874||4 437 792||4 476 210||4 297 112||4 636 889||4 635 531||4 645 642
 |-
-								|N50||4 278 957||622 425||800 993||565 251||4 641 350||4 640 250||3 162 440
+								|N50||3 835 938||105 841||117 447||69 771||1 293 614||1 522 526||2 542 485
 |-
 | style="background:#f0f0f0;"| [[Media:SCA_d6.pdf | '''Misassemblies''']]||||||||||||||
-								|# misassemblies||9||9||9||8||8||8||9
+								|# misassemblies||8||6||7||6||7||8||9
 |-
-								|Misassembled contigs length ||4 278 957||2 809 129||2 085 482||1 947 163||4 641 350||4 640 250||3 209 090
+								|Misassembled contigs length ||3 835 938||678 934||950 771||435 912||3 567 800||3 623 564||3 630 045
 |-
 | style="background:#f0f0f0;"| '''Mismatches'''||||||||||||||
-								|# mismatches per 100kbp||0.37||2.49||1.88||5.38||0.69||0.67||0.86
+								|# mismatches per 100kbp||0.19||1.65||1.61||3.74||0.35||0.24||0.35
 |-
-								|# indels per 100kbp||3.58||53.34||45.82||73.07||10.65||11.28||10.46
+								|# indels per 100kbp||4.81||56.36||39.36||65.58||9.72||9.72||9.84
 |-
-								|# N's per 100kbp ||0||0.04||0.02||0.09||0||0||0
+								|# N's per 100kbp ||0||0||0||0||0||0||0
 |-
 | style="background:#f0f0f0;"| '''Genome Statistics'''||||||||||||||
-								|Genome fraction(%) ||99.993||99.733||99.67||99.693||99.972||99.946||99.968
+								|Genome fraction(%) ||99.938||95.61||96.483||92.288||99.828||99.762||99.86
 |-
-								|Duplication ratio ||1.002||1.005||1.006||1.007||1.001||1.001||1.003
+								|Duplication ratio ||1.001||1.005||1.006||1.007||1.001||1.001||1.003
 |-
-								|# genes ||4492+5 part||4475+10 part||4467+12 part||4469+13 part||4492+4 part||4491+4 part||4492+4 part
+								|# genes ||4490 +5 part||4229 +71 part||4288 +65 part||4094 +105 part||4481 +10 part||4475 +11 part||4485 +8 part
 |-
-								|NGA50 ||859 464||621 281||572 455||436 292||1 098 529||1 096 784||859 502
+								|NGA50 ||949 276||89 654||111 935||53 222||857 569||857 671||859 217
 |-
 | align="left" style="background:#f0f0f0;"|''' Running Time '''||2hr 9m||28m 59s||33m 32s||32m 21s||50m 17s||38m 36s||11m22s