Scaffolds (>5000 bp):
--------------------
number (large scaf) 469
number (gaps) 2335
length (cont) 49591231 bp
length (gaps) 3284860 bp
length (total) 52876091 bp
max length (large scaf) 1998087 bp
min length (large scaf) 5013 bp
average length (large scaf) 112742 bp
median length (large scaf) 14006 bp
1.quartile length (large scaf) 6527 bp
3.quartile length (large scaf) 95667 bp
uc length (large scaf) 52876091 bp
lc length (large scaf) 0 bp
N95 (cont) 1739219 bp (2)
N90 (cont) 1265341 bp (4)
N75 (cont) 914629 bp (11)
N50 (cont) 463157 bp (31)
N25 (cont) 231720 bp (71)
N10 (cont) 91508 bp (124)
N5 (cont) 21772 bp (185)
Contigs (all):
--------------
number (cont) 4342
length (cont) 53951504 bp
GC (cont) 60
max length (cont) 213960 bp
min length (cont) 486 bp
average length (cont) 12425 bp
median length (cont) 4579 bp
1.quartile length (cont) 2673 bp
3.quartile length (cont) 14121 bp
uc length (cont) 53951504 bp
lc length (cont) 0 bp
N95 (cont) 111562 bp (20)
N90 (cont) 84915 bp (48)
N75 (cont) 55947 bp (169)
N50 (cont) 29892 bp (497)
N25 (cont) 12452 bp (1187)
N10 (cont) 4173 bp (2312)
N5 (cont) 2869 bp (3098)
Comparison with previous versions v1.0 and v4.1
mapping cDNA (EST) onto the genome by gmod
Training set 90 proteins
Details of 5 problematic proteins:
id genome number_of_paths length exons coverage[%] pos_in_query pos_in_genome pos_in_scaffold ori note
>protein16 mastiga_v5.0rc1 1/2 837 3 64.6 100.0 1..541 854853..854184 m50_s00001:854853..854184 - dir:sense
854853 854554 1 300 100 300> 300 57
854496 854435 301 362 100 62> 62 72
854362 854184 363 541 100 179* 179
>protein16 mastiga_v5.0rc1 2/2 837 1 22.5 100.0 650..837 853864..853677 m50_s00001:853864..853677 - dir:indet
853864 853677 650 837 100 188* 188
>protein37 mastiga_v5.0rc1 1/2 882 3 82.7 100.0 1..729 16232169..16231205 m50_s00014:648070..647106 - dir:sense
648070 647974 1 97 100 97> 97 108
647865 647659 98 304 100 207> 207 128
647530 647106 305 729 100 425* 425
>protein37 mastiga_v5.0rc1 2/2 882 1 10.7 100.0 789..882 16231043..16230950 m50_s00014:646944..646851 - dir:indet
646944 646851 789 882 100 94* 94
>protein48 mastiga_v5.0rc1 1/2 1815 2 48.2 99.9 1..875 20476616..20477685 m50_s00020:457073..458142 + dir:sense
457073 457212 1 140 100 140> 140 195
457408 458142 141 875 99 591xc 143* 735
>protein48 mastiga_v5.0rc1 2/2 1815 2 37.1 100.0 1143..1815 20478067..20478807 m50_s00020:458524..459264 + dir:sense
458524 458745 1143 1364 100 222> 222 68
458814 459264 1365 1815 100 451* 451
>protein49 mastiga_v5.0rc1 1/2 1815 2 48.2 99.9 1..875 20476616..20477685 m50_s00020:457073..458142 + dir:sense
457073 457212 1 140 100 140> 140 195
457408 458142 141 875 99 591xc 143* 735
>protein49 mastiga_v5.0rc1 2/2 1815 2 37.1 100.0 1143..1815 20478067..20478807 m50_s00020:458524..459264 + dir:sense
458524 458745 1143 1364 100 222> 222 68
458814 459264 1365 1815 100 451* 451
>protein60 mastiga_v5.0rc1 1/2 453 2 100.0 100.0 1..453 47599352..47598654 m50_s00124:50953..50255 - dir:sense
50953 50741 1 213 100 213> 213 246
50494 50255 214 453 100 240* 240
>protein60 mastiga_v5.0rc1 2/2 453 2 100.0 100.0 1..453 54958725..54958027 m50_s01013:2892..2194 - dir:sense
2892 2680 1 213 100 213> 213 246
2433 2194 214 453 100 240* 240
Pfo
>mastig_pfo_1 mastiga_v5.0rc1 1/1 3564 4 100.0 99.9 1..3564 40389962..40385358 m50_s00075:4606..2 - dir:sense 4606 4523 1 84 100 84> 84 143 4379 4195 85 269 100 185> 185 742 3452 3173 270 549 100 280> 280 156 3016 2 550 3564 99 743xC 800xC 1335xC 134* 3015 >mastig_pfo_2 mastiga_v5.0rc1 1/1 3609 4 100.0 99.6 1..3609 7223467..7219428 m50_s00005:933215..929176 - dir:sense 933215 933045 1 171 100 171> 171 112 932932 932866 172 238 100 67> 67 113 932752 932622 239 369 100 131> 131 206 932415 929176 370 3609 99 377xT 0xC 1xT 95xA 56xC 3xG 262xC 359xC 1061xA 683xT 9xC 10xA 19xT 292* 3240 >mastig_pfo_3 mastiga_v5.0rc1 1/1 3711 3 100.0 99.9 1..3711 23051436..23055725 m50_s00025:159618..163907 + dir:sense 159618 159719 1 102 100 102> 102 149 159869 160289 103 523 99 23xT 275xC 41xA 79> 421 430 160720 163907 524 3711 99 1655xA 1532* 3188 >mastig_pfo_4 mastiga_v5.0rc1 1/1 3621 5 100.0 99.8 1..3621 7790767..7786559 m50_s00006:235174..230966 - dir:sense 235174 235080 1 95 100 95> 95 165 234914 234734 96 276 99 117xG 63> 181 250 234483 234452 277 308 100 32> 32 101 234350 231243 309 3416 99 522xT 59xC 830xT 1265xC 428> 3108 72 231170 230966 3417 3621 99 147xC 57* 205 >mastig_pfo_5 mastiga_v5.0rc1 1/1 3273 3 99.6 99.8 1..3259 7720534..7724093 m50_s00006:164941..168500 + dir:sense 164941 165123 1 183 100 183> 183 201 165325 165647 184 506 100 323> 323 99 165747 168500 507 3259 99 405xT 320xT 92xC 736xG 306xG 8xC 251xG 623v 5* 2753 >mastig_pfo_6 mastiga_v5.0rc1 1/2 3750 7 96.2 99.7 145..3750 28817941..28813788 m50_s00037:58707..54554 - dir:sense 58707 58548 145 304 100 160> 160 57 58490 58311 305 435 100 55v 0v!48 76> 131 70 58240 58093 436 580 100 144v 0v!2 1> 145 63 58029 57171 581 1441 99 378xC 56^C 0^G 14xC 26xC 179xT 41xC 160> 861 176 56994 56765 1442 1671 99 40xG 189> 230 62 56702 56418 1672 1956 99 86xT 198> 285 70 56347 54554 1957 3750 100 1794* 1794 >mastig_pfo_6 mastiga_v5.0rc1 2/2 3750 1 3.4 100.0 1..127 28818166..28818040 m50_s00037:58932..58806 - dir:indet 58932 58806 1 127 100 127* 127
hyd
>mastiga_hyd_01 mastiga_v5.0rc1 1/1 1515 6 100.0 99.8 1..1515 6890340..6892449 m50_s00005:600088..602197 + dir:sense 600088 600131 1 44 100 44> 44 129 600261 600328 45 112 100 68> 68 263 600592 601024 113 545 100 433> 433 81 601106 601541 546 981 99 36xC 166xC 30xA 201> 436 73 601615 601932 982 1299 100 318> 318 49 601982 602197 1300 1515 100 216* 216 >mastiga_hyd_02 mastiga_v5.0rc1 1/1 1542 1 99.2 100.0 13..1542 11638575..11640104 m50_s00009:731344..732873 + dir:indet 731344 732873 13 1542 100 1530* 1530 >mastiga_hyd_03 mastiga_v5.0rc1 1/1 2211 6 100.0 99.8 1..2211 21772125..21769132 m50_s00023:28487..25494 - dir:sense 28487 28446 1 42 100 42= 42 158 GG-AC 28287 28215 43 115 100 73> 73 107 28107 27821 116 402 99 1xT 285= 287 360 AT-AG 27460 27023 403 840 99 113xa 324= 438 88 AA-AG 26934 25705 841 2073 100 1228^C 0^G 0^C 2> 1233 73 25631 25494 2074 2211 100 138* 138 >mastiga_hyd_04 mastiga_v5.0rc1 1/1 2622 9 100.0 99.0 1..2621 18373286..18376368 m50_s00017:366115..369197 + dir:sense 366115 366174 1 60 100 60> 60 123 366298 366473 61 236 99 113xT 62> 176 54 366528 366794 237 503 100 267) 267 55 GC-AG 366850 367015 504 669 100 166> 166 53 367069 367169 670 770 99 86xA 14> 101 46 367216 367429 771 984 100 214> 214 49 367479 368585 985 2091 99 335xA 17xA 41xG 5xA 20xC 518xT 11xA 5xG 38xC 44xA 56xC 6> 1107 43 368629 368915 2092 2378 97 14xG 12xC 27xT 45xG 59xC 35xC 38xT 50> 287 39 368955 369197 2379 2621 97 84xA 47xG 12xA 49xT 8xC 8xT 29* 243 >mastiga_hyd_05 mastiga_v5.0rc1 1/1 3225 8 100.0 99.9 1..3225 3564548..3568700 m50_s00002:1566461..1570613 + dir:sense 1566461 1566520 1 60 100 60) 60 107 GC-AG 1566628 1566803 61 236 100 176> 176 431 1567235 1567495 237 497 100 261> 261 136 1567632 1567797 498 663 100 166> 166 90 1567888 1567988 664 764 100 101> 101 50 1568039 1568252 765 978 100 214> 214 56 1568309 1569415 979 2085 100 1107> 1107 57 1569473 1570613 2086 3225 99 956xG 57xG 66v 59* 1140 >mastiga_hyd_06 mastiga_v5.0rc1 1/1 2064 3 100.0 99.9 1..2064 21771794..21769253 m50_s00023:28156..25615 - dir:sense 28156 27848 1 309 100 309> 309 387 27460 27025 310 745 99 113xa 322) 436 90 GC-AG 26934 25615 746 2064 99 1xC 0v 1317* 1319 >mastiga_hyd_07 mastiga_v5.0rc1 1/1 2703 6 100.0 100.0 1..2703 18617923..18621044 m50_s00017:610752..613873 + dir:sense 610752 610820 1 69 100 69> 69 77 610898 611076 70 248 100 179> 179 175 611252 611521 249 518 100 270> 270 57 611579 611851 519 791 100 273> 273 56 611908 612121 792 1005 100 214) 214 54 GC-AG 612176 613873 1006 2703 100 1698* 1698 >mastiga_hyd_08 mastiga_v5.0rc1 1/1 2121 7 100.0 99.7 1..2121 17892617..17895218 m50_s00016:667486..670087 + dir:sense 667486 667791 1 306 100 306) 306 188 GC-AG 667980 668428 307 755 100 449> 449 68 668497 668662 756 921 100 166> 166 59 668722 668822 922 1022 100 101) 101 56 GC-AG 668879 669093 1023 1236 100 209v 5> 214 60 669154 669335 1237 1418 97 44xA 20xG 20xA 14xC 0xT 79> 182 49 669385 670087 1419 2121 99 639xT 63* 703 >mastiga_hyd_09 mastiga_v5.0rc1 1/1 2865 6 100.0 100.0 1..2865 8022838..8019647 m50_s00006:467245..464054 - dir:sense 467245 466491 1 755 100 755> 755 79 466411 465890 756 1277 100 522> 522 59 465830 465084 1278 2024 100 747> 747 49 465034 464896 2025 2163 100 139> 139 48 464847 464561 2164 2450 100 287> 287 46 464514 464054 2451 2865 100 237v 0v!45 178* 415 >mastiga_hyd_010 mastiga_v5.0rc1 1/1 2373 4 100.0 99.8 1..2373 18617763..18620420 m50_s00017:610592..613249 + dir:antisense 610592 611077 1 486 100 486= 486 175 TA-GC 611253 611842 487 1076 100 590< 590 56 611899 612119 1077 1297 98 2xC 1xC 0xT 1xG 213= 221 54 AG-TT 612174 613249 1298 2373 100 1076* 1076