#===========================================================================# # The following BACs/contigs can't be integrated. See comments below # #===========================================================================# #contig length scaffold length contig_start contig_end scaffold_start scaffold_end identity %identity strand #different directions and large deletions in BACs contig029_1 25394 SL2.10sc04777 28222741 1 678 24644772 24645449 678/678 100 1 contig029_1 25394 SL2.10sc04777 28222741 1053 2368 24646410 24647725 1315/1316 99.92 1 contig029_1 25394 SL2.10sc04777 28222741 2366 9581 24650340 24657555 7208/7217 99.88 -1 contig029_1 25394 SL2.10sc04777 28222741 9580 24712 24687298 24702429 15103/15134 99.8 -1 #different direction, too short, not integrated contig287_4 3846 SL2.10sc03683 17598135 1080 2231 5005296 5006447 1148/1153 99.57 1 contig287_4 3846 SL2.10sc03683 17598135 2059 3846 5008530 5010316 1781/1788 99.61 -1 #too many inconsistencies contig289_1 96944 SL2.10sc03665 22378396 1 7949 13561170 13569119 7949/7950 99.99 -1 contig289_1 96944 SL2.10sc03665 22378396 8849 11831 13557347 13560329 2983/2983 100 -1 contig289_1 96944 SL2.10sc03665 22378396 12300 16023 13552845 13556557 3692/3727 99.06 -1 contig289_1 96944 SL2.10sc03665 22378396 12301 19103 7756294 7763083 6714/6815 98.52 -1 contig289_1 96944 SL2.10sc03665 22378396 19168 36302 7721945 7739080 17131/17136 99.97 -1 contig289_1 96944 SL2.10sc03665 22378396 38046 55124 7739141 7756233 17060/17093 99.81 -1 contig289_1 96944 SL2.10sc03665 22378396 55372 68329 13536819 13549782 12957/12964 99.95 -1 contig289_1 96944 SL2.10sc03665 22378396 68330 69718 13568378 13569759 1366/1391 98.2 -1 contig289_1 96944 SL2.10sc03665 22378396 68332 96944 7693263 7721882 28605/28620 99.95 -1 #too many inconsistencies contig364_2 81485 SL2.10sc03665 22378396 1 16678 7739141 7755831 16659/16691 99.81 -1 contig364_2 81485 SL2.10sc03665 22378396 16926 29887 13536819 13549782 12960/12964 99.97 -1 contig364_2 81485 SL2.10sc03665 22378396 29888 38483 13561170 13569759 8588/8598 99.88 -1 contig364_2 81485 SL2.10sc03665 22378396 39383 42365 13557347 13560329 2983/2983 100 -1 contig364_2 81485 SL2.10sc03665 22378396 42834 49548 13549843 13556557 6715/6715 100 -1 contig364_2 81485 SL2.10sc03665 22378396 49613 66742 7721945 7739080 17121/17136 99.91 -1 contig364_2 81485 SL2.10sc03665 22378396 68486 81485 7743233 7756233 12985/13005 99.85 -1 #too many inconsistencies contig365_5 50130 SL2.10sc03665 22378396 1 19440 7702442 7721884 19439/19444 99.97 1 contig365_5 50130 SL2.10sc03665 22378396 19441 32403 13536819 13549782 12962/12964 99.98 1 contig365_5 50130 SL2.10sc03665 22378396 32651 49215 7739141 7755716 16546/16577 99.81 1 #too many inconsistencies contig438_3 13787 SL2.10sc03701 9173051 1 8047 5011164 5019204 8035/8047 99.85 1 contig438_3 13787 SL2.10sc04607 16076620 8047 12716 3158727 3163397 4658/4671 99.72 -1 contig438_3 13787 SL2.10sc04607 16076620 8086 12460 6683066 6687438 4331/4376 98.97 -1 contig438_3 13787 SL2.10sc05732 6546320 8086 12460 2185784 2190153 4341/4376 99.2 1 contig438_3 13787 SL2.10sc03665 22378396 8086 12460 13641599 13645974 4348/4376 99.36 -1 contig438_3 13787 SL2.10sc03701 9173051 8086 12460 404087 408463 4345/4377 99.27 1 contig438_3 13787 SL2.10sc03701 9173051 12868 13787 5022985 5023904 920/920 100 1 #too many inconsistencies contig433_1 22602 SL2.10sc03665 22378396 8859 13195 13641623 13645950 4281/4339 98.66 1 contig433_1 22602 SL2.10sc05732 6546320 8859 13195 2185808 2190129 4275/4339 98.53 -1 contig433_1 22602 SL2.10sc03752 17403682 17992 20442 14826421 14828871 2447/2451 99.84 1 #The following BAC contigs are either too short or no significant hits to scaffolds contig027_4 1942 contig107_5 1441 contig023_2 2457 contig151_6 1935 contig151_7 8388 contig365_1 2523 contig382 17795 contig454_1 158 contig454_3 181 contig489_2 21709 contig615_10 1860 contig624_3 2194 contig628_6 3405 contig628_7 2337 contig639_2 1330 contig653_10 398 contig654_5 1260 contig663_2 1436 contig663_3 1488 contig699_2 1414 contig709_2 12883 contig793_7 1054 contig147_4 1601 contig750_85703_166737_1 2008 contig805_1_20786_2 299 //end