Blat Alignment ID Query Source Id Number of Spans 5 Prime Gap (size) > 10bp 3 Prime Gap (size) > 10bp
Internal Gap1..N > 5bp
(query gap size)[Genomic Interval](genomic gap size)
*note1: "--" for no 5 or 3 prime query gap, "1" for query gap falling into genomic sequence gap, "0" for query gap not falling into genomic sequence gap
*note2: for 5 or 3 prime query gap, look 10 times gapsize away on genomic sequence for genomic sequence gaps
inconsistent alignments for NM_029509-containing DoTS assembly
19601782 NM_029509 16 (17) 0 (1) --  
inconsistent alignments for NM_028850-containing DoTS assembly
19601970 NM_028850 8 (25) 0 (31) 0 (9)[2](0) 0
inconsistent alignments for NM_026660-containing DoTS assembly
19599575 NM_026660 13 (10) -- (16) 0  
inconsistent alignments for NM_026517-containing DoTS assembly
19609878 NM_026517 1 (24) 0 (15) 0  
inconsistent alignments for NM_026306-containing DoTS assembly
19555933 NM_026306 2 (52) 0 (500) 0  
inconsistent alignments for NM_025939-containing DoTS assembly
19554124 NM_025939 9 (0) -- (26) 0  
inconsistent alignments for NM_025895-containing DoTS assembly
19611253 NM_025895 5 (20) 0 (22) 0  
inconsistent alignments for NM_025841-containing DoTS assembly
19621676 NM_025841 5 (34) 0 (0) --  
inconsistent alignments for NM_025796-containing DoTS assembly
19602095 NM_025796 7 (51) 0 (10) --  
inconsistent alignments for NM_025624-containing DoTS assembly
19599688 NM_025624 7 (23) 0 (29) 0  
inconsistent alignments for NM_025562-containing DoTS assembly
19611366 NM_025562 6 (10) -- (118) 0 (15)[2](0) 0
inconsistent alignments for NM_025450-containing DoTS assembly
19611204 NM_025450 5 (26) 0 (0) --  
inconsistent alignments for NM_025281-containing DoTS assembly
19611200 NM_025281 10 (78) 0 (37) 0  
inconsistent alignments for NM_025274-containing DoTS assembly
19610864 NM_025274 2 (0) -- (15) 0  
inconsistent alignments for NM_024431-containing DoTS assembly
19621041 NM_024431 5 (112) 0 (15) 0  
inconsistent alignments for NM_023910-containing DoTS assembly
19547507 NM_023910 6 (0) -- (11) 0  
inconsistent alignments for NM_023625-containing DoTS assembly
19611467 NM_023625 13 (1) -- (65) 0  
inconsistent alignments for NM_023229-containing DoTS assembly
19620053 NM_023229 9 (0) -- (26) 0  
inconsistent alignments for NM_022964-containing DoTS assembly
19549289 NM_022964 14 (21) 0 (0) --  
inconsistent alignments for NM_022424-containing DoTS assembly
19547227 NM_022424 8 (9) -- (18) 0 (39)[100](100) 1
inconsistent alignments for NM_021539-containing DoTS assembly
19547421 NM_021539 11 (0) -- (13) 0  
inconsistent alignments for NM_021528-containing DoTS assembly
19611502 NM_021528 2 (25) 0 (26) 0  
inconsistent alignments for NM_021500-containing DoTS assembly
19620042 NM_021500 9 (26) 0 (29) 0  
inconsistent alignments for NM_021352-containing DoTS assembly
19610720 NM_021352 5 (28) 0 (16) 0  
inconsistent alignments for NM_021344-containing DoTS assembly
19602812 NM_021344 9 (214) 0 (63) 0  
inconsistent alignments for NM_021338-containing DoTS assembly
19559261 NM_021338 2 (64) 0 (17) 0 (13)[0](0) 0
inconsistent alignments for NM_021304-containing DoTS assembly
19552677 NM_021304 10 (0) -- (44) 0  
inconsistent alignments for NM_021274-containing DoTS assembly
19602804 NM_021274 9 (23) 0 (0) --  
inconsistent alignments for NM_020582-containing DoTS assembly
19601802 NM_020582 4 (1) -- (30) 0  
inconsistent alignments for NM_020331-containing DoTS assembly
19611649 NM_020331 40 (0) -- (18) 0 (10)[0](0) 0
inconsistent alignments for NM_020005-containing DoTS assembly
19626911 NM_020005 5 (0) -- (0) -- (7)[5](0) 0 : (27)[27](0) 0
inconsistent alignments for NM_019836-containing DoTS assembly
19611495 NM_019836 7 (47) 0 (25) 0  
inconsistent alignments for NM_019824-containing DoTS assembly
19611463 NM_019824 7 (0) -- (27) 0  
inconsistent alignments for NM_019805-containing DoTS assembly
19547250 NM_019805 11 (167) 0 (3) --  
inconsistent alignments for NM_019770-containing DoTS assembly
19564317 NM_019770 19 (23) 0 (57) 0 (19)[18](0) 0
inconsistent alignments for NM_019767-containing DoTS assembly
19599601 NM_019767 10 (34) 0 (21) 0  
inconsistent alignments for NM_019747-containing DoTS assembly
19602641 NM_019747 8 (20) 0 (16) 0  
inconsistent alignments for NM_019682-containing DoTS assembly
19610526 NM_019682 5 (57) 0 (61) 0  
inconsistent alignments for NM_019577-containing DoTS assembly
19546964 NM_019577 3 (47) 0 (4) --  
inconsistent alignments for NM_019435-containing DoTS assembly
19610192 NM_019435 2 (306) 1 (19) 0  
inconsistent alignments for NM_018764-containing DoTS assembly
19609703 NM_018764 3 (0) -- (12) 0  
inconsistent alignments for NM_017367-containing DoTS assembly
19553975 NM_017367 9 (0) -- (60) 1  
inconsistent alignments for NM_016786-containing DoTS assembly
19599680 NM_016786 25 (0) -- (7) -- (6)[4](0) 0 : (6)[4](0) 0 : (14)[10](0) 0 : (8)[5](0) 0
inconsistent alignments for NM_016703-containing DoTS assembly
19611868 NM_016703 9 (13) 0 (34) 0  
inconsistent alignments for NM_016690-containing DoTS assembly
19575413 NM_016690 9 (0) -- (290) 0  
inconsistent alignments for NM_016681-containing DoTS assembly
19587008 NM_016681 14 (114) 0 (0) --  
inconsistent alignments for NM_013795-containing DoTS assembly
19553987 NM_013795 1 (21) 0 (37) 0  
inconsistent alignments for NM_013763-containing DoTS assembly
19601567 NM_013763 11 (33) 0 (0) --  
inconsistent alignments for NM_013726-containing DoTS assembly
19611158 NM_013726 14 (0) -- (0) --  
inconsistent alignments for NM_013647-containing DoTS assembly
19612010 NM_013647 2 (37) 0 (31) 0 (18)[0](0) 0
inconsistent alignments for NM_013636-containing DoTS assembly
19564320 NM_013636 7 (35) 0 (14) 0  
inconsistent alignments for NM_013560-containing DoTS assembly
19602033 NM_013560 5 (2038) 1 (28) 0  
inconsistent alignments for NM_013502-containing DoTS assembly
19611471 NM_013502 11 (21) 0 (27) 0  
inconsistent alignments for NM_013478-containing DoTS assembly
19601362 NM_013478 7 (37) 0 (0) --  
inconsistent alignments for NM_011962-containing DoTS assembly
19554053 NM_011962 26 (253) 1 (300) 1  
inconsistent alignments for NM_011779-containing DoTS assembly
19611165 NM_011779 13 (103) 0 (17) 0 (7)[0](0) 0
inconsistent alignments for NM_011738-containing DoTS assembly
19620085 NM_011738 2 (0) -- (34) 0  
inconsistent alignments for NM_011715-containing DoTS assembly
19553996 NM_011715 16 (0) -- (325) 0  
inconsistent alignments for NM_011670-containing DoTS assembly
19611450 NM_011670 9 (11) 0 (16) 0  
inconsistent alignments for NM_011293-containing DoTS assembly
19620929 NM_011293 6 (13) 0 (31) 1  
inconsistent alignments for NM_011291-containing DoTS assembly
19599706 NM_011291 2 (265) 0 (30) 0  
19599707 NM_011291 2 (301) 1 (30) 0  
inconsistent alignments for NM_011258-containing DoTS assembly
19619893 NM_011258 25 (2) -- (28) 0  
inconsistent alignments for NM_011203-containing DoTS assembly
19559595 NM_011203 28 (44) 1 (9) -- (12)[20](0) 0 : (14)[14](0) 0
inconsistent alignments for NM_011107-containing DoTS assembly
19620778 NM_011107 4 (3) -- (31) 0  
inconsistent alignments for NM_011076-containing DoTS assembly
19609670 NM_011076 29 (41) 0 (6) --  
inconsistent alignments for NM_010368-containing DoTS assembly
19611911 NM_010368 12 (12) 0 (7) --  
inconsistent alignments for NM_010325-containing DoTS assembly
19599691 NM_010325 3 (134) 0 (27) 0  
inconsistent alignments for NM_009972-containing DoTS assembly
19580866 NM_009972 9 (1031) 0 (19) 0  
inconsistent alignments for NM_009902-containing DoTS assembly
19611696 NM_009902 1 (0) -- (37) 0  
inconsistent alignments for NM_009879-containing DoTS assembly
19546589 NM_009879 20 (0) -- (646) 0  
inconsistent alignments for NM_009745-containing DoTS assembly
19561505 NM_009745 8 (14) 0 (19) 0  
inconsistent alignments for NM_009727-containing DoTS assembly
19570830 NM_009727 38 (0) -- (34) 0  
inconsistent alignments for NM_009722-containing DoTS assembly
19573678 NM_009722 21 (0) -- (34) 0  
inconsistent alignments for NM_009656-containing DoTS assembly
19554160 NM_009656 15 (24) 0 (21) 0  
inconsistent alignments for NM_009467-containing DoTS assembly
19589790 NM_009467 10 (28) 0 (14) 0 (12)[9](0) 0 : (7)[8](0) 0
inconsistent alignments for NM_009419-containing DoTS assembly
19599635 NM_009419 7 (25) 0 (26) 0  
inconsistent alignments for NM_009327-containing DoTS assembly
19599634 NM_009327 25 (5) -- (0) --  
inconsistent alignments for NM_009315-containing DoTS assembly
19609985 NM_009315 31 (0) -- (21) 0  
inconsistent alignments for NM_009274-containing DoTS assembly
19589722 NM_009274 23 (200) 0 (8) --  
inconsistent alignments for NM_009207-containing DoTS assembly
19561149 NM_009207 24 (0) -- (27) 0  
inconsistent alignments for NM_009121-containing DoTS assembly
19611389 NM_009121 3 (41) 0 (31) 0  
inconsistent alignments for NM_009094-containing DoTS assembly
19599708 NM_009094 2 (60) 0 (9) -- (9)[0](0) 0
inconsistent alignments for NM_009093-containing DoTS assembly
19621503 NM_009093 2 (63) 0 (0) --  
inconsistent alignments for NM_009087-containing DoTS assembly
19547490 NM_009087 2 (0) -- (28) 0  
inconsistent alignments for NM_008907-containing DoTS assembly
19554297 NM_008907 4 (451) 1 (33) 0  
inconsistent alignments for NM_008808-containing DoTS assembly
19599609 NM_008808 6 (23) 0 (0) --  
inconsistent alignments for NM_008806-containing DoTS assembly
19621064 NM_008806 23 (0) -- (22) 0  
inconsistent alignments for NM_008713-containing DoTS assembly
19600811 NM_008713 28 (0) -- (40) 0  
inconsistent alignments for NM_008705-containing DoTS assembly
19547564 NM_008705 1 (118) 0 (43) 0  
inconsistent alignments for NM_008622-containing DoTS assembly
19620763 NM_008622 8 (13) 0 (2) --  
inconsistent alignments for NM_008617-containing DoTS assembly
19610053 NM_008617 9 (13) 0 (31) 0  
inconsistent alignments for NM_008568-containing DoTS assembly
19544407 NM_008568 16 (93) 0 (15) 0  
inconsistent alignments for NM_008494-containing DoTS assembly
19611125 NM_008494 8 (50) 0 (22) 0  
inconsistent alignments for NM_008439-containing DoTS assembly
19620087 NM_008439 9 (14) 0 (26) 0  
inconsistent alignments for NM_008095-containing DoTS assembly
19611378 NM_008095 12 (12) 0 (17) 0  
inconsistent alignments for NM_008084-containing DoTS assembly
19607488 NM_008084 3 (46) 0 (11) 0  
19607485 NM_008084 4 (46) 0 (9) --  
19607487 NM_008084 3 (46) 0 (0) --  
inconsistent alignments for NM_008014-containing DoTS assembly
19602064 NM_008014 10 (22) 0 (18) 0  
inconsistent alignments for NM_007984-containing DoTS assembly
19553974 NM_007984 6 (18) 0 (20) 0  
inconsistent alignments for NM_007964-containing DoTS assembly
19619897 NM_007964 21 (0) -- (21) 0  
inconsistent alignments for NM_007818-containing DoTS assembly
19553816 NM_007818 16 (1016) 1 (17) 0  
inconsistent alignments for NM_007808-containing DoTS assembly
19611635 NM_007808 1 (74) 0 (287) 0  
inconsistent alignments for NM_007786-containing DoTS assembly
19588841 NM_007786 5 (48) 0 (0) --  
inconsistent alignments for NM_007785-containing DoTS assembly
19546091 NM_007785 15 (4) -- (20) 0  
inconsistent alignments for NM_007761-containing DoTS assembly
19599638 NM_007761 6 (14) 0 (24) 0  
inconsistent alignments for NM_007748-containing DoTS assembly
19611700 NM_007748 4 (39) 0 (26) 0  
inconsistent alignments for NM_007644-containing DoTS assembly
19610011 NM_007644 12 (0) -- (23) 0  
inconsistent alignments for NM_007507-containing DoTS assembly
19620825 NM_007507 4 (18) 0 (86) 0  
inconsistent alignments for NM_007393-containing DoTS assembly
19594091 NM_007393 7 (36) 0 (0) --  
inconsistent alignments for NM_007383-containing DoTS assembly
19611385 NM_007383 10 (0) -- (22) 0