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Join Legend
Serious alignment problem, requires review.
Zero, or more than one, overlaps
Half dove-tail &50 bp
Alignment identity &98%
&2 gaps, each gap &25 bp, not marked as an SSR
&0 gaps, each gap &50 bp, not marked as an SSR
&0 gaps, each gap &500 bp, not marked as an SSR
&0 gaps, each gap &500 bp, marked as an SSR
Minor alignment problem.
Exactly one overlap
Half dove-tail &0 bp and <=50bp
Alignment identity &99.6%
&0 gaps, each gap &25 bp, not marked as an SSR
&0 gaps, each gap &50 bp, not marked as an SSR
&0 gaps, each gap &500 bp, not marked as an SSR
&0 gaps, each gap &500 bp, marked as an SSR
Excellent alignment, meets all defined criteria.
Exactly one RuleInfo
Half dove-tail &=0 bp
Alignment identity &=99.6%
&=0 gaps, each gap &25 bp, not marked as an SSR
&=0 gaps, each gap &50 bp, not marked as an SSR
&=0 gaps, each gap &500 bp, not marked as an SSR
&=0 gaps, each gap &500 bp, marked as an SSR
Certificate submitted, not yet approved.
Certificate submitted and approved.
Valid, contained clone
Join not evaluated due to one accession not being finished.
Curator Links
Alignment for BX and AL
Mismatches = 30, Gaps = 7, Length = 14529
Percent identity = 99.79%
Score = 0 bits (0), Expect = 0
0 BAC and 54 Fosmid bridging clones.
0 BAC and 54 Fosmid concordant clones.
0 BAC and 0 Fosmid discordant clones.
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TypePoint1Point2Orient1Orient2CuratorCommentTimeIdAlignmentReleases
Switch Points
A114186-+chenhcTaxid 9606 chrom 9 Primary assembly 12:14:53.1009442163127GRCh38
IdTypeDateWhodidComment
97651InitHasAlign09/30/:56jcherryblast parameters: -W 28 -r 1 -q -3 -e 1e-5 -Z 200 -F 'm L; R'
bandwidths: 501 701
Toolkit wrapper version: built Thu Aug 17 17:58:09 EDT 2006 using /netopt/ncbi_tools/c++.by-date/production/
Running blast for AL and BX
Found no acceptable dovetail alignments by blast -W 28 -r 1 -q -3 -e 1e-5 -Z 200 -F 'm L; R'
Trying banded global alignment with bandwidth = 501
Fraction identity: 0.997375
Trying banded global alignment with bandwidth = 701
Fraction identity: 0.997388
Alignment acceptable (full dovetail)
242940CreateSwitchPt12/04/:53chenhctpf_m_Builder 1.51 Toolkit wrapper version: built Mar 15 2012 using /home/boukn/code/toolkit/c++/GCC442-ReleaseMT64/lib
Accession%idPosition (strand) Accession%idPosition (strand)
CH17-107L07&AL98.38%pos 85680 (F-) CH17-122A07BX98.17%pos 78435 (R+) &CH17-128E09AL99.72%pos 71185 (R-) &CH17-223G23&BX99.67%pos 162937 (F+) CH17-260H07BX99.55%pos 76468 (R+) &CH17-334J09&BX98.99%pos 166138 (F-) CH17-390G14AL97.28%pos 21508 (R+) &AL98.15%pos 21514 (R+) &AL98.51%pos 21511 (R+) &AL99.05%pos 21506 (R+) &CH17-47A09BX100%pos 165558 (R-) &CH17-61B17&BX98.89%pos 165679 (F-) CH17-69A06BX100%pos 121482 (R+) &CH17-79J06&AL98.1%pos 93787 (F+) CTD-2028A5&BX97.44%pos 120883 (F-) &BX99.33%pos 120883 (F-) CTD-2054D6&BX100%pos 168783 (F-) CTD-2211H23BX98.5%pos 17450 (R+) &CTD-2240G22&BX98.94%pos 139077 (F+) CTD-2311C17&BX100%pos 102560 (F+) CTD-2328G23BX99.23%pos 79932 (R+) &CTD-2335M24BX100%pos 20770 (R+) &CTD-2337P20BX100%pos 88371 (R+) &CTD-2506L2&BX98.25%pos 121347 (F+) CTD-2508M5&BX99.72%pos 165649 (F-) CTD-2517I11&BX99.52%pos 75573 (F+) CTD-3002E10BX99.09%pos 166158 (R-) BX99.22%pos 139292 (F+) CTD-3137O20&AL97.6%pos 71201 (F-) RP11-1031K24&BX97.35%pos 51016 (F-) RP11-1129C5&BX98.76%pos 166164 (F+) RP11-118H15BX98.57%pos 1 (R+) &RP11-137F14&BX99.53%pos 28292 (F+) RP11-203I2&BX100%pos 159461 (F+) RP11-229K20&BX99.81%pos 101340 (F+) RP11-235C3&BX98.81%pos 52213 (F+) RP11-237M21&BX100%pos 78964 (F+) RP11-345L5BX100%pos 55346 (R+) &RP11-353M14BX98.73%pos 171245 (R-) &RP11-358A1AL98.21%pos 32014 (R+) &RP11-359I2&BX100%pos 139373 (F+) RP11-429H19BX99.11%pos 10765 (R+) &RP11-475B17BX99.13%pos 56074 (R+) &RP11-640N21AL97.28%pos 49433 (R+) &RP11-904M4AL98.43%pos 17124 (R+) &RP11-936G11BX100%pos 55965 (R+) &
Fosmid Ends
Accession%idPosition (strand) Accession%idPosition (strand)
ABC10-&AL99.72%pos 19808 (F+) ABC10-AL99.53%pos 19678 (R-) BX99.71%pos 36247 (F-) ABC10-BX99.54%pos 39384 (R+) BX99.1%pos 82541 (F-) ABC10-&BX100%pos 63587 (F+) ABC10-BX100%pos 104486 (R-) BX100%pos 63587 (F+) ABC10-AL99.77%pos 9284 (R-) BX99.45%pos 45399 (F-) ABC10-&BX100%pos 139387 (F-) ABC10-AL99.4%pos 51503 (R+) &ABC10-BX100%pos 164464 (R+) &ABC10-&BX100%pos 40194 (F-) ABC10-&BX99.33%pos 96132 (F+) ABC10-&BX100%pos 116086 (F+) ABC10-BX100%pos 48477 (R+) &ABC10-BX99.36%pos 66114 (R-) BX100%pos 22981 (F+) ABC10-BX99.87%pos 55828 (R+) BX99.87%pos 96414 (F-) ABC10-&BX100%pos 35597 (F+) ABC10-BX99.86%pos 43240 (R+) BX100%pos 87042 (F-) ABC10-BX99.84%pos 33965 (R+) &ABC10-&BX99.33%pos 95732 (F+) ABC10-BX99.82%pos 2948 (R+) BX100%pos 45369 (F-) ABC10-BX99.15%pos 163622 (R+) &ABC10-AL99.74%pos 3951 (R-) &ABC10-BX100%pos 120985 (R-) BX99.09%pos 80782 (F+) ABC10-BX99.86%pos 119991 (R-) BX99.8%pos 76539 (F+) ABC10-BX99.84%pos 43236 (R+) BX99.61%pos 87034 (F-) ABC10-AL99.15%pos 41636 (R+) &ABC10-AL98.69%pos 60794 (R-) &ABC10-AL99.5%pos 60823 (R-) &ABC10-&AL99.86%pos 1486 (F-) ABC10-AL99.84%pos 12311 (R-) &ABC10-AL99.43%pos 88763 (R-) &ABC10-BX100%pos 120979 (R-) BX99.48%pos 80768 (F+) ABC10-AL100%pos 33099 (R-) BX100%pos 22239 (F-) ABC10-AL100%pos 31992 (R+) &ABC10-&AL100%pos 32350 (F-) ABC10-BX99.71%pos 119309 (R+) &ABC10-BX99.82%pos 80203 (R+) &ABC10-&AL99.27%pos 40940 (F-) ABC10-BX98.76%pos 66129 (R-) BX99.86%pos 22951 (F+) ABC10-AL100%pos 71363 (R-) &ABC10-BX100%pos 80197 (R+) BX100%pos 121953 (F-) ABC10-&AL99.37%pos 24281 (F+) ABC10-&BX99.86%pos 139027 (F+) ABC10-&BX98.43%pos 68311 (F-) ABC10-&BX99.83%pos 154446 (F+) ABC10-BX97.84%pos 18260 (R-) &ABC10-&AL98.66%pos 90198 (F-) ABC10-BX100%pos 104079 (R-) BX100%pos 62735 (F+) ABC10-BX98.6%pos 39403 (R+) BX99.87%pos 82538 (F-) ABC10-&BX99.59%pos 2218 (F+) ABC10-BX99.85%pos 63638 (R-) &ABC10-BX99.87%pos 87843 (R+) &ABC10-&AL98.63%pos 72621 (F-) ABC10-&BX99.15%pos 126438 (F-) ABC10-BX99.71%pos 17456 (R-) &ABC10-BX98.31%pos 131157 (R+) &ABC10-BX100%pos 104486 (R-) BX99.87%pos 63579 (F+) ABC10-AL98.24%pos 1491 (R-) &ABC10-AL99.27%pos 9284 (R-) &ABC10-BX100%pos 71457 (R-) BX100%pos 31183 (F+) ABC10-AL100%pos 49961 (R+) AL98.95%pos 89702 (F-) ABC10-&BX99.59%pos 87093 (F+) ABC10-AL99.41%pos 36831 (R-) &ABC10-&BX99.85%pos 90297 (F-) ABC10-AL99.66%pos 52695 (R-) &ABC10-BX99.73%pos 169120 (R-) BX100%pos 130772 (F+) ABC10-AL98.95%pos 13859 (R-) &ABC10-&BX99.43%pos 152324 (F+) ABC10-&BX99.69%pos 67715 (F+) ABC10-&BX99.46%pos 120033 (F+) ABC10-&BX99.83%pos 139035 (F+) ABC10-&BX99.87%pos 95640 (F+) ABC10-&BX99.85%pos 152325 (F+) ABC10-BX99.84%pos 165700 (R+) &ABC10-&BX98.45%pos 12604 (F-) ABC10-&BX99.19%pos 1851 (F-) ABC10-&BX99.84%pos 139043 (F+) ABC10-AL99.85%pos 3954 (R-) &ABC10-AL99.6%pos 41201 (R-) &ABC10-AL99.69%pos 24874 (R-) BX99.62%pos 29507 (F-) ABC10-AL99.48%pos 3965 (R-) &ABC10-BX99.64%pos 88039 (R+) &ABC10-&BX99.71%pos 113090 (F+) ABC10-&BX99.56%pos 113105 (F+) ABC10-AL99.68%pos 41188 (R-) AL99.8%pos 2883 (F+) ABC10-BX100%pos 141686 (R-) &ABC10-BX99.74%pos 48018 (R+) BX99.85%pos 88122 (F-) ABC10-BX100%pos 124170 (R-) &ABC10-AL99.71%pos 42246 (R-) BX98.97%pos 12597 (F-) ABC10-BX99.28%pos 134562 (R-) BX100%pos 94069 (F+) ABC10-&AL99.69%pos 10607 (F-) ABC10-BX97.14%pos 150738 (R-) &ABC10-&BX100%pos 154273 (F+) ABC10-BX99.45%pos 87839 (R+) BX98.87%pos 126441 (F-) ABC10-&BX99.86%pos 115867 (F-) ABC10-BX99.05%pos 134083 (R-) BX99.85%pos 91977 (F+) ABC10-&AL97.49%pos 55955 (F+) ABC10-AL99.36%pos 21536 (R+) &ABC10-BX99.85%pos 39766 (R-) &ABC10-&AL99.48%pos 11010 (F-) &BX99.48%pos 3167 (F+) ABC10-BX100%pos 127830 (R-) &ABC10-BX100%pos 39769 (R-) &ABC10-BX99.84%pos 104993 (R+) &ABC10-AL99.1%pos 51504 (R+) &ABC10-BX99.21%pos 56931 (R+) BX99.87%pos 98473 (F-) ABC10-BX99.85%pos 42955 (R+) BX100%pos 84388 (F-) ABC10-BX100%pos 42942 (R+) BX99.65%pos 84403 (F-) ABC10-BX99.71%pos 56946 (R+) BX100%pos 98474 (F-) ABC10-BX99.62%pos 55532 (R-) BX100%pos 14508 (F+) ABC10-BX98.48%pos 71961 (R-) &ABC10-BX99.46%pos 171027 (R-) &ABC10-&AL99.07%pos 82517 (F+) ABC10-BX100%pos 35077 (R+) &ABC10-BX99.83%pos 104054 (R+) &ABC10-BX99.49%pos 112003 (R-) BX99.62%pos 71603 (F+) ABC10-&BX100%pos 63502 (F+) ABC10-BX99.23%pos 125462 (R-) BX99.49%pos 84159 (F+) ABC10-&BX100%pos 132312 (F+) ABC10-&BX99.81%pos 116755 (F-) ABC10-BX98.49%pos 48270 (R-) &ABC10-&BX99.55%pos 145432 (F+) ABC10-&BX98.69%pos 24220 (F+) ABC10-BX99.58%pos 47814 (R+) &ABC10-BX100%pos 88162 (R+) &ABC10-&BX99.47%pos 162014 (F+) ABC10-BX99.55%pos 8960 (R-) &ABC10-AL99.18%pos 14830 (R+) &ABC10-AL99.52%pos 72324 (R-) &ABC11-AL99.18%pos 24186 (R-) BX99.44%pos 28962 (F-) ABC11-&AL99.1%pos 53237 (F-) ABC11-AL98.66%pos 31295 (R+) &ABC11-&AL98.86%pos 87605 (F+) ABC11-&BX99.05%pos 164285 (F+) ABC11-&BX99.49%pos 156549 (F+) ABC11-&AL98.32%pos 66482 (F-) ABC11-&BX97.22%pos 28945 (F-) ABC11-BX99.47%pos 77512 (R+) &ABC11-&AL98.64%pos 72599 (F-) ABC11-AL99.06%pos 35694 (R+) &ABC11-&AL98.74%pos 71648 (F-) ABC11-BX100%pos 151024 (R+) &ABC11-&AL98.59%pos 93394 (F+) ABC11-BX99.6%pos 34076 (R+) &ABC11-AL97.51%pos 10216 (R+) &BX97.51%pos 3961 (R-) &ABC11-BX99.25%pos 162148 (R+) &ABC11-BX98.45%pos 154617 (R-) BX98.83%pos 115474 (F+) ABC11-BX99.57%pos 44298 (R+) &ABC11-&BX97.75%pos 168354 (F+) ABC11-&BX99.66%pos 41752 (F-) ABC11-&BX99.38%pos 160541 (F+) ABC11-BX99.73%pos 116389 (R-) BX99.47%pos 74762 (F+) ABC11-BX99.57%pos 35022 (R-) AL100%pos 20464 (F-) ABC11-BX100%pos 107265 (R+) &ABC11-BX99.03%pos 42182 (R-) &ABC11-&AL99.15%pos 38416 (F+) ABC11-&BX99.74%pos 14894 (F+) ABC11-AL97.39%pos 60705 (R+) &ABC11-&AL98.66%pos 38413 (F+) ABC11-BX99.06%pos 164131 (R-) &ABC11-AL98.81%pos 10238 (R+) &BX98.81%pos 3939 (R-) &ABC11-BX99.86%pos 128173 (R+) &ABC11-AL100%pos 18207 (R+) &ABC11-BX99.77%pos 72734 (R+) &ABC11-&BX100%pos 127206 (F-) ABC11-&AL99.28%pos 39420 (F-) ABC11-AL99.27%pos 24906 (R+) AL99.82%pos 63880 (F-) ABC11-&BX100%pos 104401 (F-) ABC11-AL99.15%pos 24922 (R+) &ABC11-BX99.6%pos 98498 (R+) &ABC11-&BX100%pos 166530 (F+) ABC11-BX99.79%pos 88127 (R+) &ABC11-BX99.2%pos 126637 (R+) &ABC12-BX99.17%pos 148183 (R+) &ABC12-BX99.86%pos 31941 (R-) AL99.69%pos 22867 (F-) ABC12-&BX99.44%pos 157827 (F-) ABC12-BX99.43%pos 149915 (R+) &ABC12-&BX99.61%pos 114002 (F-) ABC12-&BX98.41%pos 153029 (F-) ABC12-AL99.4%pos 8025 (R-) &ABC12-&AL99.08%pos 80807 (F+) ABC12-BX100%pos 111054 (R-) BX99.75%pos 70560 (F+) ABC12-BX97.22%pos 97635 (R+) &ABC12-BX99.57%pos 18318 (R+) BX99.43%pos 59246 (F-) ABC12-&BX99.58%pos 21771 (F-) ABC12-&BX99.87%pos 59477 (F-) ABC12-BX99.65%pos 32454 (R+) &ABC12-&AL97.84%pos 90836 (F-) ABC12-&AL99.13%pos 60238 (F+) ABC12-BX99.46%pos 157492 (R+) &ABC12-&BX98.85%pos 89628 (F+) ABC12-&AL97.37%pos 57241 (F+) ABC12-BX98.48%pos 116761 (R-) &ABC12-&BX99.87%pos 126823 (F-) ABC12-&BX100%pos 124973 (F+) ABC12-AL99.75%pos 21324 (R-) BX99.78%pos 32842 (F-) ABC12-AL99.59%pos 91526 (R+) &ABC12-BX99.76%pos 88175 (R+) &ABC12-BX97.94%pos 12965 (R+) &ABC12-&BX99.09%pos 25296 (F+) ABC12-&BX99.38%pos 34237 (F+) ABC12-AL99.76%pos 42184 (R+) &ABC12-BX99.21%pos 149699 (R-) &ABC12-&BX98.55%pos 132402 (F+) ABC12-&AL100%pos 57800 (F+) ABC12-BX99.7%pos 64568 (R+) BX99.54%pos 105354 (F-) ABC12-&BX99.69%pos 77775 (F+) ABC12-&AL99.31%pos 80767 (F+) ABC12-BX100%pos 88272 (R+) BX98.72%pos 127303 (F-) ABC12-AL100%pos 39270 (R+) &ABC12-BX98.42%pos 128194 (R-) &ABC12-BX98.99%pos 56928 (R-) &ABC12-&BX98.94%pos 125714 (F-) ABC12-&BX99.86%pos 122306 (F+) ABC12-&BX98.85%pos 141726 (F+) ABC12-AL99.52%pos 26705 (R+) &ABC12-BX97.87%pos 160452 (R+) &ABC12-&BX98.51%pos 120240 (F+) ABC12-&AL98.95%pos 10661 (F-) &BX98.95%pos 3516 (F+) ABC12-BX99.87%pos 105781 (R-) BX99.62%pos 64461 (F+) ABC12-&BX99.01%pos 33269 (F+) ABC12-BX99.1%pos 64930 (R+) BX99.61%pos 105396 (F-) ABC12-BX98.93%pos 5996 (R-) &ABC12-AL98.46%pos 29409 (R-) &ABC12-&BX99.57%pos 38383 (F-) ABC12-&BX99.87%pos 170041 (F+) ABC12-BX99.86%pos 105769 (R-) BX97.66%pos 64519 (F+) ABC12-&BX99.2%pos 31289 (F-) ABC12-&BX99.84%pos 67001 (F-) ABC12-AL99.33%pos 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56165 (R+) &WI2-1343E19AL100%pos 70915 (R-) &WI2-1442C18&BX100%pos 143055 (F+) WI2-1442I21&BX100%pos 143057 (F+) WI2-1474L12&BX99.71%pos 112257 (F+) WI2-1521O03&BX99.51%pos 65703 (F-) WI2-1544J20&AL100%pos 39818 (F-) WI2-1575A04BX97.28%pos 23207 (R+) BX98.21%pos 65704 (F-) &BX100%pos 65679 (F-) WI2-1639A24AL99.65%pos 10042 (R+) AL98.87%pos 47799 (F-) BX99.65%pos 4135 (R-) &WI2-1656J01&BX98.74%pos 71740 (F-) WI2-1768N17BX99.69%pos 67462 (R-) &WI2-1829B13&BX99.26%pos 97130 (F-) WI2-1881M12BX99.68%pos 138688 (R-) &WI2-1906B04BX99.39%pos 123415 (R+) &WI2-1906F03BX98.71%pos 123447 (R+) &WI2-1911F18&BX99.56%pos 123881 (F+) WI2-2025G22AL98.72%pos 16016 (R+) &WI2-2072K13&AL97.18%pos 91041 (F+) WI2-2081J24AL99.42%pos 52253 (R-) &WI2-2192N10AL100%pos 93424 (R+) &WI2-2212E02&AL99.31%pos 9646 (F+) WI2-2348P20BX100%pos 129237 (R-) BX99.82%pos 88028 (F+) WI2-2410J18&AL100%pos 62380 (F+) WI2-2427J01BX99.49%pos 78411 (R+) BX99.66%pos 116624 (F-) WI2-2447E20BX99.68%pos 97861 (R-) 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hAT-Charlie
hAT-Charlie
hAT-Charlie
hAT-Charlie
hAT-Charlie
hAT-Charlie
hAT-Charlie
hAT-Charlie
hAT-Charlie
hAT-Charlie
hAT-Tip100
hAT-Tip100
Low_complexity
Low_complexity
Low_complexity
Low_complexity
Low_complexity
Low_complexity
Low_complexity
Low_complexity
Low_complexity
Low_complexity
Low_complexity
Low_complexity
Low_complexity
Simple_repeat
Simple_repeat
Simple_repeat
Simple_repeat
Simple_repeat
Simple_repeat
Simple_repeat
Simple_repeat
Simple_repeat
Simple_repeat
Simple_repeat
Simple_repeat
MamRep1527
MamRep1527
MamRep1527
hAT-Charlie
hAT-Charlie
hAT-Charlie
hAT-Charlie
hAT-Charlie
TcMar-Tigger
hAT-Tip100
hAT-Tip100
hAT-Tip100
hAT-Tip100
Low_complexity
Low_complexity
Low_complexity
Low_complexity
Simple_repeat
Simple_repeat
Simple_repeat
Simple_repeat
Simple_repeat
Simple_repeat
ERVL-B4-int