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Alignment last updated: 07/09/2010 12:14:24

Join Legend

  • Red circle Serious alignment problem, requires review. (details...)
    • Zero, or more than one, overlaps
    • Half dove-tail >50 bp
    • Alignment identity <98%
    • Alignment length <50 bp
    • >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
  • Yellow circle Minor alignment problem. (details...)
    • Exactly one overlap
    • Half dove-tail >0 bp and <=50bp
    • Alignment identity <99.6%
    • Alignment length <2000 bp
    • >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
  • Green circle Excellent alignment, meets all defined criteria. (details...)
    • Exactly one RuleInfo
    • Half dove-tail <=0 bp
    • Alignment identity >=99.6%
    • Alignment length >=2000 bp
    • <=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
  • Black circle Certificate submitted, not yet approved.
  • Purple circle Certificate submitted and approved.
  • Gray circle Valid, contained clone
  • White circle Join not evaluated due to one accession not being finished.

Alignment for CU855696.7 and BX470218.10

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CU855696.7 Zebrafish DNA sequence from clone CH73-86N2 in linkage group 18, complete sequence [htgs_phase3]

Length: 76,884 bp

BX470218.10 Zebrafish DNA sequence from clone DKEY-30C15 in linkage group 18, complete sequence [htgs_phase3]

Length: 197,774 bp

Alignment Summary

Join evaluation: green

Alignment count: 1

Go to Endhit Table

  • Alignment 1
  • Align ID: 86064
  • Total Length: 2000
  • Aligned Length: 2000
  • Percent Identity: 100
  • Number of Gaps: 0
  • Number of Mismatches: 0
  • Source: CtgOverlap Seq-Align
  • Valid Switchpoint: true (A)
Overlap Image

Switch Points
TypePoint1Point2Orient1Orient2CuratorCommentTimeIdAlignmentReleases
A768842001++chenhcTaxid 7955 chrom 18 Primary assembly2010-07-09 12:14:24.2308446386064GRCz11, GRCz10


down arrow

Alignment 1 of 1

 CU855696.7 : + : 74885..76884
 BX470218.10 : + : 1..2000
 Mismatches = 0, Gaps = 0, Length = 2000
 Percent identity = 100%
 Score = 3965 bits (2000), Expect = 0
  5 BAC and 6 Fosmid bridging clones.
  5 BAC and 6 Fosmid concordant clones.
  0 BAC and 0 Fosmid discordant clones.

CU855696.7  >74885   aagcttaactaaattgagagacatttttatatattgtattttatttaacatttaggtttt 74944  
BX470218.10 >1       ............................................................ 60     

CU855696.7  >74945   tttaaataacaacattgtatagtttaacttatctaaactaaccctgctgtgatcactaaa 75004  
BX470218.10 >61      ............................................................ 120    

CU855696.7  >75005   atataatcacacatttttaaaatatatataaatatcattccattatttgcatatttatat 75064  
BX470218.10 >121     ............................................................ 180    

CU855696.7  >75065   ccacgtttcccagtatgacgtcttctgaacctacatcttgctcacatatgctgtaacatc 75124  
BX470218.10 >181     ............................................................ 240    

CU855696.7  >75125   tctctttacaggatatgattggttccctggctgggattatggtccgccctcttcagccca 75184  
BX470218.10 >241     ............................................................ 300    

CU855696.7  >75185   cagtgtttcttattggcagactaatcttggactgtgcctactaggagtttgctggctact 75244  
BX470218.10 >301     ............................................................ 360    

CU855696.7  >75245   gcacttttatgcaacacattaatgtcagtctgtgaacctgttacacaacatctttaaatc 75304  
BX470218.10 >361     ............................................................ 420    

CU855696.7  >75305   tccccatcatgtctattcatattcaaatattattcactattaataatcaacatgatatga 75364  
BX470218.10 >421     ............................................................ 480    

CU855696.7  >75365   agaaatctatttataactttaaaagaaaaaaaaggatatacagctaggaaaaaaaataaa 75424  
BX470218.10 >481     ............................................................ 540    

CU855696.7  >75425   aggctacttaaaaattctcagtttctctggattcactgaatcaattaggtgtgggtttga 75484  
BX470218.10 >541     ............................................................ 600    

CU855696.7  >75485   ttaaaaaaatgttttatttcaaaaaggttttataatgtctgaataaaaggttctttaatg 75544  
BX470218.10 >601     ............................................................ 660    

CU855696.7  >75545   tcccgatttcaaatacaaatactgtctattaaagctctatttttgcagaaaatggtcaag 75604  
BX470218.10 >661     ............................................................ 720    

CU855696.7  >75605   atgacacttttttgtaaattgttgtgtgtgaaaacgatttattccagcaaatattgattt 75664  
BX470218.10 >721     ............................................................ 780    

CU855696.7  >75665   cttaagtcatcttaagttaaattattggtattgtgttgtcttaaaataataaacctgtct 75724  
BX470218.10 >781     ............................................................ 840    

CU855696.7  >75725   gaaaacacagcatcttttctatctaatcctgattttcaaatacaacaaatccaaatccat 75784  
BX470218.10 >841     ............................................................ 900    

CU855696.7  >75785   tccaaaattgttatcagaccattactgggtaaaataaatattgacaatctactcaaattc 75844  
BX470218.10 >901     ............................................................ 960    

CU855696.7  >75845   attcatattaagtccaggaatctaaagaaactgagaattaaggtggtgtttttcctgtgg 75904  
BX470218.10 >961     ............................................................ 1020   

CU855696.7  >75905   ctgtgtatatagtgttcatataagttccctttctgctgtgtgtaaatcatttattttatt 75964  
BX470218.10 >1021    ............................................................ 1080   

CU855696.7  >75965   tgccatatacacagtagctctgtaaatgaatttgattagaagaaaaagttatgtttgatt 76024  
BX470218.10 >1081    ............................................................ 1140   

CU855696.7  >76025   tcatgaaagtgctagttgaataaactcgggttgatattttatactatcactggttgcctt 76084  
BX470218.10 >1141    ............................................................ 1200   

CU855696.7  >76085   gtgtgatttttcctataaaaaatgacagaaaacatgattatatcagcaaatattaatttc 76144  
BX470218.10 >1201    ............................................................ 1260   

CU855696.7  >76145   ctaaagagaaaactgaaaactctgtcatcatttacttaccgccttttcacaaacctgttt 76204  
BX470218.10 >1261    ............................................................ 1320   

CU855696.7  >76205   gagtttcttttttctgttgagcacaaaagaagatattttgaagaatgttcaaatctggta 76264  
BX470218.10 >1321    ............................................................ 1380   

CU855696.7  >76265   acactggcttccaaaacatggttttgtttaaaaaaaaacaaataatttgttatttcttcc 76324  
BX470218.10 >1381    ............................................................ 1440   

CU855696.7  >76325   tattttaaaacaaaacattgtcatttattgcaatgttgaataaacccatgtggatatttc 76384  
BX470218.10 >1441    ............................................................ 1500   

CU855696.7  >76385   atactcttcccaattgtcttgaatagttttataatctagagcacactgatgaacactgcc 76444  
BX470218.10 >1501    ............................................................ 1560   

CU855696.7  >76445   atttactttctctatatcccgtctcaggattggattggcccagagaatatcaaaacactc 76504  
BX470218.10 >1561    ............................................................ 1620   

CU855696.7  >76505   ttttttgtatttttaacatttaatttggcaacacaaaaaaatgtgcgtaactgaccattt 76564  
BX470218.10 >1621    ............................................................ 1680   

CU855696.7  >76565   ttaggtagacaaatagaaaataaattattattcaattgttttaaatctactatttcaatc 76624  
BX470218.10 >1681    ............................................................ 1740   

CU855696.7  >76625   tgttatactacctgtgacaactgtgaccgtttaaagatttccacctcttttatcctccct 76684  
BX470218.10 >1741    ............................................................ 1800   

CU855696.7  >76685   tcaaataattttgtgtataaaaggtgtcaattttaagaagaaaaaagatatatgaatgat 76744  
BX470218.10 >1801    ............................................................ 1860   

CU855696.7  >76745   ctgaaattagctttgcattgatgcttgtttgttaggattacgacaatatttgactgagaa 76804  
BX470218.10 >1861    ............................................................ 1920   

CU855696.7  >76805   atgactatcgagaacatgatgtttacttaatctggcataaaagaaaaacctatccatttt 76864  
BX470218.10 >1921    ............................................................ 1980   

CU855696.7  >76865   gaccaattcaatgtattttt 76884  
BX470218.10 >1981    .................... 2000   



Events
IdTypeDateWhodidComment
205784InitHasAlign04/08/2010 03:32:33boukn
find_overlap 1.33 built Aug  5 2009. Toolkit wrapper  using /netopt/ncbi_tools64/c++.by-date/20090802/GCC401-Release64/lib
Running blast for 32567727 and 212286995
Filtering on 0.985%, slop 10bp, min length 50bp and strands Unknown, Unknown
Found 1 acceptable dovetail alignment(s) by blast  -W 28 -r 1 -q -3 -G 5 -E 2 -e 1e-05 -Z 200 -F 'm L;m'

tpf_solo for chr18
217764CreateSwitchPt07/09/2010 12:14:24chenhc
tpf_m_Builder 1.43 Toolkit wrapper version: built Jun  7 2010 using /netopt/ncbi_tools64/c++.by-date/20100606/GCC401-Release64/lib



down arrow BAC Ends
CloneRF
Accession%idPosition (strand) Accession%idPosition (strand)
CH211-107B5BX470218.10100%pos 14253 (R+)  
CH211-111F4 BX470218.10100%pos 46974 (F+)
CH211-12K5 BX470218.10100%pos 17392 (F+)
CH211-137H6 BX470218.1099.87%pos 17392 (F+)
 BX470218.10100%pos 17417 (F+)
CH211-162A20BX470218.10100%pos 166660 (R+)  
CH211-162L24BX470218.10100%pos 14253 (R+)  
CH211-175J3 BX470218.10100%pos 46971 (F+)
CH211-17C19BX470218.1099.51%pos 17392 (R+)  
CH211-185M1BX470218.10100%pos 17397 (R+)  
CH211-209J9BX470218.1099.6%pos 154766 (R+)  
CH211-209P3BX470218.1099.86%pos 154774 (R+)  
CH211-222G1CU855696.7100%pos 27737 (R+) BX470218.10100%pos 8548 (F-)
CH211-226E17 BX470218.10100%pos 14285 (F+)
CH211-242M17BX470218.1098.72%pos 148471 (R-) BX470218.1099.56%pos 13187 (F+)
CH211-251F21 CU855696.7100%pos 45051 (F+)
CH211-43P14BX470218.10100%pos 23960 (R+)  
CH211-93D7 BX470218.10100%pos 47393 (F+)
CH73-10D1 BX470218.10100%pos 113574 (F+)
CH73-124H7BX470218.10100%pos 86990 (R+)  
CH73-139I24CU855696.7100%pos 8608 (R+)  
CH73-13K22BX470218.10100%pos 86955 (R+)  
CH73-159J20BX470218.1099.13%pos 16372 (R+) BX470218.1099.16%pos 127533 (F-)
CH73-176M16BX470218.1099.69%pos 69211 (R+) BX470218.10100%pos 165731 (F-)
CH73-221N18BX470218.10100%pos 76318 (R-) BX470218.10100%pos 32121 (F+)
CH73-236C24BX470218.10100%pos 47016 (R+)  
CH73-252L14CU855696.799.87%pos 120 (R+) BX470218.10100%pos 16539 (F-)
CH73-261H6BX470218.1099.66%pos 69283 (R+)  
CH73-261I13 BX470218.1099.87%pos 166758 (F+)
CH73-279H15BX470218.1099.88%pos 47000 (R+) BX470218.1099.86%pos 155770 (F-)
CH73-307K8BX470218.10100%pos 47126 (R+) BX470218.1099.73%pos 153913 (F-)
CH73-321H20BX470218.1099.86%pos 113525 (R+)  
CH73-327I1BX470218.1099.72%pos 166785 (R+)  
CH73-347J15 BX470218.10100%pos 113578 (F+)
CH73-381N8CU855696.7100%pos 77 (R+) BX470218.10100%pos 13580 (F-)
CH73-385E20CU855696.7100%pos 34963 (R+)  
CH73-387J16 BX470218.1099.85%pos 166760 (F+)
CH73-40E5 BX470218.10100%pos 14364 (F+)
CH73-53A5BX470218.10100%pos 155738 (R-)  
CH73-86N2BX470218.1099.75%pos 15378 (R-) CU855696.798.5%pos 455 (F+)
CH73-90E3 BX470218.10100%pos 87347 (F+)
DKEY-147I15BX470218.10100%pos 59355 (R+)  
DKEY-150I6BX470218.10100%pos 121449 (R+)  
DKEY-167B19CU855696.7100%pos 67113 (R+)  
DKEY-167H20BX470218.10100%pos 2971 (R+) BX470218.10100%pos 159185 (F-)
DKEY-174C10BX470218.10100%pos 77391 (R-) BX470218.1099.74%pos 55304 (F+)
DKEY-175B5 BX470218.10100%pos 10737 (F+)
DKEY-180J22BX470218.10100%pos 39287 (R+)  
DKEY-185E5BX470218.10100%pos 103762 (R+)  
DKEY-216G19BX470218.10100%pos 72975 (R+)  
DKEY-235B23 BX470218.10100%pos 49603 (F+)
DKEY-238C7 BX470218.1099.85%pos 27967 (F+)
DKEY-263B1 BX470218.10100%pos 60880 (F+)
DKEY-276N18CU855696.799.85%pos 67111 (R+)  
DKEY-51M21 BX470218.10100%pos 142243 (F+)
DKEY-57O12 BX470218.10100%pos 71 (F+)
 CU855696.7100%pos 74955 (F+)
DKEY-86C6 BX470218.10100%pos 176809 (F+)
DKEY-88P18BX470218.10100%pos 78039 (R+)  
DKEY-90L3BX470218.10100%pos 39277 (R+) BX470218.10100%pos 174938 (F-)
DKEYP-27G2BX470218.10100%pos 65593 (R+)  
DKEYP-30C15BX470218.1099.66%pos 197307 (R-) CU855696.7100%pos 75107 (F+)
 BX470218.10100%pos 223 (F+)
DKEYP-40P11BX470218.10100%pos 180563 (R+)  
DKEYP-49P16BX470218.1099.84%pos 83313 (R+)  
RP71-84N6BX470218.10100%pos 23962 (R+)  

down arrow Fosmid Ends
CloneRF
Accession%idPosition (strand) Accession%idPosition (strand)
CH1073-100C9BX470218.10100%pos 19900 (R+) BX470218.10100%pos 19837 (F+)
BX470218.10100%pos 55410 (R-)  
CH1073-106L22BX470218.10100%pos 115024 (R-) BX470218.10100%pos 77424 (F+)
CH1073-124I17BX470218.10100%pos 56382 (R-)  
CH1073-13I13BX470218.10100%pos 37818 (R-) BX470218.10100%pos 37905 (F-)
CH1073-159A8BX470218.10100%pos 165767 (R+)  
CH1073-185N9 BX470218.10100%pos 167328 (F+)
CH1073-216D20CU855696.7100%pos 48840 (R+) BX470218.10100%pos 4820 (F-)
CH1073-228B19 BX470218.10100%pos 4918 (F-)
 BX470218.10100%pos 4947 (F-)
CH1073-241G12BX470218.10100%pos 174932 (R+)  
CH1073-254D12BX470218.10100%pos 38470 (R-)  
CH1073-259A21BX470218.10100%pos 159287 (R+)  
CH1073-259K3CU855696.7100%pos 37172 (R+) CU855696.7100%pos 70170 (F-)
CH1073-261C20BX470218.10100%pos 10438 (R-) CU855696.7100%pos 45565 (F+)
CH1073-287O20 BX470218.10100%pos 46801 (F+)
CH1073-305B17 BX470218.10100%pos 152673 (F+)
CH1073-306J21 BX470218.10100%pos 152673 (F+)
CH1073-315A24 BX470218.10100%pos 94337 (F-)
CH1073-329M14 BX470218.10100%pos 169340 (F+)
CH1073-329M16 BX470218.10100%pos 169340 (F+)
CH1073-364M17 BX470218.10100%pos 195148 (F+)
CH1073-384D6BX470218.10100%pos 140883 (R-) BX470218.10100%pos 109480 (F+)
CH1073-405H24 BX470218.10100%pos 19839 (F+)
CH1073-417N16BX470218.10100%pos 54529 (R-) BX470218.10100%pos 17616 (F+)
CH1073-420G22BX470218.10100%pos 54437 (R-) BX470218.10100%pos 17616 (F+)
CH1073-431I3BX470218.10100%pos 188536 (R-) BX470218.10100%pos 153708 (F+)
CH1073-46P20BX470218.10100%pos 79648 (R-) BX470218.1099.7%pos 80056 (F-)
CH1073-472J9BX470218.1099.88%pos 112179 (R+) BX470218.10100%pos 142055 (F-)
CH1073-47P20BX470218.10100%pos 45398 (R+) BX470218.10100%pos 79937 (F-)
CH1073-490L9BX470218.1099.11%pos 31490 (R+) BX470218.10100%pos 63250 (F-)
CH1073-494K14BX470218.10100%pos 73238 (R+) BX470218.10100%pos 105063 (F-)
CH1073-507G22 BX470218.10100%pos 50207 (F+)
 BX470218.10100%pos 50207 (F+)
CH1073-511I16 BX470218.10100%pos 184142 (F+)
CH1073-514L6CU855696.7100%pos 45261 (R-)  
CH1073-516G23CU855696.7100%pos 59767 (R-) CU855696.7100%pos 24953 (F+)
CH1073-521I14 BX470218.1099.67%pos 101221 (F-)
CH1073-522G1BX470218.10100%pos 61282 (R-)  
CH1073-532K18BX470218.10100%pos 119558 (R-) BX470218.10100%pos 76834 (F+)
CH1073-542I3 BX470218.10100%pos 166805 (F-)
CH1073-553A20BX470218.10100%pos 49966 (R+)  
CH1073-556F21BX470218.10100%pos 119189 (R-) BX470218.1098.59%pos 76927 (F+)
CH1073-570J10BX470218.10100%pos 31486 (R+) BX470218.1099.34%pos 62786 (F-)
CH1073-619G13BX470218.10100%pos 41862 (R-)  
CH1073-660C10 BX470218.10100%pos 106081 (F+)
CH1073-669P8BX470218.10100%pos 166002 (R+) BX470218.10100%pos 194213 (F-)
CH1073-683D5BX470218.10100%pos 163865 (R-) BX470218.10100%pos 138108 (F+)
CH1073-698E7CU855696.799.73%pos 50098 (R-) CU855696.7100%pos 13500 (F+)
CH1073-712I7 BX470218.10100%pos 67964 (F+)
CH1073-757B19 BX470218.10100%pos 81709 (F+)
CH1073-791E18 BX470218.10100%pos 64281 (F-)
CH1073-79B15BX470218.10100%pos 174848 (R-) BX470218.10100%pos 136462 (F+)
CH1073-817C16CU855696.7100%pos 53941 (R+) BX470218.10100%pos 13070 (F-)
CH1073-845H16BX470218.10100%pos 143231 (R-) BX470218.10100%pos 111376 (F+)
CH1073-850K3BX470218.10100%pos 48989 (R+)  
BX470218.10100%pos 54753 (R+)  
CH1073-877M10BX470218.10100%pos 114227 (R+) BX470218.1099.78%pos 150703 (F-)
CH1073-877M9BX470218.10100%pos 114114 (R+) BX470218.10100%pos 150684 (F-)
CH1073-886H1BX470218.10100%pos 191406 (R+)  
CH1073-886H12BX470218.10100%pos 107023 (R-)  
CH1073-887L21BX470218.10100%pos 54050 (R+) BX470218.10100%pos 93944 (F-)
CH1073-901H5BX470218.10100%pos 138601 (R+) BX470218.10100%pos 175292 (F-)
CH1073-902F1 CU855696.7100%pos 68747 (F+)
CH1073-924E24BX470218.1099.79%pos 77349 (R+) BX470218.10100%pos 112325 (F-)
CH1073-925B4BX470218.10100%pos 49568 (R-) BX470218.10100%pos 15358 (F+)
CH1073-933N4 BX470218.1099.61%pos 33186 (F+)
CH1073-935O9BX470218.10100%pos 83545 (R-) BX470218.10100%pos 52423 (F+)
CH1073-937M17CU855696.7100%pos 32038 (R+) CU855696.7100%pos 68024 (F-)
CH1073-939B13BX470218.10100%pos 3116 (R-) CU855696.7100%pos 38368 (F+)
CH1073-944K20 BX470218.10100%pos 13951 (F+)
 BX470218.10100%pos 14216 (F+)
CH1073-9E17BX470218.10100%pos 54204 (R-) BX470218.10100%pos 54171 (F-)
ZFOS-1165E4BX470218.10100%pos 116685 (R-) BX470218.10100%pos 76519 (F+)
ZFOS-1260F11BX470218.10100%pos 18865 (R-)  
ZFOS-1401E10BX470218.10100%pos 56402 (R+)  
ZFOS-1408G10BX470218.10100%pos 59468 (R-) BX470218.10100%pos 23522 (F+)
ZFOS-1469G11BX470218.10100%pos 11999 (R-) CU855696.7100%pos 47200 (F+)
ZFOS-1489F2CU855696.7100%pos 46609 (R-)  
ZFOS-1518E3CU855696.7100%pos 46035 (R-) CU855696.799.71%pos 5320 (F+)
ZFOS-1519A5 BX470218.1099.42%pos 51038 (F-)
ZFOS-1672G6 CU855696.7100%pos 48761 (F-)
ZFOS-1864G8CU855696.799.56%pos 45374 (R+)  
ZFOS-1941D2BX470218.10100%pos 74201 (R+)  
ZFOS-2156D6BX470218.1099.86%pos 38364 (R-) CU855696.799.24%pos 71014 (F+)
ZFOS-2366F12CU855696.7100%pos 19444 (R+) CU855696.7100%pos 54817 (F-)
ZFOS-2573C6CU855696.7100%pos 47546 (R-) CU855696.7100%pos 4562 (F+)
ZFOS-2655H9BX470218.10100%pos 47494 (R-)  
ZFOS-518A10BX470218.10100%pos 4247 (R+) BX470218.1099.87%pos 47438 (F-)
ZFOS-562C3BX470218.10100%pos 46244 (R+) BX470218.10100%pos 89843 (F-)
ZFOS-644C2 BX470218.10100%pos 11903 (F-)
ZFOS-669E8BX470218.10100%pos 75734 (R+) BX470218.10100%pos 110915 (F-)
ZFOS-676E9BX470218.10100%pos 47035 (R+)  
ZFOS-679F12 BX470218.1099.71%pos 89828 (F-)
ZFOS-813C8CU855696.7100%pos 55478 (R+)  
ZFOS-848F1BX470218.10100%pos 48607 (R+)  

down arrow Repeats

Too repeats, not showing repeat table.