NCBI

Alignment last updated: 11/11/2008 11:56:44

Join Evaluation Legend

Alignments for AL035694.8 and AL109941.17

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AL035694.8 Human DNA sequence from clone RP1-33L1 on chromosome 6q14.1-15 Contains the TBX18 gene for T-box 18 and 2 CpG islands, complete sequence [htgs_phase3]

Length: 100,209 bp

AL109941.17 Human DNA sequence from clone RP3-435K13 on chromosome 6q14.1-16.1 Contains a novel pseudogene, complete sequence [htgs_phase3]

Length: 151,301 bp

Alignment Summary

Join evaluation: green

Alignment count: 2

Go to Endhit Table

  • Alignment 1
  • Align ID: 47546
  • Total Length: 109
  • Aligned Length: 109
  • Percent Identity: 100
  • Number of Gaps: 0
  • Number of Mismatches: 0
  • Source: CtgOverlap Seq-Align
  • Valid Switchpoint: true (L)
  • Valid Switchpoint: true (A)
Overlap Image
  • Alignment 2
  • Align ID: 47547
  • Total Length: 109
  • Aligned Length: 109
  • Percent Identity: 100
  • Number of Gaps: 0
  • Number of Mismatches: 0
  • Source: CtgOverlap Seq-Align
  • Valid Switchpoint: true (L)
  • Valid Switchpoint: true (A)
Overlap Image
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Alignment 1 of 2

 Mismatches = 0, Gaps = 0, Length = 109
 Percent identity = 100%
 Score = 216.6 bits (109), Expect = 9.699e-56
  5 BAC and 69 Fosmid bridging clones.
  5 BAC and 68 Fosmid concordant clones.
  0 BAC and 1 Fosmid discordant clones.

AL035694.8  >100101  ttagcttggaggagttcattattacccaccttctgaagcctacttctgtcaactcgtcaa 100160 
AL109941.17 <151301  ............................................................ 151242 

AL035694.8  >100161  actcattctccatccagttttgttcccttgctggcgaggagttatgatc 100209 
AL109941.17 <151241  ................................................. 151193

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Alignment 2 of 2

 Mismatches = 0, Gaps = 0, Length = 109
 Percent identity = 100%
 Score = 216.6 bits (109), Expect = 9.699e-56
  5 BAC and 69 Fosmid bridging clones.
  5 BAC and 68 Fosmid concordant clones.
  0 BAC and 1 Fosmid discordant clones.

AL035694.8  >100101  ttagcttggaggagttcattattacccaccttctgaagcctacttctgtcaactcgtcaa 100160 
AL109941.17 <151301  ............................................................ 151242 

AL035694.8  >100161  actcattctccatccagttttgttcccttgctggcgaggagttatgatc 100209 
AL109941.17 <151241  ................................................. 151193


Switch Points
TypePoint1Point2Orient1Orient2CuratorCommentTime
L100209151192+-chenhcTaxid 9606 chrom 6 Reference assembly2008-08-08 12:38:24.606
A100209151192+-chenhcTaxid 9606 chrom 6 Reference assembly2008-11-11 11:56:44.726

Events
IdTypeDateWhodidComment
73197InitHasAlign08/30/2006 13:12:49jcherry
find_overlaps run without blast filtering (-F F)
73198ReRunFndOvlp10/02/2006 00:41:50jcherry
blast parameters: -W 28 -r 1 -q -3 -e 1e-5 -Z 200 -F F
bandwidths: 501 701 1001 5001
Toolkit wrapper version: built Thu Aug 17 17:58:09 EDT 2006 using /netopt/ncbi_tools/c++.by-date/production/20060730

Running blast for AL035694.8 and AL109941.17
Found 1 acceptable dovetail alignment(s) by blast -W 28 -r 1 -q -3 -e 1e-5 -Z 200 -F F
120899CreateSwitchPt08/08/2008 12:38:24chenhc
From Hs build 36.1 agp files
73199ReSetShortOvlp09/04/2008 10:31:48dbo


147023CreateSwitchPt11/11/2008 11:56:44chenhc
contig_builder 1.3  Toolkit wrapper version: built Nov 10 2008 using /netopt/ncbi_tools64/c++.by-date/20081110/GCC401-Release64/lib




   

   

		
		

down arrow  BAC Ends



CloneRF


Accession%idPosition (strand) Accession%idPosition (strand)


CH17-102B19AL035694.899.39%pos 2808 (R+) AL109941.1799.03%pos 20772 (F+) 
CH17-171I03 AL035694.898.67%pos 93154 (F-) 
CH17-214A10 AL109941.1797.98%pos 91535 (F+) 
CH17-274L20 AL035694.899.22%pos 75448 (F+) 
CH17-293I12AL109941.1798.78%pos 141505 (R+)  
CH17-306M10 AL109941.1799.8%pos 7412 (F-) 
CH17-366H11AL109941.1798%pos 149109 (R-)  
CH17-406B07AL035694.899.12%pos 93143 (R-)  
CH17-436B07 AL109941.1798.27%pos 121318 (F-) 
CH17-468C06AL109941.1798.76%pos 74351 (R+)  
CH17-476L22AL109941.1799.06%pos 89599 (R+)  
CH17-80E07AL035694.898.33%pos 22863 (R+) AL109941.1798.34%pos 20761 (F+) 
CH17-84I15AL109941.1799.63%pos 91497 (R-)  
CH17-89E23 AL035694.899.74%pos 93196 (F+) 
CTC-774N10AL035694.899.5%pos 90930 (R-)  
CTD-2033A18 AL035694.8100%pos 73193 (F-) 
CTD-2064O5AL109941.1799.13%pos 89559 (R-)  
CTD-2108B19 AL109941.1798.26%pos 100999 (F-) 
CTD-2169M14AL035694.899.67%pos 73207 (R-)  
CTD-2233O23 AL109941.1799.75%pos 86284 (F+) 
CTD-2305F1 AL109941.1797.36%pos 24105 (F-) 
CTD-2511G8AL109941.1797.52%pos 79628 (R-)  
CTD-3046A4 AL035694.8100%pos 48704 (F-) 
CTD-3080L12AL109941.1797.07%pos 137946 (R+) AL035694.8100%pos 53857 (F+) 
CTD-3080N18 AL109941.1799.41%pos 84499 (F-) 
CTD-3172H16 AL035694.897.03%pos 57047 (F-) 
CTD-3228P6AL109941.1799.47%pos 52008 (R+) AL035694.899.16%pos 42623 (F+) 
RP11-104M16 AL109941.1799.29%pos 111896 (F-) 
RP11-121J17AL109941.1798.03%pos 84581 (R+)  
RP11-167A18AL109941.1799.84%pos 113785 (R+)  
RP11-281F2 AL109941.1799.37%pos 73807 (F-) 
RP11-321I13AL035694.899.18%pos 2690 (R+) AL109941.1798.8%pos 76253 (F+) 
RP11-356O11AL035694.897.69%pos 82355 (R-)  
RP11-627E13AL035694.899.13%pos 42578 (R-)  
RP11-666C1AL109941.1798.01%pos 72201 (R-)  
RP11-668J3 AL109941.1799.39%pos 112842 (F-) 
RP11-72C17 AL109941.1799.38%pos 98370 (F-) 
RP11-730E11AL109941.1798.58%pos 91522 (R+)  
RP11-774C12 AL109941.1798.91%pos 63535 (F-) 



down arrow  Fosmid Ends



CloneRF


Accession%idPosition (strand) Accession%idPosition (strand)


ABC10-1585070F15AL035694.899.85%pos 29055 (R-)  
ABC10-1622770G10AL109941.1799.29%pos 129479 (R+) AL035694.899.44%pos 79291 (F+) 
ABC10-43609100E21AL109941.1799.85%pos 106109 (R+) AL109941.1799.83%pos 150136 (F-) 
ABC10-43666100D18AL035694.898.59%pos 11935 (R+) AL035694.899.2%pos 52217 (F-) 
ABC10-43667900E7AL109941.17100%pos 19286 (R-)  
ABC10-44078100H1AL109941.17100%pos 52303 (R+) AL109941.1799.47%pos 94187 (F-) 
ABC10-44079700I4AL109941.1799.84%pos 57307 (R+) AL109941.1799.83%pos 95491 (F-) 
ABC10-44085300L18AL109941.1799.57%pos 121351 (R-) AL109941.1799.01%pos 82051 (F+) 
ABC10-44086500M12AL109941.1799.55%pos 19287 (R-)  
ABC10-44120200J21AL035694.8100%pos 38991 (R+) AL035694.899.45%pos 80894 (F-) 
ABC10-44120900G16AL035694.899.56%pos 53300 (R-) AL035694.899.59%pos 14182 (F+) 
ABC10-44140100B1AL035694.899.44%pos 11918 (R+) AL035694.899.75%pos 52231 (F-) 
ABC10-44142800E11AL035694.8100%pos 81913 (R-) AL035694.8100%pos 40092 (F+) 
ABC10-44146500F14 AL109941.1799.2%pos 6047 (F-) 
ABC10-44147000E15AL109941.1799.72%pos 43793 (R+) AL109941.1799.84%pos 83522 (F-) 
ABC10-441950N3AL109941.1799.84%pos 123008 (R-) AL109941.17100%pos 78409 (F+) 
ABC10-44372500H10AL109941.1798.74%pos 19919 (R+) AL109941.1798.96%pos 56303 (F-) 
ABC10-44376000J12AL109941.1799.82%pos 29859 (R-)  
ABC10-44419400D24AL109941.17100%pos 126826 (R-) AL109941.1799.71%pos 86446 (F+) 
ABC10-44450800C1 AL035694.8100%pos 6483 (F-) 
ABC10-44454700J13AL035694.899.74%pos 48717 (R+) AL035694.899.29%pos 91363 (F-) 
ABC10-44462100L14AL109941.17100%pos 43776 (R+) AL035694.899.74%pos 67962 (F+) 
 AL109941.17100%pos 83576 (F-) 
ABC10-44462100P7AL035694.899.7%pos 68004 (R-) AL035694.8100%pos 26539 (F+) 
ABC10-44477500F24AL035694.899.85%pos 11928 (R+) AL035694.899.61%pos 52224 (F-) 
ABC10-44477900K10AL035694.899.85%pos 48707 (R+) AL035694.899.08%pos 91422 (F-) 
ABC10-44480700G6 AL109941.1799.58%pos 110118 (F+) 
ABC10-44480700P14 AL109941.1799.7%pos 110124 (F+) 
ABC10-44497200P12AL109941.1799.61%pos 131301 (R+) AL035694.899.85%pos 77241 (F+) 
ABC10-44509900L4AL109941.1799.73%pos 112132 (R-) AL109941.1799.87%pos 70545 (F+) 
ABC10-44510200K4AL035694.8100%pos 68950 (R-) AL035694.899.73%pos 27571 (F+) 
ABC10-44516000G20AL109941.1799.71%pos 26850 (R+) AL109941.1799.67%pos 64123 (F-) 
ABC10-44516600I5AL109941.17100%pos 4813 (R+) AL109941.1799.85%pos 46394 (F-) 
ABC10-44519800L21AL109941.1797.53%pos 106171 (R+) AL109941.1799.09%pos 149820 (F-) 
ABC10-44522600D11AL109941.1799.36%pos 126822 (R-) AL109941.1799.61%pos 86444 (F+) 
ABC10-44523400H21AL109941.1798.06%pos 121906 (R+) AL035694.898.7%pos 89527 (F+) 
ABC10-44524300L7AL109941.1799.42%pos 19911 (R+) AL109941.1799.05%pos 56294 (F-) 
ABC10-44536800O3AL109941.1799.87%pos 121881 (R+) AL035694.899.2%pos 87560 (F+) 
ABC10-44537400A18 AL109941.1799.06%pos 10723 (F-) 
ABC10-44544700E20AL035694.8100%pos 58188 (R-) AL035694.899.83%pos 15877 (F+) 
ABC10-44551500O15AL035694.899.6%pos 31340 (R-)  
ABC10-44553300G24AL109941.1799.67%pos 4807 (R+) AL109941.1799.71%pos 46413 (F-) 
ABC10-44555500E15AL035694.8100%pos 24956 (R-)  
ABC10-44566000C23 AL109941.1799.29%pos 19945 (F-) 
ABC10-44571500A17 AL109941.17100%pos 2762 (F-) 
ABC10-44575600J12AL109941.1799.57%pos 112140 (R-) AL109941.17100%pos 70520 (F+) 
ABC10-44614300P7AL109941.17100%pos 139177 (R-) AL109941.17100%pos 97127 (F+) 
ABC10-44615900P4AL109941.1799.11%pos 92576 (R-) AL109941.1797.79%pos 51387 (F+) 
ABC10-44634000D19AL035694.899.61%pos 31325 (R-)  
ABC10-44636300K22 AL035694.8100%pos 40613 (F-) 
ABC10-44658900E6 AL109941.1799.84%pos 74843 (F+) 
ABC10-44658900F5AL109941.1799.55%pos 111768 (R-)  
ABC10-44678700E12AL035694.898.57%pos 68953 (R-) AL035694.899.58%pos 27585 (F+) 
ABC10-44680500M16AL109941.1799.03%pos 44346 (R-) AL109941.1799.86%pos 4669 (F+) 
ABC10-44690400M19AL035694.898.18%pos 90482 (R+) AL109941.1799.86%pos 119858 (F+) 
ABC10-44705000B21AL109941.1799.57%pos 82693 (R+) AL109941.1799.47%pos 124041 (F-) 
ABC10-44714100D10AL109941.17100%pos 129469 (R+) AL035694.8100%pos 79271 (F+) 
ABC10-44747300P11 AL035694.899.87%pos 9929 (F-) 
ABC10-44747900C24AL109941.1799.82%pos 4813 (R+) AL109941.1799.87%pos 46420 (F-) 
ABC10-44748100C20 AL109941.1799.72%pos 22149 (F-) 
ABC10-44749100L18AL035694.899.24%pos 43853 (R+) AL035694.899.44%pos 84182 (F-) 
ABC10-45490000L5 AL109941.1799.87%pos 6061 (F-) 
ABC10-45494700C14AL035694.899.73%pos 15517 (R+) AL035694.899.86%pos 56565 (F-) 
ABC10-45501100J10AL035694.8100%pos 10903 (R-)  
ABC10-45501300I11AL035694.8100%pos 10877 (R-)  
ABC10-45511200H14AL035694.899.7%pos 38697 (R+) AL035694.898.8%pos 79831 (F-) 
ABC10-45521700N12 AL109941.17100%pos 15341 (F-) 
ABC10-45524500P14AL109941.1799.45%pos 115162 (R+) AL035694.899.59%pos 93199 (F+) 
ABC10-45526600P7AL109941.1799.24%pos 90057 (R-) AL109941.1799.06%pos 48978 (F+) 
ABC10-45528700L11 AL035694.899.84%pos 22145 (F-) 
ABC10-45529200F13 AL109941.1799.84%pos 9090 (F-) 
ABC10-45543700C21 AL035694.8100%pos 17807 (F-) 
ABC10-45549000D18AL035694.899.33%pos 3338 (R-)  
ABC10-46305300D22 AL109941.1799.55%pos 41076 (F-) 
ABC10-46313300J1AL035694.899.44%pos 86210 (R+) AL109941.17100%pos 122797 (F+) 
ABC11-47091900B10AL035694.899.32%pos 41908 (R+) AL035694.899.58%pos 82714 (F-) 
ABC11-47094800J2AL109941.1798.93%pos 55338 (R-) AL109941.1799.7%pos 13472 (F+) 
ABC11-47095500K1AL109941.1799.85%pos 17876 (R+) AL109941.1798.15%pos 56924 (F-) 
ABC11-47151700L5AL109941.1799.86%pos 137982 (R+) AL035694.899.6%pos 73103 (F+) 
ABC11-47166800L20AL035694.899.63%pos 86372 (R+) AL109941.1799.31%pos 122715 (F+) 
ABC11-47168100M17AL109941.1799.64%pos 137970 (R+) AL035694.899.3%pos 73108 (F+) 
ABC11-47168500B22AL035694.899.87%pos 34073 (R-)  
ABC11-47179400M17AL109941.1799.09%pos 24917 (R+) AL109941.1798.91%pos 65503 (F-) 
ABC11-47189800N8AL109941.1799.35%pos 148014 (R-) AL109941.1799.61%pos 110297 (F+) 
ABC11-47191200C12AL109941.1799.32%pos 39888 (R-)  
ABC11-47211100N17AL035694.899.45%pos 34035 (R-)  
ABC11-47213000M7AL109941.1799.17%pos 14607 (R-)  
ABC11-47213700G16AL035694.899.38%pos 92383 (R+) AL109941.1799.11%pos 120875 (F+) 
ABC11-47247400D3AL109941.1799.87%pos 17913 (R+) AL109941.1799.47%pos 56902 (F-) 
ABC11-47248000D5AL109941.17100%pos 14608 (R-)  
ABC11-47311200E5AL109941.1798.88%pos 78786 (R+) AL109941.1799.74%pos 117378 (F-) 
ABC11-47313400G12AL109941.1798.16%pos 137692 (R+) AL035694.899.49%pos 75158 (F+) 
ABC11-47323600G12AL035694.899.25%pos 37604 (R-)  
ABC11-47323700C1AL109941.1799.73%pos 105507 (R-) AL109941.1799.61%pos 66515 (F+) 
ABC11-47365800P14AL109941.1799.87%pos 105537 (R-) AL109941.1798.66%pos 66506 (F+) 
ABC11-47408700B11AL035694.899.26%pos 40110 (R-) AL035694.899.75%pos 72 (F+) 
ABC11-47409000C19AL109941.1799.84%pos 107911 (R+) AL109941.1799.17%pos 149062 (F-) 
ABC11-47409000E4AL109941.17100%pos 107926 (R+) AL109941.1799.35%pos 149062 (F-) 
ABC11-48001600P4AL109941.1799.86%pos 66425 (R-) AL109941.1799.72%pos 26578 (F+) 
ABC11-48015800A19AL109941.1799.24%pos 137732 (R+) AL035694.897.91%pos 75191 (F+) 
ABC11-48022100F15AL109941.1798.9%pos 64976 (R-) AL109941.1799.45%pos 24660 (F+) 
ABC11-48031200K7AL035694.899.35%pos 52955 (R-) AL035694.899.87%pos 9150 (F+) 
ABC11-48039200G11AL035694.899.75%pos 72743 (R+) AL109941.1799.75%pos 139301 (F+) 
ABC11-48194500O18AL109941.1799.68%pos 78784 (R+) AL109941.1799.29%pos 117370 (F-) 
ABC11-48250800H2AL035694.899.11%pos 5871 (R+) AL035694.898.92%pos 46482 (F-) 
ABC11-48272100D10AL035694.898.88%pos 40114 (R-) AL035694.899.73%pos 52 (F+) 
ABC11-48272400A3 AL035694.899.41%pos 5166 (F-) 
ABC11-48289800J13AL109941.17100%pos 52599 (R+) AL109941.1799.7%pos 92851 (F-) 
ABC11-48401100G7AL035694.8100%pos 83098 (R-) AL035694.8100%pos 41751 (F+) 
ABC11-49335400D9AL109941.1799.3%pos 26150 (R-)  
ABC11-49336600C20AL109941.1799.4%pos 9903 (R+) AL109941.1798.74%pos 49151 (F-) 
ABC11-49383300A15AL109941.1799.06%pos 131558 (R-) AL109941.1799.47%pos 90841 (F+) 
ABC11-49385100A12AL109941.1799.74%pos 108310 (R-) AL109941.17100%pos 68282 (F+) 
ABC11-49431000L5AL035694.899.47%pos 30471 (R-)  
ABC11-49467100F18AL109941.1799.23%pos 23968 (R-)  
ABC11-49470600D6AL109941.1799.34%pos 87655 (R-) AL109941.1799.75%pos 47791 (F+) 
ABC11-49492100P20AL109941.1799.71%pos 119801 (R+) AL035694.898.54%pos 89702 (F+) 
ABC11-49495100N8AL109941.1799.75%pos 36298 (R+) AL109941.1799.63%pos 77618 (F-) 
ABC11-49528100H18AL109941.1799.7%pos 82557 (R+) AL109941.17100%pos 122676 (F-) 
ABC11-49539700F5AL035694.899.51%pos 49859 (R+) AL035694.899.75%pos 90715 (F-) 
ABC11-49598400O4AL035694.898.51%pos 50855 (R-) AL035694.899.85%pos 11050 (F+) 
ABC11-49616300E23AL035694.899.48%pos 83422 (R+) AL109941.1798.71%pos 129740 (F+) 
ABC11-49634900A17AL035694.899.12%pos 91139 (R-) AL035694.898.59%pos 49183 (F+) 
ABC11-49644900G15AL109941.1799.57%pos 99407 (R-) AL109941.1799.35%pos 57350 (F+) 
ABC12-46317200N14AL035694.899.46%pos 88986 (R-) AL035694.898.49%pos 49962 (F+) 
ABC12-46336900C16AL035694.899.62%pos 89004 (R-) AL035694.899.62%pos 49933 (F+) 
ABC12-46337100H11AL035694.899.38%pos 89013 (R-) AL035694.899.14%pos 49932 (F+) 
ABC12-46337600G21 AL109941.1799.88%pos 31839 (F-) 
ABC12-46356000N7AL109941.1799.25%pos 9011 (R-)  
ABC12-46626400C23AL109941.1797.29%pos 10527 (R+) AL109941.1799.46%pos 49729 (F-) 
ABC12-46658000N4 AL109941.1799.01%pos 83261 (F+) 
ABC12-46658500D24AL035694.899.45%pos 51618 (R-) AL035694.899.46%pos 11604 (F+) 
ABC12-46659600J6AL109941.1799.61%pos 141785 (R-) AL109941.1799.88%pos 99943 (F+) 
ABC12-46666100P8AL109941.1798.43%pos 11618 (R+) AL109941.1799.26%pos 52299 (F-) 
ABC12-46698100N4AL035694.899.74%pos 28123 (R+) AL035694.899.86%pos 66183 (F-) 
ABC12-46759900D7AL109941.17100%pos 27418 (R-)  
ABC12-46794000C20AL035694.899.86%pos 27202 (R+) AL035694.8100%pos 65244 (F-) 
ABC12-46795800A9AL035694.897.69%pos 67221 (R-) AL035694.899.79%pos 25604 (F+) 
ABC12-46798200C21AL109941.1799.19%pos 138324 (R-) AL109941.17100%pos 97627 (F+) 
ABC12-46816600L2AL035694.899.6%pos 91957 (R+) AL109941.17100%pos 120748 (F+) 
ABC12-46818700G10AL035694.899.71%pos 88173 (R+) AL109941.1799.47%pos 123620 (F+) 
ABC12-46819200L2AL109941.1799.2%pos 120053 (R-) AL109941.1798.91%pos 79213 (F+) 
ABC12-46836900M15AL035694.899.53%pos 67225 (R-) AL035694.899.46%pos 25596 (F+) 
ABC12-46849300B20AL035694.8100%pos 22926 (R-)  
ABC12-46851600D21 AL035694.899.85%pos 8205 (F-) 
ABC12-46851900N2 AL035694.899.86%pos 38945 (F-) 
ABC12-46882000M8AL035694.899.71%pos 28118 (R+) AL035694.898.41%pos 66197 (F-) 
ABC12-46902500J21AL109941.1799.17%pos 4969 (R-)  
ABC12-46907100E21AL035694.898.11%pos 40376 (R-)  
ABC12-46920100J22AL035694.899.59%pos 11901 (R-)  
ABC12-46921900A22 AL109941.1798.88%pos 8395 (F-) 
ABC12-46925300G11AL109941.1799.62%pos 137513 (R-) AL109941.1798.72%pos 94146 (F+) 
ABC12-46975000N22 AL109941.1799.13%pos 8392 (F-) 
ABC12-46975500P9AL035694.899.44%pos 32756 (R+) AL035694.898.87%pos 72786 (F-) 
ABC12-46976500F13AL035694.899.33%pos 11903 (R-)  
ABC12-46977500P15AL109941.1798.11%pos 27415 (R-)  
ABC12-46978500K6AL035694.898.95%pos 73046 (R+) AL109941.1799.74%pos 139015 (F+) 
ABC12-46979100I22AL109941.1799.32%pos 149398 (R+) AL035694.899.73%pos 63841 (F+) 
ABC12-46981200K6 AL035694.899.54%pos 32861 (F-) 
ABC12-46992200G4AL109941.1799.28%pos 24423 (R-)  
ABC12-47014700F15AL035694.899.41%pos 88178 (R+) AL109941.1798.89%pos 123620 (F+) 
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WI2-3654N22 AL035694.899.38%pos 67133 (F+) 
WI2-3658G10 AL035694.898.96%pos 67133 (F+) 
WI2-3763J13 AL035694.899.69%pos 67136 (F+)