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Join Evaluation Legend
- Serious alignment problem, requires review. (details...)
- Zero, or more than one, overlaps
- Half dove-tail >50 bp
- Alignment identity <98%
- Alignment length <100 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
- Minor alignment problem. (details...)
- Exactly one overlap
- Half dove-tail >0 bp and <=50bp
- Alignment identity <99.1%
- 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
- Excellent alignment, meets all defined criteria. (details...)
- Exactly one RuleInfo
- Half dove-tail <=0 bp
- Alignment identity >=99.1%
- 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
- 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 AC100729.21 and AC120840.32
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AC100729.21 Mus musculus chromosome 19, clone RP24-286E16, complete sequence [htgs_phase3]
Length: 167,242 bp
AC120840.32 Mus musculus chromosome 19, clone RP24-539E24, complete sequence [htgs_phase3]
Length: 201,016 bp
Certified join: Blunt/Short, Removing short-overlap designation so contig can build. (view)
Alignment Summary
Join evaluation: Alignment count: 1
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Alignment 1 of 1
Mismatches = 0, Gaps = 0, Length = 2896 Percent identity = 100% Score = 5741 bits (2896), Expect = 0 1 BAC and 0 Fosmid bridging clones. 1 BAC and 0 Fosmid concordant clones. 0 BAC and 0 Fosmid discordant clones. AC100729.21 >164347 gatctttttgcactttctttgattgttgtgccgttttctatggaatcttctgcacctgag 164406 AC120840.32 <201016 ............................................................ 200957 AC100729.21 >164407 attctctattccatctcttatattctgttgctgattctcacatctatagttcctgctttc 164466 AC120840.32 <200956 ............................................................ 200897 AC100729.21 >164467 ttttctaggttttctgtctctagagttgtctccctttgggttttctttatcctttctact 164526 AC120840.32 <200896 ............................................................ 200837 AC100729.21 >164527 tccctttttagatcttggatggttttgttcaattccatcacctgtttcattgtgttttcc 164586 AC120840.32 <200836 ............................................................ 200777 AC100729.21 >164587 tgtaattctttttgcattttgcattttctttgattgttgtgccaatgttctccatggaat 164646 AC120840.32 <200776 ............................................................ 200717 AC100729.21 >164647 ctactgcacctgagattctctcttccatctcttgtattctgttgctgatgctcacatcta 164706 AC120840.32 <200716 ............................................................ 200657 AC100729.21 >164707 tggttccagatttctttcctagggtctctatttccagtgttgcctcactttgggttttct 164766 AC120840.32 <200656 ............................................................ 200597 AC100729.21 >164767 tcatagtgtctacttccctttttaggtctagtatggttttgttcatttccatcacctgtt 164826 AC120840.32 <200596 ............................................................ 200537 AC100729.21 >164827 tagatgtgtttttctgtttttctttaaggacttctacctgtttggttgtattttcctgtt 164886 AC120840.32 <200536 ............................................................ 200477 AC100729.21 >164887 tttctttaaggacttgtaactctttagcagtgttcttatgaatttctttaagtgagttat 164946 AC120840.32 <200476 ............................................................ 200417 AC100729.21 >164947 taaagtccttcttgatgtcctctaccatcatcatgagatatgcctttaaatccgggtcta 165006 AC120840.32 <200416 ............................................................ 200357 AC100729.21 >165007 ggtttttgggtgtgttggggtgcccaggactggctgaggtgggagtgctgggttctgatg 165066 AC120840.32 <200356 ............................................................ 200297 AC100729.21 >165067 atggtgagtggtcttggtttctgttagtaagtttcttatgtctgcctttcaccatctggt 165126 AC120840.32 <200296 ............................................................ 200237 AC100729.21 >165127 aatctctggagtcagttatagttgtctctggttagagcttgttcctcttgtgattccctt 165186 AC120840.32 <200236 ............................................................ 200177 AC100729.21 >165187 agcctctaccagcagacctgggagactacctctctcctgagtttcaatggttagagcact 165246 AC120840.32 <200176 ............................................................ 200117 AC100729.21 >165247 ctctgcaggcaagctcacccttgcagggaaggtgcacagatatctggtgtttggacttgc 165306 AC120840.32 <200116 ............................................................ 200057 AC100729.21 >165307 ttcctggcagaagttgaaggcccaaaacagggtctgtcccagaagctgttagcttctgtt 165366 AC120840.32 <200056 ............................................................ 199997 AC100729.21 >165367 gtccacactctctcctgtgcagactagtctctgcgagatccaggatccaagatggctccc 165426 AC120840.32 <199996 ............................................................ 199937 AC100729.21 >165427 tcaggtgctccagcaaagtcctcccgggcagagcagacacctcttctctggcagggaagg 165486 AC120840.32 <199936 ............................................................ 199877 AC100729.21 >165487 tgcccggatgtctggagcctgaaacggggtctgtctcagaagctctgtggctgctgcctg 165546 AC120840.32 <199876 ............................................................ 199817 AC100729.21 >165547 tcacagaagctgttagcttctgcagtccacactctcccacagactagtcttggtgggatc 165606 AC120840.32 <199816 ............................................................ 199757 AC100729.21 >165607 caggaaccaagatgggcaatgccctctcctgtaattctttttttttttattacgtatttt 165666 AC120840.32 <199756 ............................................................ 199697 AC100729.21 >165667 cctgaattacatttccaatgctatcccaaaagtcccccacatcctcccccccactcccct 165726 AC120840.32 <199696 ............................................................ 199637 AC100729.21 >165727 acccacccattcccatttttggacctggcgttcccctgtactggggcatataaggtttga 165786 AC120840.32 <199636 ............................................................ 199577 AC100729.21 >165787 ctatccaatgggcctctctttccagtgatggccgactaggccatcttttgatacatatgc 165846 AC120840.32 <199576 ............................................................ 199517 AC100729.21 >165847 agctagagtcaagagctccggggtactggttagttcatactattgcacctacagggttgc 165906 AC120840.32 <199516 ............................................................ 199457 AC100729.21 >165907 agatctctttagctccttggatactttctctagctcctccattgggggccctgtgatcca 165966 AC120840.32 <199456 ............................................................ 199397 AC100729.21 >165967 tccaatagctgactgtgagcatccacttctgtgtttgctaggccccggcctagtctcaca 166026 AC120840.32 <199396 ............................................................ 199337 AC100729.21 >166027 agagacagctatatcacggtctttgcaacaaacgcttgctagtgtatgcaatggtgtcat 166086 AC120840.32 <199336 ............................................................ 199277 AC100729.21 >166087 agtttggaggctaattataggatggatccctggatatggcagtctctagatggtccatcc 166146 AC120840.32 <199276 ............................................................ 199217 AC100729.21 >166147 ttttgtctcaggtccaaactttgtctctgtaactccttccatgggtgattgtttccaatt 166206 AC120840.32 <199216 ............................................................ 199157 AC100729.21 >166207 ctaagaaggggcaaaatgtccacactttggtcttcgttcttcttcagtttcatgtgtttt 166266 AC120840.32 <199156 ............................................................ 199097 AC100729.21 >166267 gcaaattataccttatatctcgctatactaagtttctgggctaatatccacttatcagtg 166326 AC120840.32 <199096 ............................................................ 199037 AC100729.21 >166327 agtacatattatttgagtttctttgtgattgtgttacctcactcaggatgatgccctcca 166386 AC120840.32 <199036 ............................................................ 198977 AC100729.21 >166387 ggtccaaccatttgcctaggaatttcataaattcattctttttaatagctgagtagtact 166446 AC120840.32 <198976 ............................................................ 198917 AC100729.21 >166447 ccattgtgtaaatgtaccacatttttgtatccattcctctgttgaggggcatctgggttc 166506 AC120840.32 <198916 ............................................................ 198857 AC100729.21 >166507 tttccagcttctggctattgtaaataaggcttctatgaatatagtggagcatgtgtcctt 166566 AC120840.32 <198856 ............................................................ 198797 AC100729.21 >166567 cttactggttgggacatcttctggatatatgcccaggagaggtattgctggatcctctgg 166626 AC120840.32 <198796 ............................................................ 198737 AC100729.21 >166627 tagtactatgtctaattttctgaggaacaactagattgatttccagagaggctgtacaag 166686 AC120840.32 <198736 ............................................................ 198677 AC100729.21 >166687 cttgcaatcccaccaacaatggaggagtgttcctctttgtccacatcctcgccagcatca 166746 AC120840.32 <198676 ............................................................ 198617 AC100729.21 >166747 gctgtcacctgaatttttgatcttagccattctgtctgctgtaagatggaacctcagggt 166806 AC120840.32 <198616 ............................................................ 198557 AC100729.21 >166807 tgttttgatttgcatttctctgatgattaaggatgttgaatattttttcaggtgcttctc 166866 AC120840.32 <198556 ............................................................ 198497 AC100729.21 >166867 agcaattcggtattcctcgggtgagaattctttgtatagccctgagccccatcttttaat 166926 AC120840.32 <198496 ............................................................ 198437 AC100729.21 >166927 ggggttatttgattttctggagtccaccctcttgagttctttacatatattggatattag 166986 AC120840.32 <198436 ............................................................ 198377 AC100729.21 >166987 tcccctatctgatttaagataggtaaagatcctttcccaatctgttgttggcctttttgt 167046 AC120840.32 <198376 ............................................................ 198317 AC100729.21 >167047 cttattgagggtgtcttttgccttgcagaagctttgcagtttcatgaggtcccatttgtc 167106 AC120840.32 <198316 ............................................................ 198257 AC100729.21 >167107 aatcctcaatcttacagcacaagccattgctgttctattcaggaatttttcccctgtgcc 167166 AC120840.32 <198256 ............................................................ 198197 AC100729.21 >167167 catatctttgaggcttttccccacgttctcctctataagtttcagtgtctctggttttat 167226 AC120840.32 <198196 ............................................................ 198137 AC100729.21 >167227 gtgaagttccttgatc 167242 AC120840.32 <198136 ................ 198121
| Type | Point1 | Point2 | Orient1 | Orient2 | Curator | Comment | Time |
| A | 167242 | 198120 | + | - | chenhc | Taxid 10090 chrom 19 Reference assembly | 2008-11-24 16:49:19.546 |
| A | 167242 | 198120 | + | - | chenhc | Taxid 10090 chrom 19 Reference assembly | 2008-11-20 17:01:42.016 |
Events
| Id | Type | Date | Whodid | Comment |
| 105501 | InitHasAlign | 09/15/2006 12:29:43 | chenhc | blast parameters: -W 28 -r 1 -q -3 -e 1e-5 -Z 200 -F 'm L; R -d rodents.lib' 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 f_cron_job |
| 105502 | SubCert | 01/09/2007 13:00:46 | acook | AC100729.21 overlaps AC120840.32 by ~2.9kb, supported by AC122329.4 |
| 110346 | CuratedAlign | 01/18/2007 12:56:53 | church | Generated alignment using unfiltered alignment manual fix sh_ov_len to -1 (chen) |
| 105503 | SubCert | 01/22/2007 09:58:05 | church | Removing short-overlap designation so contig can build |
| 105504 | RejectCert | 08/27/2008 11:36:55 | nhgri | schneiva (NCBI) logged in as NHGRI to reject this certificate. Rejecting this certificate b/c this is not a blunt/short join (defined as < 50 bp). |
BAC Ends
| Clone | R | F | ||||
|---|---|---|---|---|---|---|
| Accession | %id | Position (strand) | Accession | %id | Position (strand) | |
| C3H-12A18 | AC100729.21 | 99.68% | pos 102932 (R-) | |||
| C3H-158C13 | AC100729.21 | 99.24% | pos 134663 (R-) | |||
| C3H-193H16 | AC100729.21 | 99.87% | pos 32777 (R-) | |||
| C3H-198K1 | AC100729.21 | 99.64% | pos 118055 (R-) | AC100729.21 | 99.23% | pos 19083 (F+) |
| C3H-209C9 | AC120840.32 | 99.08% | pos 145072 (F+) | |||
| C3H-211H15 | AC120840.32 | 99.42% | pos 92946 (F-) | |||
| C3H-241A18 | AC120840.32 | 99.3% | pos 97627 (F-) | |||
| C3H-241B17 | AC120840.32 | 99.31% | pos 97625 (F-) | |||
| CH29-137F10 | AC100729.21 | 99.27% | pos 78452 (R-) | |||
| CH29-13K6 | AC120840.32 | 99.42% | pos 144545 (R+) | AC100729.21 | 99.87% | pos 5229 (F+) |
| CH29-174L24 | AC100729.21 | 99.34% | pos 152666 (F-) | |||
| CH29-40D18 | AC100729.21 | 99.24% | pos 95972 (R-) | |||
| CH29-484C12 | AC100729.21 | 99.75% | pos 110317 (R+) | |||
| CH29-4O4 | AC100729.21 | 99.35% | pos 153014 (R-) | |||
| CH29-539A15 | AC100729.21 | 99.53% | pos 157035 (F-) | |||
| CH29-573B15 | AC120840.32 | 99.74% | pos 185580 (F-) | |||
| RP24-342I22 | AC120840.32 | 99.37% | pos 7112 (R+) | |||
| RP24-387E8 | AC100729.21 | 99.64% | pos 95930 (F-) | |||
| RP24-62E8 | AC120840.32 | 99.39% | pos 109317 (R+) | |||
Fosmid Ends
| Clone | R | F | ||||
|---|---|---|---|---|---|---|
| Accession | %id | Position (strand) | Accession | %id | Position (strand) | |
| WI1-1068H20 | AC100729.21 | 100% | pos 37087 (R+) | AC100729.21 | 99.47% | pos 78614 (F-) |
| WI1-1093C14 | AC100729.21 | 99.84% | pos 32726 (R-) | |||
| WI1-1191H10 | AC120840.32 | 99.27% | pos 26701 (R+) | |||
| WI1-1405F22 | AC120840.32 | 99.31% | pos 37330 (R+) | |||
| WI1-1477K24 | AC120840.32 | 99.68% | pos 109283 (F+) | |||
| WI1-1715P13 | AC120840.32 | 100% | pos 47654 (R-) | AC120840.32 | 99.65% | pos 8821 (F+) |
| WI1-1910C5 | AC120840.32 | 99.51% | pos 27009 (R+) | |||
| WI1-1961L20 | AC120840.32 | 100% | pos 106603 (F-) | |||
| WI1-2218A20 | AC100729.21 | 99.37% | pos 106939 (R-) | AC100729.21 | 100% | pos 68267 (F+) |
| WI1-2274H12 | AC120840.32 | 100% | pos 27106 (F-) | |||
| WI1-2349D23 | AC100729.21 | 100% | pos 102751 (R+) | AC100729.21 | 99.85% | pos 143311 (F-) |
| WI1-2684K15 | AC100729.21 | 100% | pos 136571 (R+) | |||
| WI1-2849I10 | AC120840.32 | 99.66% | pos 14048 (R-) | |||
| WI1-373L8 | AC100729.21 | 99.05% | pos 146997 (R-) | AC100729.21 | 100% | pos 108294 (F+) |
| WI1-512E24 | AC100729.21 | 100% | pos 10822 (F-) | |||
| WI1-562N10 | AC120840.32 | 99.23% | pos 60252 (R-) | |||
| AC120840.32 | 99.23% | pos 61727 (R-) | ||||
| AC120840.32 | 99.23% | pos 63204 (R-) | ||||
| WI1-957L7 | AC120840.32 | 99.7% | pos 109976 (R+) | AC120840.32 | 99.3% | pos 151457 (F-) |