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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 AL929496.10 and BX890621.6
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AL929496.10 Mouse DNA sequence from clone RP23-3D2 on chromosome X Contains the gene for a novel protein similar to Xlr-related, meiosis regulated Xmr, an Xlr-related, meiosis regulated (Xmr) pseudogene and two CpG islands, complete sequence [htgs_phase3]
Length: 254,072 bp
BX890621.6 Mouse DNA sequence from clone RP23-475J11 on chromosome X, complete sequence [htgs_phase3]
Length: 23,799 bp
Alignment Summary
Join evaluation: Alignment count: 1
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Alignment 1 of 1
Mismatches = 0, Gaps = 0, Length = 2000 Percent identity = 100% Score = 3965 bits (2000), Expect = 0 0 BAC and 1 Fosmid bridging clones. 0 BAC and 1 Fosmid concordant clones. 0 BAC and 0 Fosmid discordant clones. AL929496.10 >252073 tatctaggggttgggtaattgagacatattttctgtggatatggttggtacttactaggg 252132 BX890621.6 >1 ............................................................ 60 AL929496.10 >252133 aactgggttgatttttactgtagagcttaccaataactcctacctcccacctggaatccc 252192 BX890621.6 >61 ............................................................ 120 AL929496.10 >252193 atgagtcttatatgtagaaaaagattgtcttgtggtgttgatagaagaaatgattggttc 252252 BX890621.6 >121 ............................................................ 180 AL929496.10 >252253 atgatcctagcatatgtatctgacaagaccaatatgggcagcccccatattcatctggca 252312 BX890621.6 >181 ............................................................ 240 AL929496.10 >252313 gttttctccaataatcttttgtctggttaaagaaaaagcaagtatagagatcataatatt 252372 BX890621.6 >241 ............................................................ 300 AL929496.10 >252373 tagatgggataacagatacagggatgataacaatttggatcagttcctggcatccatcta 252432 BX890621.6 >301 ............................................................ 360 AL929496.10 >252433 tgaagtagtttcctgaccctatttggaaagaatgtttgttatctgtggggatttcttgga 252492 BX890621.6 >361 ............................................................ 420 AL929496.10 >252493 ctttgaccctccagatgtcagagctacccagatggaaatgaacaacagggggggataaga 252552 BX890621.6 >421 ............................................................ 480 AL929496.10 >252553 atcccatatctcatccagtgaggtcaagcttgactaccagagcagagtctcattttcttg 252612 BX890621.6 >481 ............................................................ 540 AL929496.10 >252613 gactggggacatgatgagtggtctcaatgtagtctggaacttaatagatagagaatggtc 252672 BX890621.6 >541 ............................................................ 600 AL929496.10 >252673 ctgttagggtgaatgtgtatgaagaagtgtcatttttagctggaggaatgaaagatttga 252732 BX890621.6 >601 ............................................................ 660 AL929496.10 >252733 ggtgagacagatggatccaatgagagagtccattgggtttagcagctgtaggggtcacaa 252792 BX890621.6 >661 ............................................................ 720 AL929496.10 >252793 ggattaccttaaaagggccctgccatttaggagagagatgtgatgccaatgatcggtagg 252852 BX890621.6 >721 ............................................................ 780 AL929496.10 >252853 gtttgaaggacttgacaaaagtggacaggagacagtgtatggccatagtagatggtggtc 252912 BX890621.6 >781 ............................................................ 840 AL929496.10 >252913 agcaaagttccataggagagaacagagatggcaaagtatggggtgaatataaggtctggg 252972 BX890621.6 >841 ............................................................ 900 AL929496.10 >252973 agtggagaatatttaggtgaaagaccaggaattaggaatgaatgtccatacatgagttca 253032 BX890621.6 >901 ............................................................ 960 AL929496.10 >253033 aagggtaagatgaggagaaatcacttgtggagagctcatagcctagaaagaactagtgga 253092 BX890621.6 >961 ............................................................ 1020 AL929496.10 >253093 tcaagttttacccaataaaggtgaagttcttgtgacagcttaacaagagtgtattttttt 253152 BX890621.6 >1021 ............................................................ 1080 AL929496.10 >253153 aaagagcagttagttctttataccttacctgaagattgagggtggtagtcaatatgaaga 253212 BX890621.6 >1081 ............................................................ 1140 AL929496.10 >253213 tgccaggggatgtctatggacttagatatgatatgagaaacttggcaagtaaattcagat 253272 BX890621.6 >1141 ............................................................ 1200 AL929496.10 >253273 ttattgtcttatttgagaaaggctgggacatcaaactggggaatggtctctcagaggaag 253332 BX890621.6 >1201 ............................................................ 1260 AL929496.10 >253333 aggagatccgagcacttttgccatagaagtagaaaaattaaacctctgactcagtacagc 253392 BX890621.6 >1261 ............................................................ 1320 AL929496.10 >253393 ccttatcagcctgttctaatttttgatattgttggagtaatataagaacctgtacagcac 253452 BX890621.6 >1321 ............................................................ 1380 AL929496.10 >253453 tgacccgctgtctgttgaaagccactaacttgtgaattatgcaggggcttatggtaaata 253512 BX890621.6 >1381 ............................................................ 1440 AL929496.10 >253513 aaagaagcaagataaataaggggcccatgagggtagatagtaaagtactcatccatgggg 253572 BX890621.6 >1441 ............................................................ 1500 AL929496.10 >253573 attttgtgaaccaaccttcaatccatccttcattagcttctcactttcattttcgttttt 253632 BX890621.6 >1501 ............................................................ 1560 AL929496.10 >253633 ctaacctttctctgagttttaccatagagactctctaattgcccctgaatggtcaatata 253692 BX890621.6 >1561 ............................................................ 1620 AL929496.10 >253693 gaagcaacactcttcctttagggcatggtactgttgtctcaaaactaaaagctgcaatgt 253752 BX890621.6 >1621 ............................................................ 1680 AL929496.10 >253753 actaagtctttttctaataaaggcaactagcctatctaacacacatggacctataattaa 253812 BX890621.6 >1681 ............................................................ 1740 AL929496.10 >253813 aaagcagaagcaaaatcaaaaggagtcccataagggtagaaagtagggtggtcaaaagta 253872 BX890621.6 >1741 ............................................................ 1800 AL929496.10 >253873 caagataaggtcctttccacagagtatcaaggtttactgcatggagacatctaacgtaga 253932 BX890621.6 >1801 ............................................................ 1860 AL929496.10 >253933 cagaatctctaactttgaagagatgtgagtcttgcaggcctccttctcataagtaggcct 253992 BX890621.6 >1861 ............................................................ 1920 AL929496.10 >253993 tgtggagcgtacaacagggcagttaaggtcacaaacccaggtatccagaatctgcagaag 254052 BX890621.6 >1921 ............................................................ 1980 AL929496.10 >254053 ccagtagtgtccaagaattc 254072 BX890621.6 >1981 .................... 2000
| Type | Point1 | Point2 | Orient1 | Orient2 | Curator | Comment | Time |
| A | 254072 | 2001 | + | + | chenhc | Taxid 10090 chrom X Reference assembly | 2008-11-20 17:01:59.020 |
Events
| Id | Type | Date | Whodid | Comment |
| 23834 | ImportOldDb | 02/03/2006 02:19:00 | f_old_db | |
| 23835 | ReSetShortOvlp | 09/04/2008 10:31:48 | dbo | |
| 179492 | CreateSwitchPt | 11/20/2008 17:01:59 | chenhc | tpf_builder 1.6 Toolkit wrapper version: built Nov 19 2008 using /netopt/ncbi_tools64/c++.by-date/20081119/GCC401-Release64/lib |
BAC Ends
| Clone | R | F | ||||
|---|---|---|---|---|---|---|
| Accession | %id | Position (strand) | Accession | %id | Position (strand) | |
| C3H-179K21 | AL929496.10 | 99.63% | pos 36724 (R-) | |||
| AL929496.10 | 100% | pos 36574 (R-) | ||||
| CH29-133I6 | AL929496.10 | 100% | pos 136020 (R+) | |||
| CH29-166I18 | AL929496.10 | 99.36% | pos 205734 (R-) | |||
| CH29-620I9 | AL929496.10 | 99.28% | pos 142245 (R-) | |||
| RP24-225E18 | AL929496.10 | 99.37% | pos 102678 (R-) | |||
Fosmid Ends
| Clone | R | F | ||||
|---|---|---|---|---|---|---|
| Accession | %id | Position (strand) | Accession | %id | Position (strand) | |
| WI1-1060L20 | AL929496.10 | 99.25% | pos 243888 (F+) | |||
| WI1-1157M4 | AL929496.10 | 99.72% | pos 49492 (R-) | AL929496.10 | 100% | pos 12867 (F+) |
| WI1-1493O3 | AL929496.10 | 100% | pos 175448 (F-) | |||
| WI1-1632K13 | AL929496.10 | 100% | pos 253695 (R-) | |||
| BX890621.6 | 100% | pos 1623 (R-) | ||||
| WI1-1913C20 | AL929496.10 | 100% | pos 130296 (R-) | AL929496.10 | 99.55% | pos 88304 (F+) |
| WI1-2117D16 | AL929496.10 | 99.4% | pos 119126 (F+) | |||
| WI1-2160G22 | AL929496.10 | 100% | pos 166690 (R+) | AL929496.10 | 99.57% | pos 208023 (F-) |
| WI1-2185P3 | BX890621.6 | 99.52% | pos 21024 (F+) | |||
| WI1-2197D9 | AL929496.10 | 99.74% | pos 254042 (R-) | AL929496.10 | 100% | pos 212729 (F+) |
| BX890621.6 | 99.74% | pos 1970 (R-) | ||||
| WI1-2773J9 | AL929496.10 | 100% | pos 190168 (R+) | |||
| WI1-2801B20 | BX890621.6 | 100% | pos 8065 (F-) | |||
| WI1-2897O8 | AL929496.10 | 100% | pos 47039 (F-) | |||
| WI1-340I22 | AL929496.10 | 100% | pos 144087 (R+) | |||
| WI1-429H14 | AL929496.10 | 99.86% | pos 118597 (R+) | |||
| WI1-789A9 | AL929496.10 | 100% | pos 34970 (R-) | AL929496.10 | 100% | pos 2154 (F+) |