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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 BX119993.9 and BX842560.2
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BX119993.9 Mouse DNA sequence from clone RP23-13I18 on chromosome X Contains a novel gene and a novel pseudogene, complete sequence [htgs_phase3]
Length: 234,697 bp
BX842560.2 Mouse DNA sequence from clone RP23-210L22 on chromosome X, complete sequence [htgs_phase3]
Length: 13,110 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 0 Fosmid bridging clones. 0 BAC and 0 Fosmid concordant clones. 0 BAC and 0 Fosmid discordant clones. BX119993.9 >232698 tacaaaacctctcttttgtagggcagcagctactatttgggcaatctcatgggtttgttg 232757 BX842560.2 >1 ............................................................ 60 BX119993.9 >232758 taaatctttggtagctattagtaaatcgtccatgcaatgcacaatataggcagtgggaaa 232817 BX842560.2 >61 ............................................................ 120 BX119993.9 >232818 gcgtcctcttattggatcaatgatctgggccacatatttttggcacaaggtgcggctatt 232877 BX842560.2 >121 ............................................................ 180 BX119993.9 >232878 agccattctttgtggcaaaaccctccactggaagcgtggatttggtcccacatgatttac 232937 BX842560.2 >181 ............................................................ 240 BX119993.9 >232938 aattggaatggaaaaggcaaagcagacacaatcttgaggatgaaggggaatagagaaaaa 232997 BX842560.2 >241 ............................................................ 300 BX119993.9 >232998 acaatcttgaatatctataacaattttgaaatagcccttaggtatggcaatgggagaggg 233057 BX842560.2 >301 ............................................................ 360 BX119993.9 >233058 tagaccaggctgtagggcacccattggcaccatagtcttaacagctctgagatcttgtaa 233117 BX842560.2 >361 ............................................................ 420 BX119993.9 >233118 caacctccaagtcccattttttcttttttataacaaatttatgtgtattccacgggaagg 233177 BX842560.2 >421 ............................................................ 480 BX119993.9 >233178 tggatggttcaaggtgtgacagcctcaattgttgctgcactaactgtaaggctgcctgga 233237 BX842560.2 >481 ............................................................ 540 BX119993.9 >233238 ccttttcttgaggcatagaccactggtccgcccagactggatcattagttttccaagata 233297 BX842560.2 >541 ............................................................ 600 BX119993.9 >233298 ttttatctgcctggagtgcaggaggagcagtggtgtctaggaaaaaaaagatctgctccc 233357 BX842560.2 >601 ............................................................ 660 BX119993.9 >233358 agtctccttttgtctcctttgggtacagggacaaagggatgaacaatcccttgttcattt 233417 BX842560.2 >661 ............................................................ 720 BX119993.9 >233418 ttccctaggccttttccagggagataccatgtttttagccttaaatttgtgacaatctca 233477 BX842560.2 >721 ............................................................ 780 BX119993.9 >233478 ttgggactgtacactataactcccatctgagagagaatatctcttccccataaaataaca 233537 BX842560.2 >781 ............................................................ 840 BX119993.9 >233538 ggaaggcccctgactacaaagagccagacagttccagtattattttccttatctgaccat 233597 BX842560.2 >841 ............................................................ 900 BX119993.9 >233598 gttaacaattttgaagtttgtaaagtatcctgagtttggcctatcccctttaagtgggta 233657 BX842560.2 >901 ............................................................ 960 BX119993.9 >233658 gtagtaggttctaaaggccaagcagtgggtcagtgtgatgaagagattactgctgcatct 233717 BX842560.2 >961 ............................................................ 1020 BX119993.9 >233718 gccccagtatctagaagtccctgaaattgtttgccatctaaaaacagggtcaacatgggt 233777 BX842560.2 >1021 ............................................................ 1080 BX119993.9 >233778 caggagtcagttaatttttgtacccaataaacatctgaggaccctggggaggacggcccc 233837 BX842560.2 >1081 ............................................................ 1140 BX119993.9 >233838 cgattttttctaatatgtggaaattgtccaattaacgggagcagcagcacttgggcaatg 233897 BX842560.2 >1141 ............................................................ 1200 BX119993.9 >233898 ccctctcctgctctcaatgtaagagtccctcctgtggctgaaaccagaatttttatttct 233957 BX842560.2 >1201 ............................................................ 1260 BX119993.9 >233958 acttggtagtcagcatcgaccacattgggggttaccacaagtccctgtagggaacctgat 234017 BX842560.2 >1261 ............................................................ 1320 BX119993.9 >234018 gctcagccaatagtaagaaaaaacatattttggggtgggggtccgaattcccctgtttta 234077 BX842560.2 >1321 ............................................................ 1380 BX119993.9 >234078 acaactaatgtcccttcctcgggagttataatcctggtggtggaggaacacaagtcgaat 234137 BX842560.2 >1381 ............................................................ 1440 BX119993.9 >234138 cctgcgcttcctgctgtagccctgcacaatccccgttggggagactggagggaatcagtg 234197 BX842560.2 >1441 ............................................................ 1500 BX119993.9 >234198 atggattgtttgggggtgctatcagggggaactggccccgagcaggtagtttccctggac 234257 BX842560.2 >1501 ............................................................ 1560 BX119993.9 >234258 cgcagtaagggggcggccatttacatcagttttggatctgtaatcacctgcccagtggcg 234317 BX842560.2 >1561 ............................................................ 1620 BX119993.9 >234318 acctctcttataattagggcagaggccaggaggcatggctccctgtgtaacttggcctgt 234377 BX842560.2 >1621 ............................................................ 1680 BX119993.9 >234378 ggcaggtgtagtgacagacttgcctggtctggtggacgggcattctcggacaaaatgtcc 234437 BX842560.2 >1681 ............................................................ 1740 BX119993.9 >234438 aaggagtccacatctgaaacacactctctgctgaggctggctagttccaccagctttttg 234497 BX842560.2 >1741 ............................................................ 1800 BX119993.9 >234498 gaagaccgctctgatggccaggtaaatagattttgagacttgatgtgaaaatgtgtctac 234557 BX842560.2 >1801 ............................................................ 1860 BX119993.9 >234558 ctcactgcagagctttatcattcctgtgaggtctaaacctctagtcttacccctcagggc 234617 BX842560.2 >1861 ............................................................ 1920 BX119993.9 >234618 agccttgcaaatggaattagcattttccaaggcaagttgtctaactaaaagcccttcatt 234677 BX842560.2 >1921 ............................................................ 1980 BX119993.9 >234678 ttcatgggaatcgagaattc 234697 BX842560.2 >1981 .................... 2000
| Type | Point1 | Point2 | Orient1 | Orient2 | Curator | Comment | Time |
| A | 234697 | 2001 | + | + | chenhc | Taxid 10090 chrom X Reference assembly | 2008-11-20 17:02:41.510 |
Events
| Id | Type | Date | Whodid | Comment |
| 23460 | ImportOldDb | 09/04/2005 14:42:00 | f_old_db | |
| 23461 | ReSetShortOvlp | 09/04/2008 10:31:48 | dbo | |
| 180227 | CreateSwitchPt | 11/20/2008 17:02:41 | 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) | |
| CH29-164G22 | BX119993.9 | 100% | pos 125099 (R+) | |||
| CH29-16F17 | BX119993.9 | 99.24% | pos 57364 (F-) | |||
| CH29-26O13 | BX119993.9 | 99% | pos 82273 (F+) | |||
| RP23-13I18 | BX119993.9 | 100% | pos 15 (F+) | |||
| RP23-210L22 | BX119993.9 | 99.49% | pos 137349 (R+) | |||
Fosmid Ends
| Clone | R | F | ||||
|---|---|---|---|---|---|---|
| Accession | %id | Position (strand) | Accession | %id | Position (strand) | |
| WI1-1387I11 | BX119993.9 | 100% | pos 168993 (R-) | BX119993.9 | 99.07% | pos 131907 (F+) |
| WI1-1648D20 | BX119993.9 | 100% | pos 183273 (R+) | |||
| WI1-1924C17 | BX119993.9 | 99.75% | pos 9531 (R-) | |||
| WI1-1924O15 | BX119993.9 | 100% | pos 9534 (R-) | |||
| WI1-2032O13 | BX119993.9 | 99.57% | pos 47097 (F+) | |||
| WI1-2158M24 | BX119993.9 | 100% | pos 133628 (R+) | BX119993.9 | 99.24% | pos 173073 (F-) |
| WI1-2376F10 | BX119993.9 | 100% | pos 127057 (R-) | BX119993.9 | 100% | pos 81549 (F+) |
| WI1-2441K2 | BX119993.9 | 100% | pos 718 (F-) | |||
| WI1-2798K12 | BX119993.9 | 99.03% | pos 143607 (R-) | BX119993.9 | 100% | pos 102247 (F+) |
| WI1-456G18 | BX119993.9 | 100% | pos 100926 (R+) | BX119993.9 | 99.68% | pos 140391 (F-) |
| WI1-532N7 | BX119993.9 | 100% | pos 152243 (R-) | |||
| WI1-748B5 | BX119993.9 | 100% | pos 173008 (R+) | BX119993.9 | 99.73% | pos 213521 (F-) |