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Join Legend
Serious alignment problem, requires review.
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
Minor alignment problem.
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.
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 BX and BX
TypePoint1Point2Orient1Orient2CuratorCommentTimeIdAlignmentReleases
Switch Points
A1409682001++chenhcTaxid 10090 chrom 7 Primary assembly 16:53:41.1135972214611GRCm38, MGSCv37
Mismatches = 0, Gaps = 0, Length = 2000
Percent identity = 100%
Score = 3965 bits (2000), Expect = 0
3 BAC and 2 Fosmid bridging clones.
3 BAC and 2 Fosmid concordant clones.
0 BAC and 0 Fosmid discordant clones.
gatcctgccgatccatgagcatgggagatctttccatcttctgagatcttctttaatttc 139028
............................................................ 60
tttcttcagagacttgaagttcttgtcatagagatctttcactttcttagttagagtcac 139088
............................................................ 120
gcctaggtattttatattatttgtggctattgagaagggtgttgtttccctaatttcttt 139148
............................................................ 180
ctcagcctgtttgtcctttgtgtagagaaaggtcattgacttgtttgagttaattttata 139208
............................................................ 240
tccagctacttcactgaagctgtttatcaggtttgggagttctctagtggaatttttagg 139268
............................................................ 300
gtcacttatatatactatcatatcatctgcaaaaagtgataatttgacttcttcctttcc 139328
............................................................ 360
aatttgtatccccttgatctccttttgttgtctaattgctctggctaggacttcaagtac 139388
............................................................ 420
aatgttgaataggtatggagagagtggacagccttgtctagtccctgattttagtgggat 139448
............................................................ 480
tgcttcaagcttctcaccatttaatttgatgctggctactggtttgctgtagattgcttt 139508
............................................................ 540
tatcatgttcgggtatgggccttgaaattctgatctttccaagacttttatcatgaatgg 139568
............................................................ 600
gtgttggattttgtcaaatgctttctcggcatctaacaagatgatcatgtggtctttgtc 139628
............................................................ 660
tttgagtttgtttatatactggattacattgatggatttccgtatattgaaccatccctg 139688
............................................................ 720
catccctgggatgaaacctacttggtcaggatggatgattgttttgatgtgttcttggat 139748
............................................................ 780
tcggttagcaagaactttattgaggatttttgcatcgatattcataagggaaattggtct 139808
............................................................ 840
gaagtactctatctttgacgggtctctctgtggtttaggtatcagagtaattgtggcttc 139868
............................................................ 900
atagaatgagttgggtagagtaccttccatttctattttatggaatagtttgtgaagaac 139928
............................................................ 960
tggaattaggtcttctttgaaggtctgatagaactctgcactaaatccgtctggtcctgg 139988
............................................................ 1020
gctttttctggctgggagactattaatgactgcttatatttctttaggggatataggagt 140048
............................................................ 1080
gttgagatcattaacctgatcttgatttagctttggtacctggtatctgtccaaaaactg 140108
............................................................ 1140
gtccatttcatccaggttttccagttttgttgagtatagccttttgtagaaggatctgat 140168
............................................................ 1200
ggtgttttggatttcttcaggatctgttgttatgtctcccttttcatttctgattttgtt 140228
............................................................ 1260
aattaggatgctgtccctgtgccctctagtgagtctggctaagggtttatctatcttgtt 140288
............................................................ 1320
gattttctcaaagaaccagctccttgattggttgattctttgaatagttcttcttgtttc 140348
............................................................ 1380
cacttggttgatttcacccctgagtttgattatttcctgccttctactcctcttgtgtga 140408
............................................................ 1440
atttgcttcctttacttctagaccttttaggtgtgttgtcaagctgctaatgtgtgatct 140468
............................................................ 1500
ctctagtttctttttggagccactcagagctatgagttttcctcttagaaatgctttcat 140528
............................................................ 1560
tgtgtcccataagtttgggaatgttgtggcttcattttcattaaactccaaaaattcctt 140588
............................................................ 1620
aatttctttctttattccttccttgaccaaggtatcattgagaacagtgttgttcagttt 140648
............................................................ 1680
ccacatgaatgttggctttctattatttattttgttattgaagaacagccttagttcatg 140708
............................................................ 1740
gtgatctgataggatgcatgggacaatttcaatatttttgtatatgttgaggcttgtttt 140768
............................................................ 1800
gtgaccaattatgtggacaattttagagaaggtaccatgaggtgctgagaagaaggtata 140828
............................................................ 1860
tccttttgttttaggataaaatgttatgtagatatctgttaagtccatttgtttcatcac 140888
............................................................ 1920
ttctgttagtttcactgtgtcattgtttagtttctgtttccatgatctgtccattggtga 140948
............................................................ 1980
atgtggtgtgttgaagtctc 140968
.................... 2000
IdTypeDateWhodidComment
22093ImportOldDb09/04/:00f_old_db
22094ReSetShortOvlp09/04/:48dbo
170479CreateSwitchPt11/20/:41chenhctpf_builder 1.6
Toolkit wrapper version: built Nov 19 2008 using /netopt/ncbi_tools64/c++.by-date//GCC401-Release64/lib
Accession%idPosition (strand) Accession%idPosition (strand)
C3H-11B3BX99.73%pos 120355 (R-) &C3H-156C10&BX100%pos 34286 (F+) C3H-156C9BX99.59%pos 28138 (R-) BX99.48%pos 34200 (F+) BX99.47%pos 28237 (R-) BX99.63%pos 34606 (F+) C3H-157L18BX99.17%pos 7502 (R-) &C3H-210E4BX100%pos 124495 (R-) BX99.56%pos 18980 (F+) C3H-218P23BX99.33%pos 67910 (R+) BX99.73%pos 43017 (F-) C3H-74I2BX99.73%pos 112629 (R+) &CH29-172A7BX99.35%pos 29723 (R-) &CH29-33H20BX99.39%pos 68569 (R-) &CH29-523D17BX99.17%pos 65689 (R+) &CH29-9N16&BX99.59%pos 108161 (F-) RP24-180A6BX99.8%pos 84699 (R-) BX99.16%pos 111617 (F+)
Fosmid Ends
Accession%idPosition (strand) Accession%idPosition (strand)
WI1-1114P8BX99.67%pos 67268 (R-) BX99.39%pos 25464 (F+) WI1-114F12BX100%pos 45710 (R-) BX100%pos 6278 (F+) WI1-1206K22BX99.52%pos 109705 (R-) BX99.6%pos 64146 (F+) WI1-1444N20BX100%pos 82604 (R+) BX99.74%pos 123535 (F-) WI1-1554F11BX99.83%pos 111025 (R+) &WI1-1736O14BX99.1%pos 67269 (R-) BX100%pos 25448 (F+) WI1-1764L24BX99.8%pos 58916 (R-) &WI1-1910D15BX99.84%pos 71487 (R-) BX100%pos 29225 (F+) WI1-195N14&BX99.57%pos 12393 (F-) WI1-2069H1BX100%pos 70162 (R+) BX100%pos 109176 (F-) WI1-2137F16BX99.79%pos 112470 (R-) BX99.45%pos 72100 (F+) WI1-2146P12BX99.44%pos 40801 (R-) &WI1-2413O23BX100%pos 32890 (R-) BX99.6%pos 132975 (F+) WI1-339E11BX100%pos 89932 (R+) BX100%pos 128422 (F-) WI1-36L12&BX100%pos 30835 (F-) WI1-450H6&BX100%pos 169758 (F+) WI1-478D17BX99.74%pos 128763 (R+) BX100%pos 27948 (F-) WI1-478F24BX100%pos 102336 (R-) BX100%pos 65417 (F+) WI1-519I9BX100%pos 87489 (R-) BX100%pos 48343 (F+) WI1-519O13BX100%pos 30926 (R+) BX100%pos 72764 (F-) WI1-572P3BX100%pos 80835 (R-) BX99.33%pos 40328 (F+) WI1-590G21BX99.67%pos 68567 (R+) BX99.52%pos 106221 (F-) WI1-902B14BX100%pos 43520 (R-) BX99.04%pos 1931 (F+) WI1-926I7&BX99.81%pos 19126 (F+) &BX99.85%pos 19121 (F+) WI1-949N8BX99.69%pos 68479 (R-) BX99.7%pos 26554 (F+)
RMER16-int
RMER16-int
RMER16-int
ORR1B1-int
Low_complexity
Low_complexity
Low_complexity
Simple_repeat
Simple_repeat
Simple_repeat
Simple_repeat
Simple_repeat
Simple_repeat
Simple_repeat
Simple_repeat
Simple_repeat
Simple_repeat
Simple_repeat
Simple_repeat
ERVB4_1B-LTR_MM
IAP1-MM_LTR
RLTR20C2_MM
RLTR20C2_MM
RLTR20C2_MM
RMER20C_Mm
MYSERV16_I-int
MYSERV16_I-int
MYSERV16_I-int
MYSERV16_I-int
MYSERV16_I-int
MYSERV16_I-int
MurERV4-int
MurERV4-int
MurERV4-int
MurERV4-int
MurERV4-int
MurERV4-int
MurERV4-int
MurERV4-int
MMERVK10C-int
MMERVK10C-int
MMERVK10C-int
ERVB4_1B-I_MM-int
ERVB4_1B-I_MM-int
MMERVK9E_I-int
MMERVK9E_I-int
IAPEY2_LTR
IAPEY2_LTR
IAPLTR3-int
RLTR19-int
ORR1B1-int
Low_complexity
Low_complexity
Low_complexity
Low_complexity
Simple_repeat
Simple_repeat
Simple_repeat
Simple_repeat
Simple_repeat
Simple_repeat
Simple_repeat
Simple_repeat
Simple_repeat
Simple_repeat
Simple_repeat
Simple_repeat
Simple_repeat
Simple_repeat
Simple_repeat
ERVB5_2-LTR_MM
ERVB7_3-LTR_MM
ERVB4_1B-LTR_MM
ERVB4_1B-LTR_MM
RLTR20B3A_MM
RLTR20C2_MM
RLTR20C2_MM
RLTR20C2_MM
IAPEY4_LTR
RLTR26D_MM
ORR1A4-int
MYSERV16_I-int
MYSERV16_I-int
MYSERV16_I-int
MYSERV16_I-int
MYSERV16_I-int
MYSERV16_I-int
MurERV4-int
MurERV4-int
MurERV4-int
MurERV4-int
MurERV4-int
ETnERV-int
ETnERV-int
ETnERV-int
ERVB4_1B-I_MM-int
MTA_Mm-int