BAC Information

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BAC

Clone NameMSMg01-422H11
Chromosome18 (Build37)
Map Location 38,391,858 - 38,392,266
singlet/doubletsinglet
Overlap genenone
Upstream genePcdhb1, Pcdhb2, Pcdhb3, Pcdhb4, Pcdhb5, Pcdhb6, Pcdhb7, Pcdhb8, Pcdhb9, Pcdhb10, Pcdhb11, Pcdhb12, Pcdhb13, Pcdhb14, Pcdhb15, Pcdhb16, Pcdhb17, Pcdhb18, Pcdhb19, Pcdhb20, Pcdhb21, Pcdhb22, Slc25a2, Taf7, EG666693, Pcdhg@, Pcdhga1, Pcdhga2, Pcdhga3, Pcdhgb1, Pcdhga4, Pcdhgb2, Pcdhga5, Pcdhga6, Pcdhga7, Pcdhgb4, Pcdhga8, Pcdhgb5, Pcdhga9, Pcdhgb6, Pcdhga10, Pcdhgb7, Pcdhga11, Pcdhgb8, Pcdhga12, Pcdhgc3, Pcdhgc4, Pcdhgc5, Diap1, Hdac3, 4631403P03Rik, Fchsd1, Centd3, Pcdh1
Downstream geneLOC100042583, 1700086O06Rik, 0610009O20Rik, Pcdh12, Rnf14, Gnpda1, LOC240219, LOC100041839, Ndfip1, Spry4, 9630014M24Rik, LOC100041865, LOC100041875, LOC100042671, LOC666809, LOC100041894, Fgf1, EG545253, Arhgap26
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-422H11.T7 (MSMg01no422_h11.b1)MSMg01-422H11.TJ (MSMg01no422_h11.g1)
ACCAG516848AG516849
length804721
length of high quality
(start - end)		134 (63 - 196)530 (69 - 598)
definitionCHROMAT_FILE: MSMg01no422_h11.b1 PHD_FILE: MSMg01no422_h11.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:42:55 2005CHROMAT_FILE: MSMg01no422_h11.g1 PHD_FILE: MSMg01no422_h11.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:42:55 2005
singlet/doublet---singlet
BLAST hitno hit dataunique
sequence
TTGCGGCCGCTAAACGACTACTATTTTCAGAAGATCCGCGGAATTCCCAG
CAATCCCTACTGGCTCACAACCATCTGTAATGAGTTCTGATGCCCTCTTC
TGGCACGCAGGTGTACAAGCAGATAGAGTACTCATACACAAAATAACTAT
TTTTTGTTTGTTGGTTTGGTTTGGTTTGGTTTGGTTTGGTTTGNNNNNNN
NNNNNNNNNNNNNNNNNNNNANNNNNNNNNNNNNNNNNTTTTTTTTCTTT
TTTTTTTTTTTTTTTTTTTTTTTTTTTTTCTTTTCTTTTCCTTTTTTTNC
CTTTTTCTTCTTTTCCCCCCCCTCCTCCCCTCCCCCTCAACCCTTTTTTT
TTTCTCCCCTCTCCTCCTTTTCTCTCCCTCTTCCTCTTTTTCTCTTTTCC
TCCTTCCCCCTATAATCACAACATAATACATATTCTCATTCTCTTCTTTA
CTATCCACTTCAATCATATCCATCAACATTATCCCCTTAATACAATTACT
AACTTCCCCTCCCCCCTATCTCCCTATTTTTTCATAAAACCTCACACCAT
TTCACATTTTAATATCACACCACCACATCCCCTTTATCATCAATTTCATA
TACCCATTCATTTCTTCTTTTTTCCTTCCTAAATCACACTTTTATCCTCT
AATAATATTAATTATTTTCACAATTACATTACCAAACTATTCCTCCCCAA
ATCTCTTCTTTCTTTCCCTCTATCTCACCTATTATCCCACTTACCTAATA
TTACATCTATCATAAAACCCTTCAATTTATATATTATAACTTATCCTTAA
TCCA

GXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXTTTTAGCCATTCCTCCACTGATGAACTTTTGG
GTGGATTCTACCCTTTGGCTATAGAGAACACATCACTGCTCTAAACATTC
TTACCTGTGAGTCTCCTTGGATAGATGATTTGCACCTAACTTCTATAACA
CAAATTGTTGGATTAGATATTTTCAATTCTCTTGGGTCCACATCCAGTAA
TGTAATTGCTGGGTAATGTGGTAATTCTCTATTTAACTATTGGGACTTTT
TGTTTGTTTGTAGACTGAGTCTCCTGTAACCCAGGCTGACCTTCTGAACT
TCTGTCCTGCCTCCACTTCCCAAAAGTCAGGATTACCACAGCCAGCTCTA
GATCAACTTTTTGAAGAACCACCAAACCACAGAGGCAGTTCCACTTTGGT
TTCCAAAGGAACGCACAAATAATCATTGTCTACACGTTCTTTTCCACACT
GTTCTCATCATCATGAATGTGAGGCAGCATCTCCTGTGTCTTTGATCTGC
ATCTCAATAATGATCAGTGATGATGAGTGTCTTCTCATGTCCCTATTGNC
CATTTGTACGTTTTTTTTTTTTTTTGGAGATACTGTACTGNTTTGAAAAG
AATGGTCCCCAAAGGTTCATATAATTGAAAATTTGGCTCCCAATTGGTGG
ACTGTTTAGGCAGCTTTAATG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no422_h11.g1 MSMg01no422_h11.g1 CHROMAT_FILE:
MSMg01no422_h11.g1 PHD_FILE: MSMg01no422_h11.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:42:55 2005
         (530 letters)



>mm_chr18_38391340_38392266
          Length = 927

 Score =  743 bits (384), Expect = 0.0
 Identities = 404/412 (98%), Gaps = 3/412 (0%)
 Strand = Plus / Minus

                                                                       
Query: 119 taacttctataacacaaattgttggattagatattttcaattctcttgggtccacatcca 178
           |||||||||||||| ||||||||| |||||||||||||||||||||||||||||||||||
Sbjct: 927 taacttctataacataaattgttgcattagatattttcaattctcttgggtccacatcca 868

                                                                       
Query: 179 gtaatgtaattgctgggtaatgtggtaattctctatttaactattgggactttttgtttg 238
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 867 gtaatgtaattgctgggtaatgtggtaattctctatttaactattgggactttttgtttg 808

                                                                       
Query: 239 tttgtagactgagtctcctgtaacccaggctgaccttctgaacttctgtcctgcctccac 298
           ||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 807 tttgtagacagagtctcctgtaacccaggctgaccttctgaacttctgtcctgcctccac 748

                                                                       
Query: 299 ttcccaaaagtcaggattaccacagccagctctagatcaactttttgaagaaccaccaaa 358
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 747 ttcccaaaagtcaggattaccacagccagctctagatcaactttttgaagaaccaccaaa 688

                                                                       
Query: 359 ccacagaggcagttccactttggtttccaaaggaacgcacaaataatcattgtctacacg 418
           |||||||||||||||||||||||||||||||||||||||||||||| ||| |||||||||
Sbjct: 687 ccacagaggcagttccactttggtttccaaaggaacgcacaaataaccatcgtctacacg 628

                                                                       
Query: 419 ttcttttccacactgttctcatcatcatgaatgtgaggcagcatctcctgtgtctttgat 478
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||   |
Sbjct: 627 ttcttttccacactgttctcatcatcatgaatgtgaggcagcatctcctgtgtctt---t 571

                                                               
Query: 479 ctgcatctcaataatgatcagtgatgatgagtgtcttctcatgtccctattg 530
           ||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 570 ctgcatctcaataatgatcagtgatgatgagtgtcttctcatgtccctattg 519


Lambda     K      H
    1.37    0.711     1.31 

Gapped
Lambda     K      H
    1.34    0.600     1.10 


Matrix: blastn matrix:1 -3
Gap Penalties: Existence: 2, Extension: 1
Number of Sequences: 1
Number of Hits to DB: 18
Number of extensions: 2
Number of successful extensions: 2
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 530
Length of database: 927
Length adjustment: 10
Effective length of query: 520
Effective length of database: 917
Effective search space:   476840
Effective search space used:   476840
X1: 8 (15.9 bits)
X2: 517 (999.5 bits)
X3: 517 (999.5 bits)
S1: 8 (16.4 bits)
S2: 8 (16.2 bits)


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