BAC Information

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BAC

Clone NameMSMg01-196L02
Chromosome18 (Build37)
Map Location 37,156,744 - 37,157,345
singlet/doubletsinglet
Overlap genePcdha1, Pcdha@, Pcdha2, Pcdha3, Pcdha4, Pcdha5, Pcdha6, Pcdha7, Pcdha8
Upstream genePsd2, LOC100042150, LOC100041531, Pura, 0610010O12Rik, Pfdn1, Hbegf, Slc4a9, LOC624979, Eif4ebp3, Sra1, Apbb3, Slc35a4, E230025N22Rik, Cd14, Tmco6, Ndufa2, Ik, Wdr55, Dnd1, Hars, Hars2, Zmat2, EG627427
Downstream genePcdha9, Pcdha10, Pcdha11, Pcdha12, Pcdhac1, Pcdhac2, Pcdhb1, 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
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-196L02.T7 (MSMg01no196_l02.b1)MSMg01-196L02.TJ (MSMg01no196_l02.g1)
ACCAG384709AG384710
length743717
length of high quality
(start - end)		605 (59 - 663)635 (77 - 711)
definitionCHROMAT_FILE: MSMg01no196_l02.b1 PHD_FILE: MSMg01no196_l02.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:16:19 2005CHROMAT_FILE: MSMg01no196_l02.g1 PHD_FILE: MSMg01no196_l02.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:16:20 2005
singlet/doubletsinglet---
BLAST hituniqueno hit data
sequence
NNCCCCATATTATCTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXCGCGGAATTCAGAGACTACACAACTTTTGAAAAAATAGAAAC
AATGGTTTCTTGTAGCAAACCCTGAAAGCAGTAGTCATGAAATGTAATAG
TAGAAAATGAGATTCTCTAGTCAATGTGTAATGTAATAAAATGAAACTTC
TTTCATTGTAACTGATGTCCATTTTCTCAAATGCAAGAACCATCCCTTTC
AGTCCATATACCACACATAGGTTAGCCACTGGAGTGTGATGATTTTCCAA
AAGAAATATTTTTCCTGAGGAGCCAGACTTGGTCAGAGTGTTGTTTAAAA
AAAATGTGTCCAACTGAATTGGTGTCTTGAAACTGCTGCCTAAATGAAAT
TTACTTAACCTTAAAACAATGCCAAAAATAATTGAATTGAGTATTATAAT
TTGAAAGGGCCCACTCCTGCTATGCAGTAAAAAACAAAAACAAAAACAAA
AAAACCAGCCTTGACTCTTAAGGGTATGTCAAAATTTACCTAATAATTAT
CATGTGATCAAGAAAGAAATCACCTCTTGTGGTTTTTACATTTGAAGAAA
AAGTTGCATATTAAATATTCACACATGCTAAAGAAATGTAATATAAGACA
TTGGGATAATAATCCACAGAAGCAAAACCAAAGATGTGAATTAAAGAAAA
AGTGCATTCATGCAATTATACCTACACATTTAGCCACTGGATG

CGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXACCCAAGAGGAGTAGATGGCAGGA
AATAATCAAACTCACAGGCGAAATACACAAAGTGGAAACAAGAAGAACTA
CTCAAAGAATTAAACAAATGAGGAGTTGGTTCTTTGAGAAAATCAACAGG
ATAGATAAACCCTTAGCTAGACTCACTAGAGGGCACAGGGACAGCATCCT
AATTAACAAAATCAGAAATGAAAAGGGAGACATAACAACAGATCCTGAAG
AAATTCAAAACACCATCAGATCCTTCACAAAAGGCTATACTCAAAAAAAC
TGGAAAACCTCGATGAAATGGACAAATTTCTAGACAGGTACCAAAGTTAA
ATCAGGATCAAGTTAATGATCTAAACAGTCCCATATCCCCTAAAGAAATA
GAAGGATTCATTAATAGTCTCCCAGCCAAAAAAAAGCCCAGGACCAAATG
GGTTTAGTGCAGAGTTCTATCAGACCTTCAAAGAATATCTAATCCCAGGT
CTGCACAAACTATTCCACAAAATAGAAGTAGAAGGTACTCTACCCAACTC
ATTCTATGAAGCCACAGTTACTCGGATACCTAAAGCACAGAAAGATCCAA
CAATGATAGAGAACTTCAGACCAATTTCCCTTATGAATATCAATGCAAAA
ATACTCAATAAAATTCT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no196_l02.b1 MSMg01no196_l02.b1 CHROMAT_FILE:
MSMg01no196_l02.b1 PHD_FILE: MSMg01no196_l02.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 20:16:19 2005
         (605 letters)



>mm_chr18_37156541_37157545
          Length = 1005

 Score = 1141 bits (590), Expect = 0.0
 Identities = 599/602 (99%)
 Strand = Plus / Plus

                                                                       
Query: 4   ggaattcagagactacacaacttttgaaaaaatagaaacaatggtttcttgtagcaaacc 63
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 204 ggaattcagagactacacaacttttgaaaaaatagaaacaatggtttcttgtagcaaacc 263

                                                                       
Query: 64  ctgaaagcagtagtcatgaaatgtaatagtagaaaatgagattctctagtcaatgtgtaa 123
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 264 ctgaaagcagtagtcatgaaatgtaatagtagaaaatgagattctctagtcaatgtgtaa 323

                                                                       
Query: 124 tgtaataaaatgaaacttctttcattgtaactgatgtccattttctcaaatgcaagaacc 183
           |||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||
Sbjct: 324 tgtaataaaatgaaacttctttcattgttactgatgtccattttctcaaatgcaagaacc 383

                                                                       
Query: 184 atccctttcagtccatataccacacataggttagccactggagtgtgatgattttccaaa 243
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 384 atccctttcagtccatataccacacataggttagccactggagtgtgatgattttccaaa 443

                                                                       
Query: 244 agaaatatttttcctgaggagccagacttggtcagagtgttgtttaaaaaaaatgtgtcc 303
           |||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||
Sbjct: 444 agaaatatttttcctgaggagccagacttggtcagagtgttgttaaaaaaaaatgtgtcc 503

                                                                       
Query: 304 aactgaattggtgtcttgaaactgctgcctaaatgaaatttacttaaccttaaaacaatg 363
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 504 aactgaattggtgtcttgaaactgctgcctaaatgaaatttacttaaccttaaaacaatg 563

                                                                       
Query: 364 ccaaaaataattgaattgagtattataatttgaaagggcccactcctgctatgcagtaaa 423
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 564 ccaaaaataattgaattgagtattataatttgaaagggcccactcctgctatgcagtaaa 623

                                                                       
Query: 424 aaacaaaaacaaaaacaaaaaaaccagccttgactcttaagggtatgtcaaaatttacct 483
           ||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||
Sbjct: 624 aaacaaaaacaaaaacaaaaaaaccagccttgactcttaagggcatgtcaaaatttacct 683

                                                                       
Query: 484 aataattatcatgtgatcaagaaagaaatcacctcttgtggtttttacatttgaagaaaa 543
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 684 aataattatcatgtgatcaagaaagaaatcacctcttgtggtttttacatttgaagaaaa 743

                                                                       
Query: 544 agttgcatattaaatattcacacatgctaaagaaatgtaatataagacattgggataata 603
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 744 agttgcatattaaatattcacacatgctaaagaaatgtaatataagacattgggataata 803

             
Query: 604 at 605
           ||
Sbjct: 804 at 805


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: 34
Number of extensions: 1
Number of successful extensions: 1
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 605
Length of database: 1005
Length adjustment: 10
Effective length of query: 595
Effective length of database: 995
Effective search space:   592025
Effective search space used:   592025
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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