BAC Information

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BAC

Clone NameMSMg01-150G16
Chromosome18 (Build37)
Map Location 37,246,457 - 37,246,728
singlet/doubletsinglet
Overlap genePcdha1, Pcdha@, Pcdha2, Pcdha3, Pcdha4, Pcdha5, Pcdha6, Pcdha7, Pcdha8, Pcdha9, Pcdha10, Pcdha11, Pcdha12
Upstream geneLOC100042150, LOC100041531, Pura, 0610010O12Rik, Pfdn1, Hbegf, Slc4a9, LOC624979, Eif4ebp3, Sra1, Apbb3, Slc35a4, E230025N22Rik, Cd14, Tmco6, Ndufa2, Ik, Wdr55, Dnd1, Hars, Hars2, Zmat2, EG627427
Downstream genePcdhac1, 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 nameMSMg01-150G16.T7 (MSMg01no150_g16.b1)MSMg01-150G16.TJ (MSMg01no150_g16.g1)
ACCAG352864AG352865
length793734
length of high quality
(start - end)		275 (49 - 323)493 (76 - 568)
definitionCHROMAT_FILE: MSMg01no150_g16.b1 PHD_FILE: MSMg01no150_g16.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 19:13:58 2005CHROMAT_FILE: MSMg01no150_g16.g1 PHD_FILE: MSMg01no150_g16.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 19:13:58 2005
singlet/doubletsinglet---
BLAST hituniqueno hit data
sequence
NCCTCTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCG
CGGAATTCCATTTATATCCTTTTCAAACATCATGGACCAACCAAATATCA
CATGCTGTCTCATGTGTCTGCTTCAGCAAAACATCCTCACAGGACAGCTC
CCTGAAAAACATCACACGACACAACTGAGTTTCCAAGGAAACCAGAAATT
TCCACTTCAGTCTAGAGTTTCAAGGATAAAATTAAAAAGTCACAAAGGCC
ATGAAAAGTGAGCTGACAGATTTCCTGAAATAGGAAAATAAATACAGAAA
TTAAGGCCACATCAAAAGTAGTATAATAGTGAACAGCCAACCCCTGCTGT
CATACAGTCAGGGAAGAGTGTGAAAAGCACATGGGCTCCTCCCTTTTCCC
ATAAGGGTGTTCCCCCCCCCGGTCGACCGCTCCCTTATTTACACCGCCTT
TTCCCCAGAAGGAAAAAACCAAAACCAAAACGCCAAATTGGAAAAACCCC
CGCTCCGAAAACCATCGGAAAAATAATAGGCGCCACTGAAAAAAAAAACT
TCCCGGCCAAAATCACAAAAAAGGCTTTTCCCATTGAAAGATTTTGACCC
CNCCCCCTCTTAGCAACAAGAAAATCCCCATATAATTTCCTCCCGCCCCC
TGTTAAAAAAATCGGGTCTAAAAAAAACTCGCGCGAAACCCATCTTCCCT
GAATCTCCCCTTCTTTCAACGACCAGCGCGTCTCCCCCACCACTCCCACC
ATATACTCCCCCCCCTCCCACCTCCCCTTCGACCCCCATTATG

CGAATTAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXAGTCTGGTGGTTCCTCAGAAAATTG
GACATAGTACTACCGGAGGATCCAGCAATACCTCTCCTGGGCATATATCC
AGAAGATGTCCCAACTGATAAGAAGGACACATGCTCCACTATGTTCATAG
CAGCCTTATTTATAATAGCCAGAAACTGGAAAGAACCCAGATGCCCCTCA
ACAGAGGAATGGATACAGAAAATGTGGTACATTTACACAATGGAGTACTA
ATCAGCTATTTAAAAAATGAATTTATGAAATTCCTAGGCAAATGGATGGA
CCTGGAGGGCATCATCCTGAGTGAGGTAACCCAATCACAAAGGAACTCGC
ACAATATGTACTCACCCCACACGTGGATATTAGCCCAGAAACTTAGGATA
CCCAAGATATAAGATACAATTTGCTAAACACATGAAATTCAAGAAGAACA
AAGACCAAAGTGTGGACACTTTGCCCCTTCTTAGAATTGGGAACAAAACA
CCCATGGAAGGAGTTACAGAGACCAAATTCGGAGCTGTGACGAACGGATG
CACCATCTGGCGATTGACATATGCAGGGATCTATCCCATAATCAGCTTCC
AAACGCTGACCCCATTGCATACACTAGCAAGAATCTGCTGAAAGGACCCA
GATATAGCTGCCTCTTGTGAGACACCGCCAGCGC
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no150_g16.b1 MSMg01no150_g16.b1 CHROMAT_FILE:
MSMg01no150_g16.b1 PHD_FILE: MSMg01no150_g16.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 19:13:58 2005
         (275 letters)



>mm_chr18_37246254_37246928
          Length = 675

 Score =  495 bits (256), Expect = e-144
 Identities = 268/272 (98%)
 Strand = Plus / Plus

                                                                       
Query: 4   ggaattccatttatatccttttcaaacatcatggaccaaccaaatatcacatgctgtctc 63
           |||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||
Sbjct: 204 ggaattccatttatatccttttcaaacatcatggaccaacgaaatatcacatgctgtctc 263

                                                                       
Query: 64  atgtgtctgcttcagcaaaacatcctcacaggacagctccctgaaaaacatcacacgaca 123
           ||||||||||||||||||||||||||||||||||||||||| ||||||||||||| ||||
Sbjct: 264 atgtgtctgcttcagcaaaacatcctcacaggacagctcccagaaaaacatcacaggaca 323

                                                                       
Query: 124 caactgagtttccaaggaaaccagaaatttccacttcagtctagagtttcaaggataaaa 183
           |||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||
Sbjct: 324 caactgagtttccaaggaaaccagaaattttcacttcagtctagagtttcaaggataaaa 383

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

                                           
Query: 244 atacagaaattaaggccacatcaaaagtagta 275
           ||||||||||||||||||||||||||||||||
Sbjct: 444 atacagaaattaaggccacatcaaaagtagta 475


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: 14
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: 275
Length of database: 675
Length adjustment: 9
Effective length of query: 266
Effective length of database: 666
Effective search space:   177156
Effective search space used:   177156
X1: 7 (13.9 bits)
X2: 517 (999.5 bits)
X3: 517 (999.5 bits)
S1: 7 (14.4 bits)
S2: 7 (14.3 bits)


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