BAC Information

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BAC

Clone NameMSMg01-378A10
Chromosome4 (Build37)
Map Location 105,056,625 - 105,277,700
singlet/doubletdoublet
Overlap geneLOC665518, LOC434381
Upstream geneDab1, C8b, C8a, 1700024P16Rik, Prkaa2, LOC100039513, Ppap2b, LOC433742
Downstream genePpia-ps4_954.1, Map1lc3, LOC384039, Usp24, LOC100039616, Pcsk9, Bsnd, Tmem61, Dhcr24, BC055111
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-378A10.T7 (MSMg01no378_a10.b1)MSMg01-378A10.TJ (MSMg01no378_a10.g1)
ACCAG482970AG482971
length782781
length of high quality
(start - end)		561 (49 - 609)476 (78 - 553)
definitionCHROMAT_FILE: MSMg01no378_a10.b1 PHD_FILE: MSMg01no378_a10.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:18:25 2005CHROMAT_FILE: MSMg01no378_a10.g1 PHD_FILE: MSMg01no378_a10.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:18:25 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(105,277,143 - 105,277,700)(105,056,625 - 105,057,100)
sequence
NNCCCTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTTTCAGAGGATC
CGCGGAATTCTTTGTTCTTCTCTGAGCCCCATCTTTTAAGGGGGTTATTT
GATTTTCTGGAGTCTGTTTTTTTTTTAAAAATTCAATATAAGAGGAAAAT
TCAATCAACTAGAGCCACACAGCAACCATCACTGATGGAAGTAGATTTGC
TCTCCCATCCCTGCTAGGCAGAAGGCTGAGCTCCTATAGGATGCTCTATA
AGAACACCCTGTTCTATGAGAGGGAGATTTGATTGTGCACTTAAATCCCT
CCTCCTATCACAGCCCCACAGTTCCAGGTTTTCTACAGCAAACACTTCAG
AGCAGCAGGTGGCAGCCTCAAGTGGTTAACTTTAAAAGCAGCCCAACCTG
GGCTGGAGAGATGGTTCAGCACTTAAGAGCACTGACTGCTCTTCCAAAGG
TCCTGAGTTCAATTCCCAGCAACAACGTGGTGGATCATAACCATGAGAAT
GGATGCCCACTTCTGGTATGTCTGAAGACAGCTACAGTGTACTCATATAC
ATAAAATAAATCTTTTTTTTTTAAAGGAGCAGCTCAGCCATTGAGCTTGC
AATTCCCAGGCCTGTTGATGATAACTAAACAAGAGCCTGGGCCCTTCAGC
CTGATGCCTGCTCCCTTTTTCTGAACCTCATGGNTAAATAATGCCAGTGT
CAGACCTGCCTCATGGATGAATTGAGGGAAACCCCAACCGGTCTTGGTTT
TCCCCCCCCTTTCAAGGGTTTAATAAAAAGGN

NCGATGACXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXATTTATTTAATGAAGAATTTTCC
TGGAGCAGAGAGCTTGCCATCAGAGCTGAGCTATTTTGAGTAGGATGTGA
AGGAAAAACTCGGGAGAATTATTTGCTCTTTGGATTTATGCATTTAAAAT
AGGCTGCAATAAAAAGTAAAAGTGTAAGGGTAGAAATAAGATCCATGCTT
GCCAAGGATGGGGGTAGGGCTAGGAGATGGCCTGGAGAGGGGCATGATGG
GACTTTTGGTTATCATGGAGACGCTTTATCTCTAGTGTGGTATTTATTTA
CATGGCTGTATATGTTTGTCAAAACCTATATAACTATTTAGCCCCAAATA
AATGACTCTGACTGTTTGTAAATTACACTTCAACAACGATGAAATATACA
AATAGCACATCACAATATGCCTTTGGAGGGGGAAAGGGAGGAACAGGGGG
TGGATATTGTCGAATGCCTACTTTGGGTGAGGGTCACAGTGGCTCCTCTT
CTTGCCTGGCCTTTGTTAAACCTGCCAAGGACACTACGCCAGAAGTCACA
GGTTATTTTCTAATGTTCCCAGGGAAAAACCACTGCAGCTCTGAAAATCT
TAAATCCTTTCCCCAGTTCTCACAACGGGCCCCTCCCAACTTTCTAGGAG
GATTTAGAATTTTTCAATGGCCTTTTTTCCTTCCTCGGTGTTCTGTGACC
AGCGTTTCACGCCTCCCTGGCGACCTGTTTT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no378_a10.b1 MSMg01no378_a10.b1 CHROMAT_FILE:
MSMg01no378_a10.b1 PHD_FILE: MSMg01no378_a10.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 23:18:25 2005
         (561 letters)



>mm_chr4_105277084_105278044
          Length = 961

 Score =  940 bits (486), Expect = 0.0
 Identities = 540/562 (96%), Gaps = 11/562 (1%)
 Strand = Plus / Minus

                                                                       
Query: 7   gaattctttgttcttctctgagccccatcttttaagggggttatttgattttctggagtc 66
           |||||||||||||  |||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 617 gaattctttgttcagctctgagccccatcttttaagggggttatttgattttctggagtc 558

                                                                       
Query: 67  t-gttttttttttaaaaattcaatataagaggaaaattcaatcaactagagccacacagc 125
           | |||||||||||  |||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 557 tggtttttttttt--aaattcaatataagaggaaaattcaatcaactagagccacacagc 500

                                                                       
Query: 126 aaccatca--ctgatggaagtagatttgctctcccatccctgctaggcagaaggctgagc 183
           |||||  |  ||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 499 aacca--aagctgatggaagtagatttgctctcccatccctgctaggcagaaggctgagc 442

                                                                       
Query: 184 tcctataggatgctctataagaacaccctgttctatgagagggagatttgattgtgcact 243
           |||||||||||||||||||||||||||| |||||| ||||||||||||||||||||||||
Sbjct: 441 tcctataggatgctctataagaacaccccgttctaagagagggagatttgattgtgcact 382

                                                                       
Query: 244 taaatccctcctcctatcacagccccacagttccaggttttctacagcaaacacttcaga 303
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 381 taaatccctcctcctatcacagccccacagttccaggttttctacagcaaacacttcaga 322

                                                                       
Query: 304 gcagcaggtggcagcctcaagtggttaactttaaaagcagcccaacctgggctggagaga 363
           |||||| |||||||||||||||||||||||||||||||||| || |||||||||||||||
Sbjct: 321 gcagcaagtggcagcctcaagtggttaactttaaaagcagctcagcctgggctggagaga 262

                                                                       
Query: 364 tggttcagcacttaagagcactgactgctcttccaaaggtcctgagttcaattcccagca 423
           ||| |||||| |||||||||||||||| ||||||||||||||||||||||||||||||||
Sbjct: 261 tggctcagcagttaagagcactgactggtcttccaaaggtcctgagttcaattcccagca 202

                                                                       
Query: 424 acaacgtggtggatcataaccatgagaatggatgcccacttctggtatgtctgaagacag 483
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 201 acaacgtggtggatcataaccatgagaatggatgcccacttctggtatgtctgaagacag 142

                                                                       
Query: 484 ctacagtgtactcatatacataaaataaatc----ttttttttttaaaggagcagctcag 539
           |||||||||||||||||||||||||||||||    |||||||||||||||||||||||||
Sbjct: 141 ctacagtgtactcatatacataaaataaatcttttttttttttttaaaggagcagctcag 82

                                 
Query: 540 ccattgagcttgcaattcccag 561
           ||||||||||||| ||||||||
Sbjct: 81  ccattgagcttgccattcccag 60


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: 31
Number of extensions: 4
Number of successful extensions: 4
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 561
Length of database: 961
Length adjustment: 10
Effective length of query: 551
Effective length of database: 951
Effective search space:   524001
Effective search space used:   524001
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)

Query= MSMg01no378_a10.g1 MSMg01no378_a10.g1 CHROMAT_FILE:
MSMg01no378_a10.g1 PHD_FILE: MSMg01no378_a10.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 23:18:25 2005
         (476 letters)



>mm_chr4_105056425_105057300
          Length = 876

 Score =  874 bits (452), Expect = 0.0
 Identities = 470/476 (98%)
 Strand = Plus / Plus

                                                                       
Query: 1   atttatttaatgaagaattttcctggagcagagagcttgccatcagagctgagctatttt 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 201 atttatttaatgaagaattttcctggagcagagagcttgccatcagagctgagctatttt 260

                                                                       
Query: 61  gagtaggatgtgaaggaaaaactcgggagaattatttgctctttggatttatgcatttaa 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 261 gagtaggatgtgaaggaaaaactcgggagaattatttgctctttggatttatgcatttaa 320

                                                                       
Query: 121 aataggctgcaataaaaagtaaaagtgtaagggtagaaataagatccatgcttgccaagg 180
           |||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||
Sbjct: 321 aataggctgcaataaaaagtaaaagtgtaagggtagaaataagaaccatgcttgccaagg 380

                                                                       
Query: 181 atgggggtagggctaggagatggcctggagaggggcatgatgggacttttggttatcatg 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 381 atgggggtagggctaggagatggcctggagaggggcatgatgggacttttggttatcatg 440

                                                                       
Query: 241 gagacgctttatctctagtgtggtatttatttacatggctgtatatgtttgtcaaaacct 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 441 gagacgctttatctctagtgtggtatttatttacatggctgtatatgtttgtcaaaacct 500

                                                                       
Query: 301 atataactatttagccccaaataaatgactctgactgtttgtaaattacacttcaacaac 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 501 atataactatttagccccaaataaatgactctgactgtttgtaaattacacttcaacaac 560

                                                                       
Query: 361 gatgaaatatacaaatagcacatcacaatatgcctttggagggggaaagggaggaacagg 420
           |||||||||||||||||||| |||||||||||||||||||||||||||||| |||| |||
Sbjct: 561 gatgaaatatacaaatagcatatcacaatatgcctttggagggggaaaggggggaaaagg 620

                                                                   
Query: 421 gggtggatattgtcgaatgcctactttgggtgagggtcacagtggctcctcttctt 476
           ||||||||||||||||||||||||| |||||||||||||||||||||||| |||||
Sbjct: 621 gggtggatattgtcgaatgcctactatgggtgagggtcacagtggctccttttctt 676


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: 21
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: 476
Length of database: 876
Length adjustment: 10
Effective length of query: 466
Effective length of database: 866
Effective search space:   403556
Effective search space used:   403556
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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