BAC Information

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BAC

Clone NameMSMg01-349F20
Chromosome1 (Build37)
Map Location 141,238,790 - 141,370,266
singlet/doubletdoublet
Overlap geneCrb1, Zbtb41, Aspm
Upstream geneLOC100042600, Nek7, LOC545363, LOC667745, Lhx9, 2310009B15Rik, 1700019P21Rik, LOC100042623, Dennd1b
Downstream geneF13b, Cfhr1, EG624286, EG214403, BC026782, LOC545399, EG545367, Cfh, Kcnt2
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-349F20.T7 (MSMg01no349_f20.b1)MSMg01-349F20.TJ (MSMg01no349_f20.g1)
ACCAG461239AG461240
length769771
length of high quality
(start - end)
610 (33 - 642)541 (70 - 610)
definitionCHROMAT_FILE: MSMg01no349_f20.b1 PHD_FILE: MSMg01no349_f20.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:40:57 2005CHROMAT_FILE: MSMg01no349_f20.g1 PHD_FILE: MSMg01no349_f20.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:40:57 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(141,369,659 - 141,370,266)(141,238,790 - 141,239,326)
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTCATACCACT
GAACCAGTCTGTGCGCAGGCCACGGACTGACTGGTGCGCTGGCATATAGC
ATCGAAAGGCACATAGCAAGGGTGGTAATGGTGGATCAAATAGCATAGTA
CACGGCCATCTGAGAAAGACACTGTAAAATTCTCCACCTGAGCACAAACA
TCAGAGAAGCAATCAGTTAGTTAAAAAGTCAGGTTTGATTATAGTATTAC
TATCCTTTGTTGGACAGCATCTCTCAAAACAGCGTTACCCTTCCCAGAAC
CTGAGAATCTGACTTTAGTTGAAGAACAGAGACAGACAGGTAGACACACA
GAACACTACACGATGACAAAGGCAGAAACTGAACTAAAGCTGCTTCAAGC
CAAAACCAAATAGAACCTAAAAGCGGGGCAGGGGAGAACGGCCTTCAGTG
AGACTATGGACTGGCAACTCCTTGCTTTTAGACCTCTGGCTTCTACAACT
TTGAGAGAGTAAAACTGTATGTCACGTCACCTAGCCCACAGTAATGTGTC
TGGCAGTCTTTGGAAAACTGTAAGAATTACAGTCAATCGCCAATACTCAT
AAATATCAAATTTGGAAAAAAAATGAACCAGTCTCTTAATGGAAAAATCA
GGTGAAGCTCCAAAATTCCCATCAGTCATAAAGGAATTGGCTTATGTGTC
TTCAGGATGCAGTGACATTAATCTCACCGCCCACAGCACCAAGACAGATG
GCAAAATGAGGCTCACTTT
ACXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXTCCATAGCCTGGCTTTCTGCAGAGAATGAAA
TTCTATTCTGGTCTGGGCTGGGTAGGGGTTAGTACAGGAGGGAACCACAT
CTTTATTCAGGACGTAGTCCAAATGGCTTGCACATGGTATGTAGTGAGTA
GAAAACTATTGAATAATGAATGAGTGTAAAAATAGCTGAATTCTCATTTA
AGGCTTGCTATGAAATTCTTACTTTGACCTCTTTTGGTAAAATGAAGCAG
AACAAATCAGCAGAAGAAAACCACTCACTTTGATCCACGGTGTGGCAGAA
TCCACATGGAATACTTGAACTAAGATGTAGATGGGTTCTTTGAAGACAGT
CCCTTCCCCCTGAATTTATGCTGCATCCTAAAATGCTAGGCAGTCACTCT
CATATATGCCGTTATCTCTATACATGTTCATTGTCTCAAATACCAGCCTG
AGACCAATATAATGTAATGGGAAGAGTACAGACATATGGATAGATGGATT
GAAATATTGGTTCAACCAACGTCCATCTCTGTGACTCTAAGGAAACTGGC
CATCATCACAGTGCCCCAGTTTCTTTATTTTTAATAGGGATAACTAATAG
CCAAGTGCACAGCAGGTGGGCCAATGGGTTTTGGATCGTAAACTTTAATG
TCGGCTCTGCTTACTACTGACCTCTATGGGGGTTTTCTTGAAAAAATAAT
ATGCTTCAGCGTCCATTTCTG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no349_f20.b1 MSMg01no349_f20.b1 CHROMAT_FILE:
MSMg01no349_f20.b1 PHD_FILE: MSMg01no349_f20.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:40:57 2005
         (610 letters)



>mm_chr1_141369455_141370466
          Length = 1012

 Score = 1067 bits (552), Expect = 0.0
 Identities = 594/608 (97%), Gaps = 2/608 (0%)
 Strand = Plus / Minus

                                                                       
Query: 5   gaattc-ataccactgaaccagtctgtgcgcaggccacggactgactggtgcgctggcat 63
           |||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 812 gaattcaataccactgaaccagtctgtgcgcaggccacggactgactggtgcgctggcat 753

                                                                       
Query: 64  atagcatcgaaaggcacatagcaagggtggtaatggtggatcaaatagcatagtacacgg 123
           ||||||||||||||||||||||| |||||||||||||||||||||||||||||||  |||
Sbjct: 752 atagcatcgaaaggcacatagcacgggtggtaatggtggatcaaatagcatagtatgcgg 693

                                                                       
Query: 124 ccatctgagaaagacactgtaaaattctccacctgagcacaaacatcagagaagcaatca 183
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 692 ccatctgagaaagacactgtaaaattctccacctgagcacaaacatcagagaagcaatca 633

                                                                       
Query: 184 gttagttaaaaagtcaggtttgattatagtattactatcctttgttggacagcatctctc 243
           |||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||
Sbjct: 632 gttagttaaaaagtcaggtttgattacagtattactatcctttgttggacagcatctctc 573

                                                                       
Query: 244 aaaacagcgttacccttcccagaacctgagaatctgactttagttgaagaacagagacag 303
           ||||||||||||||||||||||||||||||||||||||||||||||||||||| | ||||
Sbjct: 572 aaaacagcgttacccttcccagaacctgagaatctgactttagttgaagaacaaaaacag 513

                                                                       
Query: 304 acaggtagacacacagaacactacacgatgacaaaggcagaaactgaactaaagctgctt 363
           ||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||
Sbjct: 512 acaggtagacacacagaacactacatgatgacaaaggcagaaactgaactaaagctgctt 453

                                                                       
Query: 364 caagccaaaaccaaatagaacctaaaagcggggcaggggagaacggccttcagtgagact 423
           |||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||
Sbjct: 452 caagccaaaaccaaatagaacctaaaagtggggcaggggagaacggccttcagtgagact 393

                                                                       
Query: 424 atggactggcaactccttgcttttagacctctggcttctacaactttgagagagtaaaac 483
           ||||||||||||||||||| |||||||  |||||||||||||||||||||||||||||||
Sbjct: 392 atggactggcaactccttgtttttagaaatctggcttctacaactttgagagagtaaaac 333

                                                                       
Query: 484 tgtatgtcacgtcacctagcccacagtaatgtgtctggcagtctttggaaaactgtaaga 543
           |||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 332 tgtatgtcgcgtcacctagcccacagtaatgtgtctggcagtctttggaaaactgtaaga 273

                                                                       
Query: 544 attacagtcaatcgccaatactcataaatatcaaatttgg-aaaaaaaatgaaccagtct 602
           |||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||
Sbjct: 272 attacagtcaatcgccaatactcataaatatcaaatttggaaaaaaaaatgaaccagtct 213

                   
Query: 603 cttaatgg 610
           ||||||||
Sbjct: 212 cttaatgg 205


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: 25
Number of extensions: 2
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: 610
Length of database: 1012
Length adjustment: 10
Effective length of query: 600
Effective length of database: 1002
Effective search space:   601200
Effective search space used:   601200
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= MSMg01no349_f20.g1 MSMg01no349_f20.g1 CHROMAT_FILE:
MSMg01no349_f20.g1 PHD_FILE: MSMg01no349_f20.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:40:57 2005
         (541 letters)



>mm_chr1_141238586_141239526
          Length = 941

 Score = 1000 bits (517), Expect = 0.0
 Identities = 532/537 (99%)
 Strand = Plus / Plus

                                                                       
Query: 5   tagcctggctttctgcagagaatgaaattctattctggtctgggctgggtaggggttagt 64
           |||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||
Sbjct: 205 tagcctggctttctgcagagaatgaaattctattctgggctgggctgggtaggggttagt 264

                                                                       
Query: 65  acaggagggaaccacatctttattcaggacgtagtccaaatggcttgcacatggtatgta 124
           |||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||
Sbjct: 265 acaggagggaaccacatctttattcaggacgtagtccaaatggcttgcacatggtacgta 324

                                                                       
Query: 125 gtgagtagaaaactattgaataatgaatgagtgtaaaaatagctgaattctcatttaagg 184
           |||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||
Sbjct: 325 gtgagtagaaaactattgaataatgaatgaatgtaaaaatagctgaattctcatttaagg 384

                                                                       
Query: 185 cttgctatgaaattcttactttgacctcttttggtaaaatgaagcagaacaaatcagcag 244
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 385 cttgctatgaaattcttactttgacctcttttggtaaaatgaagcagaacaaatcagcag 444

                                                                       
Query: 245 aagaaaaccactcactttgatccacggtgtggcagaatccacatggaatacttgaactaa 304
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 445 aagaaaaccactcactttgatccacggtgtggcagaatccacatggaatacttgaactaa 504

                                                                       
Query: 305 gatgtagatgggttctttgaagacagtcccttccccctgaatttatgctgcatcctaaaa 364
           |||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||
Sbjct: 505 gatgtagatgggttctttgaagacagtcccttccccctgaatttctgctgcatcctaaaa 564

                                                                       
Query: 365 tgctaggcagtcactctcatatatgccgttatctctatacatgttcattgtctcaaatac 424
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 565 tgctaggcagtcactctcatatatgccgttatctctatacatgttcattgtctcaaatac 624

                                                                       
Query: 425 cagcctgagaccaatataatgtaatgggaagagtacagacatatggatagatggattgaa 484
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 625 cagcctgagaccaatataatgtaatgggaagagtacagacatatggatagatggattgaa 684

                                                                    
Query: 485 atattggttcaaccaacgtccatctctgtgactctaaggaaactggccatcatcaca 541
           |||||||||||||||||||||||||||||||||||||||||||||| ||||||||||
Sbjct: 685 atattggttcaaccaacgtccatctctgtgactctaaggaaactggtcatcatcaca 741


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: 26
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: 541
Length of database: 941
Length adjustment: 10
Effective length of query: 531
Effective length of database: 931
Effective search space:   494361
Effective search space used:   494361
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)