BAC Information

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BAC

Clone NameMSMg01-398C20
Chromosome4 (Build37)
Map Location 105,186,981 - 105,379,792
singlet/doubletdoublet
Overlap geneLOC434381
Upstream geneDab1, C8b, C8a, 1700024P16Rik, Prkaa2, LOC100039513, Ppap2b, LOC433742, LOC665518
Downstream genePpia-ps4_954.1, Map1lc3, LOC384039, Usp24, LOC100039616, Pcsk9, Bsnd, Tmem61, Dhcr24, BC055111, Ttc22, Pars2, Ttc4, Gm1027
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-398C20.T7 (MSMg01no398_c20.b1)MSMg01-398C20.TJ (MSMg01no398_c20.g1)
ACCAG498342AG498343
length730733
length of high quality
(start - end)		541 (52 - 592)470 (84 - 553)
definitionCHROMAT_FILE: MSMg01no398_c20.b1 PHD_FILE: MSMg01no398_c20.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:10:50 2005CHROMAT_FILE: MSMg01no398_c20.g1 PHD_FILE: MSMg01no398_c20.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:10:50 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(105,186,981 - 105,187,523)(105,379,324 - 105,379,792)
sequence
NNNAATTCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XCGCGGAATTCCTACACTGGCCAGACTCTATCACCTTTCAACTCAGGTTC
CCCATCTGCCAACTTCCCTCTCATTAAAATTATTTTGTCACATATCTATT
TAACTTACTCCATTCCTGCTCATAACCCATAGCATCAAGTTCAAATAGCC
CAGTCTCAAGTTCAAGGTCCTTCAGGTTTCTAGTTCAATTTCTCTCTACC
TCTTACATCATACCTCAGGACCTTGCTGTGTTCCAGCAAATCCTGTTGCT
TTCACACCCTCTGCAGCTTTCCAATCCTTCTATTTGCATCTACAACAGTA
TTTTCCTCCTTATCTCCCATGGAAAATCCTGTCTCCCCTTCTAGGATCAC
CACACACGGCATCAATTCCAGGAACTTCTCTAGGATCTCTGGAATGCAAT
GGTCTCTCATGAAGTCCTGGGCTACATCCTTTTTTTTTTTTTTTAAACTA
TCCCTTCTACCCCTGATATCACTGTGGATGCCAACGCAGGGTATTAAGTG
TTCATTACCAATGCTGCTCACAGTGGCTTGATGTATTCTGAGCACAGAGA
AAACACAGGACAAGAATTTTCTTTCAGAGATTTATAAACCCTTGTTTCTT
TTATGAGAAGAGATTTCTCTATGCAGATCTAGTTAGTTGACAATGTTTAT
AAATGCCAGGCCCAAATGAAAAGATGACCC

AAATTTTCGATGACXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXATTGACACTCATTTTGA
TTTTTAAAGAATTATTTTAATTACCATTTTTAAGTTCCAAGTTAAGCAAT
TCTATAGAAAAGACCTCAATGTCAACTCAAAAGCATCAGCTAATTAAAGT
TTGGCATTCCATGGTTAAGAATATATATCCTTTGCATGTATGCTCTAGAT
ATTGAACGAATCATAGAATCCCCTGCTGTCTTAGAGGGAGCCTGGGTGGC
TTTGTGACATATTTACTGTACCACCACGGAGATACCTCTCATGTGCTATA
TAGTTAGAGTAAACCCACTCTCGTACAGCTTCCATTTTGGTGGTTTAAAC
ATTCTTTTATTTTACCTACCTCCCACTTTCTTCCTTTACTTTGCAGTTCT
CTGTACTGTGATTTTTTAAGCTACTTTATTGGGTTCTTATACCCACCACC
TTTCTTCACCATGATCCCTTCTAACCCTCCAATACTGGGCAGGTGGAAAA
GAAGGTTAGAGGGACAGGGAGGTAGACCTATAACTGTCGGAAACACAGAA
ACACAGATACTTACCGTATGATTCTTAAAAGTAGCACACTTTACCTTCTA
GAGGGGCAACAAACGGGAATTTGTTGTGGGGGCCACTACCAAGTGAGGAA
CTGGATTAAAAGGTGTGGTCTCTTTCAAGACAA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no398_c20.b1 MSMg01no398_c20.b1 CHROMAT_FILE:
MSMg01no398_c20.b1 PHD_FILE: MSMg01no398_c20.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:10:50 2005
         (541 letters)



>mm_chr4_105186778_105187723
          Length = 946

 Score = 1011 bits (523), Expect = 0.0
 Identities = 536/543 (98%), Gaps = 5/543 (0%)
 Strand = Plus / Plus

                                                                       
Query: 4   ggaattcctacactggccagactctatcacctttcaactcaggttccccatctgccaact 63
           ||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 204 ggaattcctacacaggccagactctatcacctttcaactcaggttccccatctgccaact 263

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

                                                                       
Query: 124 acccatagcatcaagttcaaatagcccagtctcaagttcaaggtccttcaggtttctagt 183
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 324 acccatagcatcaagttcaaatagcccagtctcaagttcaaggtccttcaggtttctagt 383

                                                                       
Query: 184 tcaatttctctctacctcttacatcatacctcaggaccttgctgtgttccagcaaatcct 243
           |||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||
Sbjct: 384 tcaatttctctctacctcttacgtcatacctcaggaccttgctgtgttccagcaaatcct 443

                                                                       
Query: 244 gttgctttcacaccctctgcagctttccaatccttctatttgcatctacaacagtatttt 303
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 444 gttgctttcacaccctctgcagctttccaatccttctatttgcatctacaacagtatttt 503

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

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

                                                                       
Query: 424 catccttttttttttttttt-----aaactatcccttctacccctgatatcactgtggat 478
           ||||||||||||||||||||     |||||||||||||||||||||||||||||||||||
Sbjct: 624 catccttttttttttttttttttttaaactatcccttctacccctgatatcactgtggat 683

                                                                       
Query: 479 gccaacgcagggtattaagtgttcattaccaatgctgctcacagtggcttgatgtattct 538
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 684 gccaacgcagggtattaagtgttcattaccaatgctgctcacagtggcttgatgtattct 743

              
Query: 539 gag 541
           |||
Sbjct: 744 gag 746


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: 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: 541
Length of database: 946
Length adjustment: 10
Effective length of query: 531
Effective length of database: 936
Effective search space:   497016
Effective search space used:   497016
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= MSMg01no398_c20.g1 MSMg01no398_c20.g1 CHROMAT_FILE:
MSMg01no398_c20.g1 PHD_FILE: MSMg01no398_c20.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:10:50 2005
         (470 letters)



>mm_chr4_105379124_105379992
          Length = 869

 Score =  839 bits (434), Expect = 0.0
 Identities = 461/470 (98%), Gaps = 1/470 (0%)
 Strand = Plus / Minus

                                                                       
Query: 1   attgacactcattttgatttttaaagaattattttaattaccatttttaagttccaagtt 60
           |||||| ||||||||||||||||||| ||||||||||||||| |||||||||||||||||
Sbjct: 669 attgacgctcattttgatttttaaaggattattttaattaccctttttaagttccaagtt 610

                                                                       
Query: 61  aagcaattctatagaaaagacctcaatgtcaactcaaaagcatcagctaattaaagtttg 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 609 aagcaattctatagaaaagacctcaatgtcaactcaaaagcatcagctaattaaagtttg 550

                                                                       
Query: 121 gcattccatggttaagaatatatatcctttgcatgtatgctctagatattgaacgaatca 180
           ||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||
Sbjct: 549 gcattccatggttaagaatatatatcctttgtatgtatgctctagatattgaacgaatca 490

                                                                       
Query: 181 tagaatcccctgctgtcttagagggagcctgggtggctttgtgacatatttactgtacca 240
           ||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||| 
Sbjct: 489 tagaatcccctgctgtcttagagggagcctgggtggctttgtgacatgtttactgtaccg 430

                                                                       
Query: 241 ccacggagatacctctcatgtgctatatagttagagtaaacccactctcgtacagcttcc 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 429 ccacggagatacctctcatgtgctatatagttagagtaaacccactctcgtacagcttcc 370

                                                                       
Query: 301 attttggtggtttaaacattcttttattttacctacctcccactttcttcctttactttg 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 369 attttggtggtttaaacattcttttattttacctacctcccactttcttcctttactttg 310

                                                                       
Query: 361 cagttctctgtactgtgattttttaagctactttattgggttcttatacccaccaccttt 420
           |||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||
Sbjct: 309 cagttctctgtactgtga-tttttaagctactttattgggttcttatacccaccaccttt 251

                                                             
Query: 421 cttcaccatgatcccttctaaccctccaatactgggcaggtggaaaagaa 470
           |||||||| |||||||||||||||||||| ||||||||||||||||||||
Sbjct: 250 cttcaccaggatcccttctaaccctccaacactgggcaggtggaaaagaa 201


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: 23
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: 470
Length of database: 869
Length adjustment: 10
Effective length of query: 460
Effective length of database: 859
Effective search space:   395140
Effective search space used:   395140
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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