BAC Information

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BAC

Clone NameMSMg01-178L20
Chromosome9 (Build37)
Map Location 83,028,477 - 83,135,443
singlet/doubletdoublet
Overlap geneHmgn3
Upstream geneLOC100039085, Irak1bp1, Phip, LOC100039144
Downstream geneLOC100039159, 4930431B11Rik, EG619900, LOC100039186, LOC100039200, Sh3bgrl2, LOC100039222, Elovl4, Ttk, EG546150, Bckdhb
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-178L20.T7 (MSMg01no178_l20.b1)MSMg01-178L20.TJ (MSMg01no178_l20.g1)
ACCAG372736AG372737
length794731
length of high quality
(start - end)		166 (47 - 212)519 (77 - 595)
definitionCHROMAT_FILE: MSMg01no178_l20.b1 PHD_FILE: MSMg01no178_l20.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 19:51:36 2005CHROMAT_FILE: MSMg01no178_l20.g1 PHD_FILE: MSMg01no178_l20.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 19:51:36 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(83,028,477 - 83,028,611)(83,134,925 - 83,135,443)
sequence
TCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCG
GAATTCCAATATTCTCTTCCCATGGTTGAGATCACAGGCTCTGGAGCCTC
TAGAACTGAATTCCCCGCAGCTCACAAGGGCCTTGGGAAAGTGTCAGGGG
CTGGTGCTTCAGTGTATAAGATGAAGATGAGTGGACCTGATTGGGGGGGG
GGGGGCTGANNNTNNNNNNCNNNNTCTNTTTTTNCCTTCTCTCCTTTCTT
CTCCTGTCTTCCTCTCCCTCTCTTTCTTCCCTTTTCTTCTCCTTTCTTTT
TCTCTCCCCCTCTTTTTTTTTTTTCTCCCCTTCCCCCCCCCTTCCTTTTT
CTTCCTTTTTTTTTTCTCCCCCCCCCCCCTCCCTTTTTTTTCCTCTTATT
TTTTCTTTTTTTCTCCCTTTCCCCCCTTCTAAAAAATTTAATTTCTGTTT
TTTGCGTGTTTCGCCTCTCTTTCTTCCCCATTTCTACCTACCTTTTTTTT
TCCCCTTTTTATCTCCCTTTTCTTTCTCTCGTTGCTTTTCCTCTTTTTTT
TTTTACTTTTTCTCTTTTCTATCTTTTTTCTTTTCTATACTTTCTATATT
TCTATATTTTATATATCCTTTTTCCCCTCCCTTTACCCTTTCCTTATACT
CACCTCTTTATTAGTCTTCCTTTAATTTTCTCCTCCGTTTTTTCTTCTCT
GTCCTCTCCCCCCTTTAGTATACTTCTTTACACTTTTTTTCCCTTTTTTT
TCTCAAGGCATTCCCTCCTCGTTTGGTTGCCAATTCTTTTTTTC

CCATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXAGTCATCAGTTACATTTCGCCAAG
AATTAAGTCACCCATCAGCTGACTCAAGGCTTCAACACATGTCTAAGCTC
AGAGATGCTACTGGTCTCTTCCACGACTTGTTCAAGATGGATCTAACACT
GATGAACCCCATGCCAACAATTTGCTTCCCAACGTAAAGCTAACTTGGAG
TGTGGGAGACGCACACTGAAATCATTCTCCTCGTAAGCAAGAGACCTGCA
TTATACAACTTACGTTAACTCATCATGGTGATGCTCTTAGCATTACTCTC
TAAACCCACCTTTTCCCTAAAAGAATACATACATCATCTTTTAATATTCT
ACTACCCTGACCAAACAAAGAAATAACAATAATTTTTATTTTCATACATA
CTAAAATTATTTTTAGGTGGGTTGTTAATGATTAGTAAAAATCTTCTTTC
CCCACAGACATTATCATTAACTTGGGCTCACGATAAGCGGCCATCACAGG
CTCAGAAGTGGACTTTACCCATCTTGGACACAAAGCAGTGTTTGTACCAG
AATAAAACGGAATATGACTCATATACTAATGGAGAACCTTGAAGCCTATG
ATGTACATCATATAAAGCATATATTGGCCATGATGCTGCGCATTCTAGGT
TGATCCCTTCCAATTTTAATATTGTATTTCN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no178_l20.b1 MSMg01no178_l20.b1 CHROMAT_FILE:
MSMg01no178_l20.b1 PHD_FILE: MSMg01no178_l20.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 19:51:36 2005
         (166 letters)



>mm_chr9_83028273_83028838
          Length = 566

 Score =  253 bits (131), Expect = 3e-72
 Identities = 134/135 (99%)
 Strand = Plus / Plus

                                                                       
Query: 5   gaattccaatattctcttcccatggttgagatcacaggctctggagcctctagaactgaa 64
           |||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 205 gaattccaatattcccttcccatggttgagatcacaggctctggagcctctagaactgaa 264

                                                                       
Query: 65  ttccccgcagctcacaagggccttgggaaagtgtcaggggctggtgcttcagtgtataag 124
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 265 ttccccgcagctcacaagggccttgggaaagtgtcaggggctggtgcttcagtgtataag 324

                          
Query: 125 atgaagatgagtgga 139
           |||||||||||||||
Sbjct: 325 atgaagatgagtgga 339


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: 6
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: 166
Length of database: 566
Length adjustment: 8
Effective length of query: 158
Effective length of database: 558
Effective search space:    88164
Effective search space used:    88164
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)

Query= MSMg01no178_l20.g1 MSMg01no178_l20.g1 CHROMAT_FILE:
MSMg01no178_l20.g1 PHD_FILE: MSMg01no178_l20.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 19:51:36 2005
         (519 letters)



>mm_chr9_83134725_83135643
          Length = 919

 Score = 1004 bits (519), Expect = 0.0
 Identities = 519/519 (100%)
 Strand = Plus / Minus

                                                                       
Query: 1   agtcatcagttacatttcgccaagaattaagtcacccatcagctgactcaaggcttcaac 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 719 agtcatcagttacatttcgccaagaattaagtcacccatcagctgactcaaggcttcaac 660

                                                                       
Query: 61  acatgtctaagctcagagatgctactggtctcttccacgacttgttcaagatggatctaa 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 659 acatgtctaagctcagagatgctactggtctcttccacgacttgttcaagatggatctaa 600

                                                                       
Query: 121 cactgatgaaccccatgccaacaatttgcttcccaacgtaaagctaacttggagtgtggg 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 599 cactgatgaaccccatgccaacaatttgcttcccaacgtaaagctaacttggagtgtggg 540

                                                                       
Query: 181 agacgcacactgaaatcattctcctcgtaagcaagagacctgcattatacaacttacgtt 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 539 agacgcacactgaaatcattctcctcgtaagcaagagacctgcattatacaacttacgtt 480

                                                                       
Query: 241 aactcatcatggtgatgctcttagcattactctctaaacccaccttttccctaaaagaat 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 479 aactcatcatggtgatgctcttagcattactctctaaacccaccttttccctaaaagaat 420

                                                                       
Query: 301 acatacatcatcttttaatattctactaccctgaccaaacaaagaaataacaataatttt 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 419 acatacatcatcttttaatattctactaccctgaccaaacaaagaaataacaataatttt 360

                                                                       
Query: 361 tattttcatacatactaaaattatttttaggtgggttgttaatgattagtaaaaatcttc 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 359 tattttcatacatactaaaattatttttaggtgggttgttaatgattagtaaaaatcttc 300

                                                                       
Query: 421 tttccccacagacattatcattaacttgggctcacgataagcggccatcacaggctcaga 480
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 299 tttccccacagacattatcattaacttgggctcacgataagcggccatcacaggctcaga 240

                                                  
Query: 481 agtggactttacccatcttggacacaaagcagtgtttgt 519
           |||||||||||||||||||||||||||||||||||||||
Sbjct: 239 agtggactttacccatcttggacacaaagcagtgtttgt 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: 26
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: 519
Length of database: 919
Length adjustment: 10
Effective length of query: 509
Effective length of database: 909
Effective search space:   462681
Effective search space used:   462681
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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