BAC Information

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BAC

Clone NameMSMg01-060N18
ChromosomeY (Build37)
Map Location 2,870,367 - 2,870,902
singlet/doubletsinglet
Overlap genenone
Upstream geneUbe1y1-ps1, Sry, LOC100042840, LOC100042849, LOC620228, LOC667181, Rbmy1a1, LOC667189, LOC100042874, LOC667194, LOC100042881, LOC667201, LOC100039546, Rhoay-ps2, LOC100039568, LOC100041505, LOC100039581, LOC676356, LOC667217, LOC100039613, LOC100041537, LOC667227, LOC667236, EG631479, LOC667244, LOC100039652
Downstream genenone
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-060N18.T7 (MSMg01no060_n18.b1)MSMg01-060N18.TJ (MSMg01no060_n18.g1)
ACCAG287205AG287206
length708685
length of high quality
(start - end)
535 (46 - 580)542 (66 - 607)
definitionCHROMAT_FILE: MSMg01no060_n18.b1 PHD_FILE: MSMg01no060_n18.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:03:41 2005CHROMAT_FILE: MSMg01no060_n18.g1 PHD_FILE: MSMg01no060_n18.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:03:41 2005
singlet/doublet---singlet
BLAST hitno hit dataplural
sequence
NNGGATCTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCCAAAGAGGAT
CCGCGGAATTCTTTCTTTAGCTCTGAGCCCAGTTTTTTAATGGGGTTATT
TCATTTTCTGGAGTCATCCTTCTTGAGTTCTTTATATATATTTGATATTT
GTCCCCTAACTGATTTAGGATAGTGAAAGATCCTTTCACAATCTGTTGGT
GGACTTTTTGTCTTATTGAAGGTGTCTTTTGCCTTACAAAAGATTTGCAG
CTTTATGAGGTCCCATTCTATATCTTACAATGCAAGCCATTTGTCTTCTA
TTCAGGAATTTTTCCCCTGTTCACATATCTTTGAGGCTTTTCCCCACTTT
CTCCTCTACAAGTTTCTGTTTCTCTGATTTTATGTAGAGCTCCTTGATCC
ACTTACATTTGACCTTACCACAAGAGATAGGAATGGATTGATTCACATTC
TTCTACATGATAACCACCAATTGTGCCAGCACCATTTGTTGAAAATGCAG
TCTTTTTTTCCACTGGATACTTTTAGCTCCCTTGTAGAAGATCAATTGAC
AATAGGTGTGTTGGATTATTTCTGGGTCTTCAGTTCTATTTCATTGGTCT
ACTTCTCTGTCACTATATCAGTACCATGCAGTTTTTATCACCATTGCTCT
GTAGTACAGTTTTGGGTCAGGCATGGTGATTGTTCCATAGGTTCTTTTAT
CCCTGAAN
GATGTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXTCCTTTGCTTTTCTCTTGTTTCTCCATTACTTCAG
CAAGATTCTGCATTGCCTTTTGTTTTGGAAGATTCTCGAGGAATCCTAAA
TCCAGACTTTAGGGCAGTTATTTAAAATTCTTACTGGTCGTTCTGACAAT
GGATTCCTCTTCTTCTTTTTTTTTTTAATTAGATATTTTTTCATTTACAT
TTCCAATCCTATCCCAAAAGTCCCCCCATACCCACCTCAACCCCACCACC
ACCACCACCATATCTTGTCGCTGGCATACCCCTGAACTAAGGCATATAAA
GTTTGCAAGACTGATGGGCCTCTCTTTCCAATGATGTTCAACTAGTCTGT
CTTCTGATACAAATGCAGCCAGAAATACGAGCACTGATAAGTTGCTAGAA
AAATGAGCTCTGCGGGGTTTCTTTAGTTCATATTGTTGTTCCACTTATGG
GATTGCAGACCCCTTAAGTTCCTTGGGTACCTTCTCTACCTCCTCCATTT
CGGCCCCTGTGATTCATCCAATAGCTGACTGTGAGCATCCACTTCTGTGT
TTGCTAGGCCATGGCATAGCCTCCCAAGAGACAGCTAAATCTGGGTCCTT
TCCAGAAAATCTTGGCAGCGTATGCAATGGTGCCC
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no060_n18.g1 MSMg01no060_n18.g1 CHROMAT_FILE:
MSMg01no060_n18.g1 PHD_FILE: MSMg01no060_n18.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 17:03:41 2005
         (542 letters)



>mm_chrY_2870164_2871106
          Length = 943

 Score =  727 bits (376), Expect = 0.0
 Identities = 498/544 (91%), Gaps = 13/544 (2%)
 Strand = Plus / Plus

                                                                       
Query: 4   tttgcttttctcttgtttctcc-attacttcagcaagattctgcattgccttttgttttg 62
           |||||||||||||||||||||| |||||  || |||||||||||||| ||||||||||||
Sbjct: 204 tttgcttttctcttgtttctccaattacagcaccaagattctgcatttccttttgttttg 263

                                                                       
Query: 63  gaagattctcgaggaatcctaaatccagactttagggcagttatttaaaattcttactgg 122
           |||||||||||| |||||||||||||||||||||||||||||||||||||||||| ||||
Sbjct: 264 gaagattctcgatgaatcctaaatccagactttagggcagttatttaaaattcttgctgg 323

                                                                       
Query: 123 tcgttctgacaatggattcctcttcttctttttttttttaattagatattttttcattta 182
           | ||||||||||||| ||||||        |||||||| |||||| ||||||||||||||
Sbjct: 324 tggttctgacaatggtttcctc-------attttttttaaattaggtattttttcattta 376

                                                                       
Query: 183 catttccaatcctatcccaaaagtccccccatacccacctcaaccccacc---accacca 239
           |||||||||| |||||||||||||||||||||||||||||||||| ||||   |||||||
Sbjct: 377 catttccaatactatcccaaaagtccccccatacccacctcaaccacacccctaccacca 436

                                                                       
Query: 240 ccaccatatcttgtcgctggcatacccctgaactaaggcatataaagtttgcaagactga 299
           |||||| |||||||| |||||||||||||||| |||||||||||||||||||||||||||
Sbjct: 437 ccaccacatcttgtccctggcatacccctgaaataaggcatataaagtttgcaagactga 496

                                                                       
Query: 300 tgggcctctctttccaatgatgttcaactagtctgtcttctgatacaaatgcagccagaa 359
           |||| |||||||||||||||||  |||||||||  ||||||||||||| |||||| ||||
Sbjct: 497 tggggctctctttccaatgatgaccaactagtccatcttctgatacaactgcagctagaa 556

                                                                       
Query: 360 atacgagcactgataagttgctagaaaaatgagctctgcg-gggtttctttagttcatat 418
           | | |||| |||||| |  |||||||||||||| |||| | |||||||||||||||||||
Sbjct: 557 acatgagctctgatatgcagctagaaaaatgagttctg-gagggtttctttagttcatat 615

                                                                       
Query: 419 tgttgttccacttatgggattgcagaccccttaagttccttgggtaccttctctacctcc 478
           |||||||||||||||||||||||||||||||| || ||||||||||||||||||||||||
Sbjct: 616 tgttgttccacttatgggattgcagacccctttagctccttgggtaccttctctacctcc 675

                                                                       
Query: 479 tccatttcggcccctgtgattcatccaatagctgactgtgagcatccacttctgtgtttg 538
           |||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 676 tccatttcggtccctgtgattcatccaatagctgactgtgagcatccacttctgtgtttg 735

               
Query: 539 ctag 542
           ||||
Sbjct: 736 ctag 739


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: 16
Number of extensions: 3
Number of successful extensions: 3
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 542
Length of database: 943
Length adjustment: 10
Effective length of query: 532
Effective length of database: 933
Effective search space:   496356
Effective search space used:   496356
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)