BAC Information

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BAC

Clone NameMSMg01-315P06
ChromosomeY (Build37)
Map Location 2,869,906 - 2,870,363
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 nameMSMg01-315P06.T7 (MSMg01no315_p06.b1)MSMg01-315P06.TJ (MSMg01no315_p06.g1)
ACCAG436445AG436446
length720723
length of high quality
(start - end)		566 (45 - 610)548 (77 - 624)
definitionCHROMAT_FILE: MSMg01no315_p06.b1 PHD_FILE: MSMg01no315_p06.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:57:35 2005CHROMAT_FILE: MSMg01no315_p06.g1 PHD_FILE: MSMg01no315_p06.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:57:35 2005
singlet/doubletsinglet---
BLAST hitpluralno hit data
sequence
TTTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGA
ATTCATCACAGAACAAAAGACAGAAGAAGTAAGAATTAAAGACATATTTG
GGAAAGATGAATAGTGAAGTAGAGATTAGAGCAAGCAGAAAGGACTGAGG
AGATAGCTCACTGCTTAGGCCCACTGATTGCTTTTGCACAGGACCAGGGT
TCAATTTCTAACACCCACATGGTTGTTCACAACCACCTGCAATTCTAGTT
CTAGACGATCTGATGACCTCTTTGGACAACACACACACACACAGACACAC
ACACACGCACACACACACACACACACACACACACACACACACACACACAC
ACACACACACACACACACACATATACTCACCCACAGAGAAAAAAAAATCT
TTTAGAAAACAATTATACCCACCAAAAGGAGTCAAGTATAGTTTTATTCC
CCTTTAATACCAGCACTCAGAAGCAGGCTAAAATATGTAAGTTGAATGAC
TGCCTAGCTGATAGGTGTGTTTTCAGAATTTTCTTTTTCTTTTTCTTTTC
TTTTTCTTTTCTTTTCTTTTCTTTTTTTTTTTTTTTTTTTTGATTTTAGG
ACTATTTCAGTATTTGTTTAAAGATTCTAGATTTTTTTTTCTATTTACTT
CTTCTAATGTTTTAGGCTTTTTTTTCGGGCTTTTTAGTATTTTACAGCTT
TCGGGGTTTTTTTTTGGGGG

CGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXAACTTTTCTGGGGACATAAAGCTT
CCACAGGACAAGCACACACCCTCATCGCACTGAGGCCAGACAATGCAATC
CTCTGCTACATATGAATAGTAGGGGTTATGTACTAGTACATGTATGCTTT
TTGGTTGGTGGCTTAGTACCTGGGAATTCTGGGAAATCTAGTTTTTTCAT
GGTGTTGTTCTTCCAATAGGGTTGTAATTCCCTTCAGTTCCTTCAGTCTT
TGATCAAACTCTTCCATAGGGGTTCCTGGGTTTAGACCAATGATTGGCTG
TAAATATCTGCATCTGTCTCAGTCAGTTGATGGCATAGCCTCTTTTAGGA
CAGTCATGCCATGTTCACGCCCGAAAGCATATCTTGGTCAATTAACAAAT
GGGACCTTCTGAAACTGAAAAGGTTCTGTAAGGCAAAGGACACTGTCAAT
AGGACAAAATGGCAACCTAGTAATGGAGAAAAGTTCTTTACTAACCCTAC
ATCTGATCGAAGGCTAATATTCAAAATATACAAAGAATTCAAGAAGCTAG
ACTCCAAAAAAAAAAAAAAAACAAAAACAAAAAACAAAAAACAAAAAACA
ACCTAATGAATAAATGAGCTCTAGAGCTAAACAAAATTCTCAATTTAGGA
ATCTCCGAAGCCTGAGAAGCACC
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no315_p06.b1 MSMg01no315_p06.b1 CHROMAT_FILE:
MSMg01no315_p06.b1 PHD_FILE: MSMg01no315_p06.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:57:35 2005
         (566 letters)



>mm_chrY_2869404_2870369
          Length = 966

 Score =  603 bits (312), Expect = e-177
 Identities = 444/536 (82%), Gaps = 81/536 (15%)
 Strand = Plus / Minus

                                                                       
Query: 5   gaattcatcacagaac-aaaagacagaagaagtaagaattaaagacatatttgggaaaga 63
           ||||||||||||  || ||||||||||||||||| |||||||||||||||||||| ||||
Sbjct: 960 gaattcatcacattacaaaaagacagaagaagtaggaattaaagacatatttgggcaaga 901

                                                                       
Query: 64  tgaatagtgaagtagagattagagcaagcagaaaggactgaggagatagctcactgctta 123
           ||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||
Sbjct: 900 tgaatagtgaagtagagattagaacaagcagaaaggactgaggagatagctcactgctta 841

                                                                       
Query: 124 ggcccactgattgcttttgcacaggaccagggttcaatttctaacacccacatggttgtt 183
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 840 ggcccactgattgcttttgcacaggaccagggttcaatttctaacacccacatggttgtt 781

                                                                       
Query: 184 cacaaccacctgcaattctagttctagacgatctgatgacctctttggacaacacacaca 243
           |||||||||||||||||||||||||||||||||||||||||||||||     ||||    
Sbjct: 780 cacaaccacctgcaattctagttctagacgatctgatgacctctttg-----caca---- 730

                                                                       
Query: 244 cacacagacacacacacacgcacacacacacacacacacacacacacacacacacacaca 303
                                                                    |||
Sbjct: 729 ---------------------------------------------------------aca 727

                                                                       
Query: 304 cacacacacacacaca-cacacacatatactcacccacagagaaaaaaaaatcttttaga 362
           |||||||||||||||| ||||||||||||||||||||||||||||||||| || ||||||
Sbjct: 726 cacacacacacacacatcacacacatatactcacccacagagaaaaaaaa-tcctttaga 668

                                                                       
Query: 363 aaacaattatacccaccaaaaggagtcaagtatagttttattcccctttaataccagcac 422
           ||||||||||||  || |||||||||||||||||||||||||||||||||||||||||||
Sbjct: 667 aaacaattatacaaacaaaaaggagtcaagtatagttttattcccctttaataccagcac 608

                                                                       
Query: 423 tcagaagcaggctaaaata-tgtaagttgaatgactgcctagctgataggtgtgttttca 481
           ||||||||||||||||  | ||||||||||||||||||||||||||||||||||||||||
Sbjct: 607 tcagaagcaggctaaac-actgtaagttgaatgactgcctagctgataggtgtgttttca 549

                                                                   
Query: 482 gaattttctttttctttttcttttctttttcttttcttttcttttctttttttttt 537
           ||||||| ||||||||||      ||||||||||||    ||||||||||||||||
Sbjct: 548 gaattttatttttctttt------ctttttcttttc----cttttctttttttttt 503


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: 73
Number of extensions: 4
Number of successful extensions: 4
Number of sequences better than 10.0: 1
Number of HSP's gapped: 4
Number of HSP's successfully gapped: 1
Length of query: 566
Length of database: 966
Length adjustment: 10
Effective length of query: 556
Effective length of database: 956
Effective search space:   531536
Effective search space used:   531536
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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