BAC Information

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BAC

Clone NameMSMg01-233E17
ChromosomeY (Build37)
Map Location 1,649,953 - 1,650,596
singlet/doubletsinglet
Overlap genenone
Upstream geneUsp9y, LOC100039278, EG667079, LOC667089, Rhoay-ps1, Zfy2, Ube1y1-ps2, LOC667137, LOC100039373, LOC100039381, LOC667143
Downstream geneLOC100039401, LOC100039430, Vmn2r-ps137, LOC100039450, LOC547210, Ube1y1-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
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-233E17.T7 (MSMg01no233_e17.b1)MSMg01-233E17.TJ (MSMg01no233_e17.g1)
ACCAG399545AG399546
length752732
length of high quality
(start - end)		408 (45 - 452)657 (76 - 732)
definitionCHROMAT_FILE: MSMg01no233_e17.b1 PHD_FILE: MSMg01no233_e17.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:49:58 2005CHROMAT_FILE: MSMg01no233_e17.g1 PHD_FILE: MSMg01no233_e17.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:49:58 2005
singlet/doublet---singlet
BLAST hitno hit dataplural
sequence
TCATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGA
ATTCAAGGCCCATACTTAAACATAATAAAAGCAATATATAGCAAACCAGT
AGTCAACATCAAACTAAATGGACAGAAACTAAAACCAATCCGACTAAAAT
CAGGGACTAGACAAGACTGTCCACTTTCTTCCTATCTGTTCAATATAGCA
CTTGAAATCCTAGCCAGAGCAATTGGACAACAGAAGTACATCAAGGGAAC
ACCGTGGTCCCTTGCCAGGGGTGTCTCTGGACACCCCCAAGGACACACAC
AGGATCCACCACGGGATCCTAAGACCTCTGGTGAGTGGAACACAGCACCT
GGTCCAATCCAATCGCACAGGACCCGAGACTGCACATTATTATTATGCAT
ATCAGATAGGCATGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTG
TNAAAANAAAAAAAAAAATAAANAAATATTTCTCATAACCTCCTCATACC
TACTACCCCATCTATCCCTCTCTCACTAATTCCATTACCCTCCAATCCCC
TTCTAATCATTCTAACTTTCCCTTTATTAACTTTTCATTCTTACCTTTTC
CCTTACCTTTCTCACTATTACCTCTATTTTTCCATCACCCTCTCCCTATT
TCCCCCCTTATTTTCCTTCATTTTTCCCCTTTCCCCCCCCTTCCTTTCCC
CTATTCTTCTTACCCCACTCCCCTATTTTCCTTCTTTCCTCCTATTTTAC
TT

CGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXAGAAACATACAGAGGCTGTGTACTG
CAAGCAGGTCTTCTGCATAAGCACTATATAATATAAGTACTAAAATTGAT
ATCAGTGCTCTACAATATTCTATTCTATGTGATGTAATATCTCTCTCTCT
TTCTCTCTCTCTCTCTCAATATATATATTCCTCTAACACTTAGTATGAAT
AAAGATTCTCTTATATTCTCTCCTACAAAGGGGATGATATTGGCATGTCA
TCTGCAACATTCATTCACTTTCCTACACAGTTTGTGCTTTCTCTTAGCAA
TCAACTAATATCTAAATCACACATGCACTCAGATTACAAAGTAAGGTATC
TGAGCTCATGCAAACTGTTATTCTGAGTCAGAGTAGGGGGAGGACAATTC
CAAACTGTAGTTACATCCAAGAGCATGGACTTTAACAACTTGTGAATCAG
TAGAAGAAAAGACAATGTATAGACACGGTTGTTTCTTTTGGTTTGGTTTG
GTTTAGCTTTGCTTATTTCAGTTACCCACAATCATTATAAGAAACACAGA
GAAACACAGATTAATGCCTGTATCTTGAACTGAATGCAAACAGGGGCCTT
AGAACCAACATTTTATTTCTGTTACAATATACAATATATATTTTTAGAGA
TTTTTTTTATTTATTAGCTATTATACCCACTG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no233_e17.g1 MSMg01no233_e17.g1 CHROMAT_FILE:
MSMg01no233_e17.g1 PHD_FILE: MSMg01no233_e17.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 20:49:58 2005
         (657 letters)



>mm_chrY_1649742_1650796
          Length = 1055

 Score =  522 bits (270), Expect = e-152
 Identities = 555/668 (83%), Gaps = 55/668 (8%)
 Strand = Plus / Plus

                                                                       
Query: 21  tactgcaagcaggtct-tctgcataagcactatata-a-tataagtactaaaattga--t 75
           |||| ||||||||||| | |||| |||||  | | | | |||||||||| ||||  |  |
Sbjct: 212 tactacaagcaggtctgt-tgcaaaagca--aaagacattataagtactgaaat--atct 266

                                                                       
Query: 76  atcagtgctctacaatattctattctatgtgatgtaatatctctctctct---------- 125
           ||||||| ||||||||||||| ||||| |||||| ||| |||||||||||          
Sbjct: 267 atcagtgttctacaatattcttttctaggtgatgaaat-tctctctctctctctctctct 325

                                                                       
Query: 126 -t-tctctctctctctctcaatatata-tattcctctaacacttagtatgaataaagatt 182
            | ||||||||||||||||||||   | || ||||||||||| |||||||||| | ||||
Sbjct: 326 ctctctctctctctctctcaata---actactcctctaacacatagtatgaatgatgatt 382

                                                                       
Query: 183 ctcttatattc--tctcctacaaaggggatgatattggcatgtcatctgcaacattcatt 240
           ||||||| |||  ||||  ||||||||| ||||||||| | |||||||||||||||||||
Sbjct: 383 ctcttatcttctgtctc--acaaaggggttgatattggaacgtcatctgcaacattcatt 440

                                                                       
Query: 241 cactttcctacacagtttgtg-ctttctcttagcaatcaactaatatctaaa-tcacaca 298
           |||||||||||||||||| |  |||||||||||||||||||||||||| ||| |||||||
Sbjct: 441 cactttcctacacagttt-tcactttctcttagcaatcaactaatatc-aaagtcacaca 498

                                                                       
Query: 299 tgcactcagattacaaagtaaggtat--ctgagctcatgcaaactgttattctgagtcag 356
           | ||||||||||||||| ||||||||  |  |||||||| ||||||||||||||| | ||
Sbjct: 499 ttcactcagattacaaaataaggtattcc--agctcatgtaaactgttattctgaattag 556

                                                                       
Query: 357 agtagggggaggacaattccaaactgta--gttacatccaagagcatggactttaacaac 414
           |||||||  | |||| ||||||  ||||  |||| | |||||||||||| |||||| |||
Sbjct: 557 agtagggaaaagacacttccaa--tgtatagttaaacccaagagcatggcctttaaaaac 614

                                                                       
Query: 415 ttgtgaatcagtagaagaaaagacaatgtataga--cacggttgtttcttttggtttggt 472
           | ||||||||||||||||  ||||||||||||||  ||  |||||||||||||||||| |
Sbjct: 615 tggtgaatcagtagaagattagacaatgtatagaagca--gttgtttcttttggtttgat 672

                                                                       
Query: 473 ttggtttagctttgcttatttcagttacccacaatcattataagaaacacagagaaacac 532
           |||||||||||||| |||||| ||||||||| |||||||| ||| |||||| ||||||| 
Sbjct: 673 ttggtttagctttgtttattttagttacccagaatcattaaaaggaacacaaagaaacag 732

                                                                       
Query: 533 agattaatgcctgtatcttgaact-gaatgcaaacaggggccttagaaccaacattttat 591
            | ||||||||| |||||| |||| || |||||| |||  | |||    ||| ||| |||
Sbjct: 733 tgtttaatgcctatatcttcaactaga-tgcaaataggttcatta----caatattatat 787

                                                                       
Query: 592 ttct--gttacaatatacaatatatatttttagagattttttttatttattagctattat 649
           ||||  |||| |||||| ||||||||||||||||||| ||||| ||| ||||||||||||
Sbjct: 788 ttctcagttaaaatatataatatatatttttagagatatttttcattcattagctattat 847

                   
Query: 650 acccactg 657
           || |||||
Sbjct: 848 acacactg 855


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: 27
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: 657
Length of database: 1055
Length adjustment: 10
Effective length of query: 647
Effective length of database: 1045
Effective search space:   676115
Effective search space used:   676115
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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