BAC Information

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BAC

Clone NameMSMg01-543P18
ChromosomeY (Build37)
Map Location 1,655,695 - 1,656,287
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 nameMSMg01-543P18.T7 (MSMg01no543_p18.b1)MSMg01-543P18.TJ (MSMg01no543_p18.g1)
ACCAG609390AG609391
length767764
length of high quality
(start - end)		689 (38 - 726)609 (77 - 685)
definitionCHROMAT_FILE: MSMg01no543_p18.b1 PHD_FILE: MSMg01no543_p18.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 21:24:30 2005CHROMAT_FILE: MSMg01no543_p18.g1 PHD_FILE: MSMg01no543_p18.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 21:24:30 2005
singlet/doublet---singlet
BLAST hitno hit dataplural
sequence
CTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXTTTCAGAGGATCCGCGGA
ATTCAGTTAGCTTTACACACTGACAGCTGTGATGATTTAAGATAGGCAGC
AGAGTGCTCACAGTATCACTAAGAGATGAACATTAGCTTGTTGTCATATT
CACCCACACTCACACATACATAAACACACACAAACACACACACAAACATA
AACACACACAACACTCACACAAACACGCACGCACTCACACACCCACACAC
ACACACACACAAACGCACACCAGCCATTGGAACACAAACCCCAGTAGTGA
CTCCCGTGACAGTTCTAAATATTTAGACACAGTCCCTAGTCAAAAAGTTC
ATGGAAACTAAGTCTTCAGGAACCATCCTGGAAAAAATGCATCAAACTTG
TCCTTACATTAGTAAGTGATTGAATCTTTGTGACTTCTTTCAATGTTGTT
TTATTATAAGTGCCTCCAAGTAATGACTTGGCAAATATCTAAGCAATATC
CAACTTTGTTCCCTGTCCTTCACCAATATTCTAGGTAGTCCTTGAGCGGA
TCCTGGGCTTGGAATTCAGTAAGAATGTTACCTGTAACAACCAGAGTTAC
CTCTAGTATTATAAGAGAGATTGTGACAGCCATTGCTATATACTACATAG
AGTTAGAAATCTCAGGACAACTTTAGGAAAGTATGTTTAGAATATCTGTT
ATACTTATGCATGGCAGGCTACATTAGTTGTTAGTAGAAAGATTCCCCCA
TACAATCCCTCTCATAN

CATGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXAACAATTTTGGACCCTATGAAAGTAA
TGGATTGTCCAAATGCTCCCGGACTGAGAATCTTAGGGAAGCTCTAGGTT
TTTTCTTAATCTGCAATGTCATTTAGACATTAGAGCAAGCAGAGATGATT
TGCTCCTTCTCTTAGGCAATCAGATTTTATTCTGGAAGACAACCGTTGTG
AGCCTTGAGAGGGTTTGCTGGAGGAGAAGGGATATTGACAGTGCTCTACC
CAACCTGCAAGGCACACAGCTAGACCTTGTTCCCTCTGATGCATAGAAGT
GTCTGATGGTATTAGATGGGATTCTTGATGAGGACAGAATCTGAGGAAAG
GTTCCTGTAGAGAAATGAAGTGCTGTTATACAACCTAGAAAGTATATACC
ATTGATCATTGTGAGCCTGAAACAGAAAGCACCCAAGCATTGGACCTAAT
GTATGATTGGTGAGACAGATTGAAGAGATTTTGTTTGTTTTGAATTCTCT
GTATAGGTATGGATACATTGTCTCATGGGAAGGGGGAGTGTGGATTCCCT
GTGGTTACTAAAATAGAAGAAGTTGTAAACAGCCAATGGAAATGTGGCAA
GTCCAAGTGTATGCTGTGCATGAGCTGCCAGTGTTCAGAAATGCTGAGCC
ATCACTTCAGATTCAATAAGATATTTAAAGAAGAAAACCAGAAGATAAAA
CTTAAGGGGACTGT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no543_p18.g1 MSMg01no543_p18.g1 CHROMAT_FILE:
MSMg01no543_p18.g1 PHD_FILE: MSMg01no543_p18.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 21:24:30 2005
         (609 letters)



>mm_chrY_1655491_1656495
          Length = 1005

 Score =  534 bits (276), Expect = e-156
 Identities = 523/608 (86%), Gaps = 26/608 (4%)
 Strand = Plus / Minus

                                                                       
Query: 5   tttggaccctatgaaagtaatggattgtccaaatgctcccggactgagaatcttagggaa 64
           ||||||||||||||||||||| ||||| ||||||||||| |||||||||||||| |||||
Sbjct: 797 tttggaccctatgaaagtaatagattgcccaaatgctcctggactgagaatcttggggaa 738

                                                                       
Query: 65  gct-ctaggttttttcttaatctgcaatgtcatttagacattagagcaagcagagatgat 123
            || |||||  |||||||||||||||||| |||||||| ||| |||||||  |||||| |
Sbjct: 737 -ctgctagggattttcttaatctgcaatggcatttagatattggagcaagtggagatgct 679

                                                                       
Query: 124 ttgctccttctcttaggcaatcagattt-tattctggaagacaaccgttgtgagc-cttg 181
           ||||||||||| ||||||| |||||||| | |  |||||||||| | ||||||||  |||
Sbjct: 678 ttgctccttcttttaggcactcagatttgtct--tggaagacaaactttgtgagcatttg 621

                                                                       
Query: 182 agagggtttgctggaggagaagggatattgacagtgctctacccaacctgcaaggcacac 241
           ||||||||||||||||||||||||||||||||||||||||| |||| ||||| |||||||
Sbjct: 620 agagggtttgctggaggagaagggatattgacagtgctctaaccaaactgcatggcacac 561

                                                                       
Query: 242 agctagaccttgttccctctg-atgcatagaagtgtctgatggtattag-atgggattct 299
           |||||||| |||||||||||| | |||||||| | ||||||||| || | ||  ||| ||
Sbjct: 560 agctagactttgttccctctgta-gcatagaattttctgatggtgtt-gcat--gatcct 505

                                                                       
Query: 300 tgatgaggacagaatctgaggaaaggttcc-tgtagagaaa-tgaagtgctgttatacaa 357
           || ||||||||| |||||||| ||| ||||  ||||| ||| || ||||| |||||||||
Sbjct: 504 tgctgaggacaggatctgaggcaagtttccaggtaga-aaactgtagtgcagttatacaa 446

                                                                       
Query: 358 cctag-aaagtatataccattgatcattgtgagcctgaaacagaaagcacccaag-catt 415
             ||| ||| |||| |||||| |||   ||||||||||| | || |||| |  || ||||
Sbjct: 445 ggtagcaaa-tataaaccattaatc---gtgagcctgaagctgagagca-ctgagacatt 391

                                                                       
Query: 416 ggacctaatgtatgattggtgagacagattgaagagattttgtttgttttgaattctctg 475
           |||||||||| || |||| |||||||  ||||||| ||||||||||||||||||||||||
Sbjct: 390 ggacctaatgcataattgctgagacactttgaagacattttgtttgttttgaattctctg 331

                                                                       
Query: 476 tataggtatggatacattgtctcatgggaagggggagtgtgg-attccctgtggttacta 534
           |||||||||| |||||||||| ||||||||| |||||||||| || ||||||||| ||| 
Sbjct: 330 tataggtatgaatacattgtcccatgggaagagggagtgtggcat-ccctgtggtcactg 272

                                                                       
Query: 535 aaatagaagaagttgtaaacagccaatggaa-atgtggcaagtccaagtgtatgctgtgc 593
           || |||| | ||||||||| ||||||||||| | ||||||||||||||||||||||||| 
Sbjct: 271 aagtagacggagttgtaaagagccaatggaaga-gtggcaagtccaagtgtatgctgtgt 213

                   
Query: 594 atgagctg 601
           ||| ||||
Sbjct: 212 atgtgctg 205


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: 8
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: 609
Length of database: 1005
Length adjustment: 10
Effective length of query: 599
Effective length of database: 995
Effective search space:   596005
Effective search space used:   596005
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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