BAC Information

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BAC

Clone NameMSMg01-377C18
ChromosomeY (Build37)
Map Location 1,649,958 - 1,650,373
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 nameMSMg01-377C18.T7 (MSMg01no377_c18.b1)MSMg01-377C18.TJ (MSMg01no377_c18.g1)
ACCAG482316AG482317
length779784
length of high quality
(start - end)		425 (66 - 490)423 (76 - 498)
definitionCHROMAT_FILE: MSMg01no377_c18.b1 PHD_FILE: MSMg01no377_c18.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:17:16 2005CHROMAT_FILE: MSMg01no377_c18.g1 PHD_FILE: MSMg01no377_c18.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:17:16 2005
singlet/doubletsinglet---
BLAST hitpluralno hit data
sequence
CTCATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGG
AATTCAGAAACCTACAGAGGCTATTTATTGCAAGCAGGTCTTCTGCAAAA
GCAATATACAATATAAGTACTAAAATTTCTATCAGTGCTCAACAATATTC
TATTCTTTGTGATGAAATCCCTCTCTCTCTCTCTCTCTCAATATATATAT
ACTTCTCTAACACTTAGTATGAATAAAGATTCTCTTAAATTCTCTCCTAC
AAAGGGGATGATATTGGAATGTCATCTGCAACATTCATTCACTTTCCTAC
ACAGTTTGTGCTTTCTCTTAGCAATCAACTAATATCTAAATCACACATGC
ACTCAGATTACAAAATAAGGTATCTGAGCTAATGCAATCTGTTATTATGA
GTCAGAGTAGGGGCAGGACAATTCCAAACTGTAGTTACATCCAAGAACAT
GGACTTTAACAAATTGTGAATCAGCAGAAGACAAGACTATGTATAGACGC
GGTTGTTTCTTTTGGTTTGGTTCGGCTTAACTTTGCTTATTCCCGTTATC
CATACCCCTTATAGAAAACCCCCAGAAATTCGGATCAACGCCTGGAACTT
TGATCGAATGCAATTCGTTGCCCTAAAACCATTATTTTATTTTTTGTTTC
CCCCCTATTTGTTTCTTTTTCCTAGCCTTTCCCTTTCTATCATTTTTCTC
CCCCTTCCTTTTTCCTCTTTTTTACACCCTTCTTTTCCTTCCCATTTCCT
TTCCTCCCTTTTTCCTTCCCCCACCCCCA

CAATGCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXACTCCTAGTCACTCCCATTCTCGGG
GTGTAATAGTGGGGTGATGGGCAAGCAATGAATCAGGAGCTGTCATGCCA
TATCAGGTGCTGAAACGTCACACTGCTGGTTATAAAAGCAGTGCCATTTT
CCCGGATCGGGATCTTCCTGAGAAGCAAGCAATAAAGCTCTTGCTGAGGA
AGATTCTGGTTTGTTGCATCTTTCTTGCTGGTCGAGCTGGACGCAATAAG
TGGTGCCAAAACCCGGGAACTGTCATCACACCAGCGCAAGGAAGATCCCT
CATTCACGGGCAGAATCAGAACTGTGGGACAAAAGGCTCTACAAGGTACG
TACAATCTTGAAATTTCTCCAGAGTTAGAAACCCTTTTTTTGTTTGCATG
GCGATTACACTTTTCCTTTTGGTTTCGTTTTGTTTCCACCACTGGAACTG
TTGACTGGGTCCTACTCGCATTCAGGTCTTGTAAGCGCCCGTACAGCATT
CTATTTCCGGCCCGGTTATTTCTTGTACAGCGGTTACTATGCGAAACCCC
CCTCTTAAACAATCGCCTTTACACCCCTCTCTTCATTTTGTGTCCCCCCC
AACCCCCCTTTTTCCCATCACCCATTCTTTTTTCCTACCTATTTTTTGTC
CTCCTTCTTCCTCCTTTTTTTCATTCTCTTTCTTTCCCTCTTTTCTTCAT
TCCCTTCTTATTTCTTTTTCCTTCCCCTTTTTTT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no377_c18.b1 MSMg01no377_c18.b1 CHROMAT_FILE:
MSMg01no377_c18.b1 PHD_FILE: MSMg01no377_c18.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 23:17:16 2005
         (425 letters)



>mm_chrY_1649762_1650582
          Length = 821

 Score =  308 bits (159), Expect = 6e-88
 Identities = 349/431 (80%), Gaps = 45/431 (10%)
 Strand = Plus / Plus

                                                                       
Query: 16  caagcaggtct-tctgcaaaagcaatatacaatataagtactaaaatttctatcagtgct 74
           ||||||||||| | ||||||||||| | ||| |||||||||| |||| |||||||||| |
Sbjct: 197 caagcaggtctgt-tgcaaaagcaaaagacattataagtactgaaatatctatcagtgtt 255

                                                                       
Query: 75  caacaatattctattctttgtgatgaaa-------------------tccctctctctct 115
           | |||||||||| ||||  |||||||||                   || ||||||||||
Sbjct: 256 ctacaatattcttttctaggtgatgaaattctctctctctctctctctctctctctctct 315

                                                                       
Query: 116 ctctctctcaatatatata-tacttctctaacacttagtatgaataaagattctcttaaa 174
           |||||||||||||     | |||| ||||||||| |||||||||| | ||||||||||  
Sbjct: 316 ctctctctcaata-----actactcctctaacacatagtatgaatgatgattctcttatc 370

                                                                       
Query: 175 ttc--tctcctacaaaggggatgatattggaatgtcatctgcaacattcattcactttcc 232
           |||  ||||  ||||||||| ||||||||||| |||||||||||||||||||||||||||
Sbjct: 371 ttctgtctc--acaaaggggttgatattggaacgtcatctgcaacattcattcactttcc 428

                                                                       
Query: 233 tacacagtttgtg-ctttctcttagcaatcaactaatatctaaa-tcacacatgcactca 290
           |||||||||| |  |||||||||||||||||||||||||| ||| |||||||| ||||||
Sbjct: 429 tacacagttt-tcactttctcttagcaatcaactaatatc-aaagtcacacattcactca 486

                                                                       
Query: 291 gattacaaaataaggtat--ctgagctaatgcaatctgttattatgagtcagagtagggg 348
           ||||||||||||||||||  |  |||| ||| || |||||||| ||| | ||||||||| 
Sbjct: 487 gattacaaaataaggtattcc--agctcatgtaaactgttattctgaattagagtaggga 544

                                                                       
Query: 349 caggacaattccaaactgta--gttacatccaagaacatggactttaacaaattg-tgaa 405
            | |||| ||||||  ||||  |||| | |||||| ||||| |||||| ||| || ||||
Sbjct: 545 aaagacacttccaa--tgtatagttaaacccaagagcatggcctttaa-aaactggtgaa 601

                      
Query: 406 tcagcagaaga 416
           |||| ||||||
Sbjct: 602 tcagtagaaga 612


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: 17
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: 425
Length of database: 821
Length adjustment: 9
Effective length of query: 416
Effective length of database: 812
Effective search space:   337792
Effective search space used:   337792
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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