BAC Information

Click to search

BAC

Clone NameMSMg01-076F19
ChromosomeY (Build37)
Map Location 1,656,008 - 1,656,293
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 nameMSMg01-076F19.T7 (MSMg01no076_f19.b1)MSMg01-076F19.TJ (MSMg01no076_f19.g1)
ACCAG298958AG298959
length716785
length of high quality
(start - end)
379 (65 - 443)293 (126 - 418)
definitionCHROMAT_FILE: MSMg01no076_f19.b1 PHD_FILE: MSMg01no076_f19.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:25:18 2005CHROMAT_FILE: MSMg01no076_f19.g1 PHD_FILE: MSMg01no076_f19.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:25:18 2005
singlet/doublet---singlet
BLAST hitno hit dataunique
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTCAG
TAAGAATGCACCTGTAACAACCAGAGTTACCTCTAGTATTATAAGAGAGA
TTGTGACAGCCATTGCTATATACTACATAGAGTTAGAAATCTCAGGACAA
CTTTAGGAAAGTATGTTTAGAATATTTGTTATACTTATGCATGGCAGGCT
ACATTAGTTGTTAGTAGAAAGATTCCCCCATACAATCCCTCTCATATACA
GGAATTTACAATGGTTTAGGAAATAACTTGTGCTGTGGTTTGAGGGGGAA
CAACAGTTTTGAATTATTCATGAGAAGATTAGCTAGAAAGAAACTCCCTA
ATTAGAACCATGGCTTGAGTGTGAAATCCATTTGCATGGTGTGATCATAA
AGTGTTCAAACCTAGCTTCAAAGAATATAGCTGACTTTAGAGAAGAATTC
ATTTCAGTTATTTTATTGCTCAGTCCCTGCCAGTCATTATGTTTTTATTG
CTCTATTTTGGACATGAGTCTTTAAGAATTCAGTAACCTCATTTACCTGG
TTGATTTGAAAACCAACTTCCCTATTTGCTTCTATATTAATAATCTGATG
ATTTCCTTGAGAAATTACATTCAGATACAGCAACCCCTCTGTGTTTGTAT
CTGACTGACACTTATATGTCAGCTTCCTGCCCCTCTATACCAGGACAATG
ATTTCCCCCAGAAATT
NNNNNNTTTTTTTTNNNTTTTTCTTTCCCCTTCTTTNCCCCCTCCACCCC
NTACGATGATAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXAACAATTTTGGACCCTATGAAAGTA
ATGGATTGTCCAAATGCTCCCGGACTGAGAATCTTAGGGAAGCTCTAGGT
TTTTTCTTAATCTGCAATGTCATTTAGACATTAGAGCAAGCAGAGATGAT
TTGCTCCTTCTCTTAGGCAATCAGATTTTATTCTGGAAGACAACCGTTGT
GAGCCTTGAGAGGGTTTGCTGGAGGAGAAGGGATATTGACAGTGCTCTAC
CCAAACTGCAAGGCACACAGCTAGATCTTGTTCCCTCTGATGCATAGAAG
TGTCTGATGGTATTAGATGGCATTCTTGATGAGGACAGAATCTGAGGAAA
GGTTCCTGTACAGAAATGAAGTGCAGCTATACAACCTAGAAAGTATATAC
CATTGATCATTGTGAGCCTGATACAGAAAGCTTCCAAGTATTGGACCTAA
TGTATGATTGGCGAGACAGATTGAAGAGATTTTGTTTGTCCTGAATTCTC
TGCATATCTATGGATACATTGCCTCATCGCCAAGCCCGAGTGCGAATTTC
CTTGTGCTTACTCCATTCCCATATACCACCTTCTTCTCTTTTTTCTGTTG
CTCTGTTCTCTTTTTTCTTTGTGATCCTTCTCGCCCTTTGTCTCACCACA
TGCCTGATCCTTCCCTCTCTATTTTTCTTATTTTA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no076_f19.g1 MSMg01no076_f19.g1 CHROMAT_FILE:
MSMg01no076_f19.g1 PHD_FILE: MSMg01no076_f19.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 17:25:18 2005
         (293 letters)



>mm_chrY_1655808_1656500
          Length = 693

 Score =  311 bits (161), Expect = 2e-89
 Identities = 258/291 (88%), Gaps = 10/291 (3%)
 Strand = Plus / Minus

                                                                       
Query: 1   aacaattttggaccctatgaaagtaatggattgtccaaatgctcccggactgagaatctt 60
           ||||| ||||||||||||||||||||| ||||| ||||||||||| ||||||||||||||
Sbjct: 486 aacaagtttggaccctatgaaagtaatagattgcccaaatgctcctggactgagaatctt 427

                                                                       
Query: 61  agggaagct-ctaggttttttcttaatctgcaatgtcatttagacattagagcaagcaga 119
            ||||| || |||||  |||||||||||||||||| |||||||| ||| |||||||  ||
Sbjct: 426 ggggaa-ctgctagggattttcttaatctgcaatggcatttagatattggagcaagtgga 368

                                                                       
Query: 120 gatgatttgctccttctcttaggcaatcagattt-tattctggaagacaaccgttgtgag 178
           |||| |||||||||||| ||||||| |||||||| | |  |||||||||| | |||||||
Sbjct: 367 gatgctttgctccttcttttaggcactcagatttgtct--tggaagacaaactttgtgag 310

                                                                       
Query: 179 c-cttgagagggtttgctggaggagaagggatattgacagtgctctacccaaactgcaag 237
           |  |||||||||||||||||||||||||||||||||||||||||||| |||||||||| |
Sbjct: 309 catttgagagggtttgctggaggagaagggatattgacagtgctctaaccaaactgcatg 250

                                                              
Query: 238 gcacacagctagatctt-gttccctctgat-gcatagaagtgtctgatggt 286
           ||||||||||||| ||| |||||||||| | |||||||| | |||||||||
Sbjct: 249 gcacacagctaga-ctttgttccctctg-tagcatagaattttctgatggt 201


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: 6
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: 293
Length of database: 693
Length adjustment: 9
Effective length of query: 284
Effective length of database: 684
Effective search space:   194256
Effective search space used:   194256
X1: 7 (13.9 bits)
X2: 517 (999.5 bits)
X3: 517 (999.5 bits)
S1: 7 (14.4 bits)
S2: 7 (14.3 bits)