BAC Information

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BAC

Clone NameMSMg01-538M18
ChromosomeY (Build37)
Map Location 1,751,104 - 1,751,340
singlet/doubletsinglet
Overlap genenone
Upstream geneUsp9y, LOC100039278, EG667079, LOC667089, Rhoay-ps1, Zfy2, Ube1y1-ps2, LOC667137, LOC100039373, LOC100039381, LOC667143, LOC100039401
Downstream geneLOC100039430, 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 nameMSMg01-538M18.T7 (MSMg01no538_m18.b1)MSMg01-538M18.TJ (MSMg01no538_m18.g1)
ACCAG605440AG605441
length747761
length of high quality
(start - end)		643 (34 - 676)646 (63 - 708)
definitionCHROMAT_FILE: MSMg01no538_m18.b1 PHD_FILE: MSMg01no538_m18.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 21:17:32 2005CHROMAT_FILE: MSMg01no538_m18.g1 PHD_FILE: MSMg01no538_m18.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 21:17:32 2005
singlet/doublet---singlet
BLAST hitno hit dataunique
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTCAAAAACT
CCCCCACCCTTTTTCATAAGTCTCTACATCAAGATTTAGCCTCCTTCTGA
GCTGAAAACTGCCAGATAACTCTGCTTCAATGTGCTGATGACTTGCTCCT
TGCTTCAGCCACGGAGAGAGAATTCTGGCAGGGGACCAAGAGATTGCTAG
GCGAACTGGGTGAGTTGGGTTAATGGGCCTCTGCTAAAAAAGCCCAGCTA
TGTCACATAGAAGTAGTCTACTTTTGATATACTCTCCGGGATGGAAAACA
GTGGCTGACAGAGGCTAGAAAAAGGACTGTGACTCAAATACCAACACTGG
CTACTCCAAGACAGGTGAGAGAATTCTTAGGCATTGCTGGGTTCTGCAGA
CTTTGGAAACCTGGGTTTGCAACACTGGCTGCCCTCCTGTACCCCTTGAC
CAAGAAAAGTGGAGAATTCAGATGGACATCAGAACATCAGAAAGCCTTTG
AAAATATTAAGGAGGCCCTGCTGACTGTGCCAGCCTTGGCATTGCCAGAT
CTAACCAAACCCTGCATCCCTATGTTGATGAGAGGGCGTGGGGGCCAGAG
GAGTTCTTATTCAGGCTCTAGGGCCCTGGAAGAGGCTGGTAGCATATTCA
TCTAAGAAGCTGGACCCAGTGGCCAGGAGATGGCCCACATGTTTAAAGGC
TGTTGCTGCAGTAGCACTACTCATTAAGGATGCTGACNAATTAACTC

XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXACTCTAGGATCACAGAGAATAAAATTCTCCTTAATAAT
AATTGTTGAGATGAGTTTTCTCTAACACCAGAAAATAATCTGTCCTGGAG
CTGATTTTTTAAATTAGTTAATCAATCAACATCCCAAAACTAGTATTCCT
TCTCTTCTCTGCTCCCTGACTTCTCCTCCACTCTTGCTACCCCAATCCAC
TCTTCCTCAATTTTTCTACAGAAAAGAGATCTTCCATGATAACTCCTAGT
TTTGGCTATTGTAGTTGCACATCCACTTATATTGATGATAGACAGGCCTG
GCAGAATTTCATCCCATTGGCTATGGAAATAGAGCTAAGTGAAAGACAGG
CTATGTGAACAAATCTTAAAAAAAAATGTACCCTCATTAACAATAAACTC
TTTTTATCTCTCTTTTTTTTAATTAGGTATTTTCCTCATTTACATTTCCA
ATGCTATCCCAAAAGTCACCCATACCCATGCCCCCAATCCCCTACCCACC
CACTCCCCCTTTTTGGCCCTGGCGTTTCCCTGTACTGGAGCATATAAAGT
TTGCAAGTCCAAAGGGCCTCTCTTTCCTGTGATGGCTCACTAGGCCATCT
TTTGATACATATGCAGCTAGAGACAAGAGCTCTGGGGTACTGGTTATTTC
ATATTGTTGTTCCACCTATAGTGTTGCAGTTCCCTTTAGCTCCTTGGGTA
CTTTCTCTAGC
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no538_m18.g1 MSMg01no538_m18.g1 CHROMAT_FILE:
MSMg01no538_m18.g1 PHD_FILE: MSMg01no538_m18.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 21:17:32 2005
         (646 letters)



>mm_chrY_1750892_1751944
          Length = 1053

 Score =  192 bits (99), Expect = 1e-52
 Identities = 204/245 (83%), Gaps = 23/245 (9%)
 Strand = Plus / Minus

                                                                       
Query: 13  cagagaata-aaattctccttaataataattgt-tgagatgagttttctctaacaccaga 70
           ||||||||| |||  |||||||||||||||||| ||||||||||||||||||||||||||
Sbjct: 449 cagagaatacaaa-gctccttaataataattgtgtgagatgagttttctctaacaccaga 391

                                                                       
Query: 71  aaataatctgtcctggagctgattttt----taaattagttaatcaat-caacatcccaa 125
           ||| |||||| ||||||||  ||||||    ||||| | ||||||| | || ||| ||| 
Sbjct: 390 aaaaaatctggcctggagccaatttttcttttaaataa-ttaatcatttca-cattccag 333

                                                                       
Query: 126 aactagtattccttctcttctctgctccctgact-tc---tcctccactcttgctacccc 181
             ||||| |||||||||||||||||||  ||  | ||   |||||| ||| |||||||||
Sbjct: 332 tcctagttttccttctcttctctgctc--tg--tgtccactcctcccctcctgctacccc 277

                                                                       
Query: 182 aatccactcttcctcaatttttc-tacagaaaagag---atcttccatgataactcctag 237
           |||||||||||||||||||| || | ||||||||||   |||| |||||||||| || ||
Sbjct: 276 aatccactcttcctcaatttctcct-cagaaaagaggagatctcccatgataacacccag 218

                
Query: 238 ttttg 242
           |||||
Sbjct: 217 ttttg 213


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: 7
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: 646
Length of database: 1053
Length adjustment: 10
Effective length of query: 636
Effective length of database: 1043
Effective search space:   663348
Effective search space used:   663348
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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