BAC Information

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BAC

Clone NameMSMg01-072K05
ChromosomeY (Build37)
Map Location 1,655,942 - 1,656,467
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 nameMSMg01-072K05.T7 (MSMg01no072_k05.b1)MSMg01-072K05.TJ (MSMg01no072_k05.g1)
ACCAG296133AG296134
length675675
length of high quality
(start - end)		567 (65 - 631)535 (76 - 610)
definitionCHROMAT_FILE: MSMg01no072_k05.b1 PHD_FILE: MSMg01no072_k05.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:20:26 2005CHROMAT_FILE: MSMg01no072_k05.g1 PHD_FILE: MSMg01no072_k05.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:20:26 2005
singlet/doublet---singlet
BLAST hitno hit dataunique
sequence
TTATCATAATTTGCGGCGCTAAACGACTCCTATATTCAGAGGATCCGCGG
AATTAGAAAAATACCAGTGGTGTGGGTAGCAGCAAAGTTCTTGAGTCTCA
AAGACAACAGATACCGTGGCTGAATATTCCAACTACAACAACTAGGTAAC
ATTGGTTCTACACTTAGCATGCCGTTTCTAGAAAAAAAAATTAAAGAATT
AAGCCATGTTTCCTCTGAACCTGACATGTTACTATCACAAATGAAAGAAG
GATCCATGATCACATGAATATGAAAGGGGCATGAAGCAGCAAAATTGTTC
AACTTATTGGCAGCTAGTCAGCATTAACACAAGAAGGGACAAAGACAATA
AACAGCTTTGAAGACATGTCCAAATGACCACGTTCATTTACAAGTTTTTT
ACCCATTCCATGCATATCCATTGATTGATTAACTCATTGATTAAAGCCCT
CAGGTTCCAATCACTTTTCAGAGAGCATATTGTACTACCTATGAACATTG
TACTGTGGACCAAAGCATTCATCAAAGACCCATGACTGACATTTCAAAAC
AATTTAACCACAGAATACTTTATTTGAAACAAAGTGATAGGATCCATCTA
TCTCTTCAAGGATATCTCCGTTTTTGTTCAATAAGAACAAAAATGCAATG
CATGTTCAGGATATTGATCACCTAA

NNCCGATGAAGTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXTCACAGCATGTAATTGCCCCCTCCC
ACCAGAAACCAAAGTCACCTTGGTGGGACCAGGAGCAGTTCACCTGCCTC
TTCAGGTTGCTTTTGTTTAACTGCCTTTGGAGACAGCAGTTGGAGCTGCT
GCTACCTGCTGGAAAGGTGGCTTCTAATGGGACAATTCATTGGTCTGTAG
AATTCAAACAATTTTGGACCCTATGAAAGTAATGGATTGTCCAAATGCTC
CCGGACTGAGAATCTTGGGGAAGCTCTAGGTTTTTTCTTAATCTGCAATG
TCATTTAGACATTAGAGCAAGCAGAGATGATTTGCTCCTTCTCTTAGGCA
ATCAGATTTTATCCTGGAAGACAACCGTTGTGAGCCTTGAGAGGGTTTGC
TGGAGGAGAAGGGATATTGACAGTGCTCTACCCAACCTGCAAGGCACACA
GCTAGACCTTGTTCCCTCTGATGCATAGAAGTGTCTGATGGTATTAGATG
GGATTCTTGATGAGGACAGAATCTGAGGAAAGGTTCCTGGTAGAGAAATG
AAGTGCAGTTATACAACCTAGAAAGTATATACCATTGATCATTGTGAGCC
TGAAACAGAAAGCACCCAAGCATTG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no072_k05.g1 MSMg01no072_k05.g1 CHROMAT_FILE:
MSMg01no072_k05.g1 PHD_FILE: MSMg01no072_k05.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 17:20:26 2005
         (535 letters)



>mm_chrY_1655660_1656592
          Length = 933

 Score =  491 bits (254), Expect = e-143
 Identities = 465/540 (86%), Gaps = 19/540 (3%)
 Strand = Plus / Minus

                                                                       
Query: 1   tcacagcatgtaattgccccctcccaccagaaaccaaagtcaccttggtgggaccaggag 60
           |||||||| |||| ||||  |||| | |||||  ||||||||||||||||||||||  | 
Sbjct: 808 tcacagcaggtaagtgcctgctcctaacagaagtcaaagtcaccttggtgggaccattat 749

                                                                       
Query: 61  cagttcacctgcctcttcaggttgcttttgtttaactgcctttggagacagcagttggag 120
            || |||||||||||       ||||||||||||  |||| |||||||||||||||||||
Sbjct: 748 aagatcacctgcctc-------tgcttttgtttaggtgccattggagacagcagttggag 696

                                                                       
Query: 121 ctgctgctacctgctggaaaggtggcttctaatgggacaattcattggtctgtagaattc 180
           | |||||||||||||||  || ||||||||||||| ||||| |||||||||| |||||||
Sbjct: 695 cagctgctacctgctggtgagttggcttctaatggaacaatgcattggtctgcagaattc 636

                                                                       
Query: 181 aaacaattttggaccctatgaaagtaatggattgtccaaatgctcccggactgagaatct 240
           |||||| ||||||||||||||||||||| ||||| ||||||||||| |||||||||||||
Sbjct: 635 aaacaagtttggaccctatgaaagtaatagattgcccaaatgctcctggactgagaatct 576

                                                                       
Query: 241 tggggaagct-ctaggttttttcttaatctgcaatgtcatttagacattagagcaagcag 299
           ||||||| || |||||  |||||||||||||||||| |||||||| ||| |||||||  |
Sbjct: 575 tggggaa-ctgctagggattttcttaatctgcaatggcatttagatattggagcaagtgg 517

                                                                       
Query: 300 agatgatttgctccttctcttaggcaatcagattttatcctggaagacaaccgttgtgag 359
           ||||| |||||||||||| ||||||| ||||| ||| || |||||||||| | |||||||
Sbjct: 516 agatgctttgctccttcttttaggcactcaga-tttgtcttggaagacaaactttgtgag 458

                                                                       
Query: 360 c-cttgagagggtttgctggaggagaagggatattgacagtgctctacccaacctgcaag 418
           |  |||||||||||||||||||||||||||||||||||||||||||| |||| ||||| |
Sbjct: 457 catttgagagggtttgctggaggagaagggatattgacagtgctctaaccaaactgcatg 398

                                                                       
Query: 419 gcacacagctagaccttgttccctctgat-gcatagaagtgtctgatggtattag-atgg 476
           |||||||||||||| |||||||||||| | |||||||| | ||||||||| || | ||| 
Sbjct: 397 gcacacagctagactttgttccctctg-tagcatagaattttctgatggtgtt-gcatg- 341

                                                                       
Query: 477 gattcttgatgaggacagaatctgaggaaaggttcctggtagagaaa-tgaagtgcagtt 535
            || |||| ||||||||| |||||||| ||| |||| |||||| ||| || |||||||||
Sbjct: 340 -atccttgctgaggacaggatctgaggcaagtttccaggtaga-aaactgtagtgcagtt 283


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: 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: 535
Length of database: 933
Length adjustment: 10
Effective length of query: 525
Effective length of database: 923
Effective search space:   484575
Effective search space used:   484575
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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