BAC Information

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BAC

Clone NameMSMg01-493H11
ChromosomeY (Build37)
Map Location 2,880,981 - 2,881,613
singlet/doubletsinglet
Overlap genenone
Upstream geneUbe1y1-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, LOC100039652
Downstream genenone
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-493H11.T7 (MSMg01no493_h11.b1)MSMg01-493H11.TJ (MSMg01no493_h11.g1)
ACCAG570979AG570980
length741753
length of high quality
(start - end)		619 (68 - 686)569 (77 - 645)
definitionCHROMAT_FILE: MSMg01no493_h11.b1 PHD_FILE: MSMg01no493_h11.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:18:00 2005CHROMAT_FILE: MSMg01no493_h11.g1 PHD_FILE: MSMg01no493_h11.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:18:01 2005
singlet/doubletsinglet---
BLAST hituniqueno hit data
sequence
NCTCAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCG
GAATTCAAGAAAGTACATAAACCAATCAAATATGGGGTATATATCTAAAT
AGAGATGTCAATACAGAAGAGTCTAAAATGGCTAAGGAGCACTTAAAGAT
AATAATAGTGGCACTTAAAGATCATAATTGTGCCACATCCCATGGGCAAT
AGATATTCTAATCAACACACTGCATCATAGGGCATAAAGAAAGATACTGC
ATGATTGCATTCCTCTAGTCACAGGTGCTACATACCTACACCCTTATATG
CACACACACACACACACACACACACTCACACATGCCTATCGGATATGCAA
GTGCATACAAATATATTTGTCTATTTATTTACTTGCTTGCTTACTTACTT
AGTTACTTACTTACTTACATTGTTTTAAATTTGTTGGGTAAGAACGATCT
GCATACACATAAATGAGTTTTAGCAAATTCATCCCTATCTTCTCTTCCTT
GAATTGTTCCCCATTTCTCCTGTATCAATTTTATCCTTAATTACATTTTC
ATTTTTGTATAGACGGCTGTGTAATGCCATGCCCCGATCAATCGCTGAGA
AGAGCCGTGCATGCCACGTGCAATCGCCATTATAAATCAGTATTTACATG
TTTCCATTGACACCTGCAATGGTGTAATGTTTGCCACATCTTTAACAGGG
GAAAAAGCCTCTCATGTTATACAGCACTGCCTAGAAATGTG

ATGACXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXACTCCTAGTCACTCCCATTCTCGG
GGTGTAATAGTGGGGTGATGGGCAAGCAATGAATCAGGAGCTGTCATGCC
ATATCAGGTGCTGAAACGTCACACTGCTGGTTATAAAAGCAGTGCCATTT
TCCCGGATCGGGATCTTCCTGAGAAGCAAGCAATAAAGCTCTTGCTGAGG
AAGATTCTGGTTTGTTGCATCTTTCTTGCTGGTCGAGCTGGACGCAATAA
GTGGTGCCAAAACCCGGGAACTGTCATCACACCGGCGCAAGGAAGATCCC
TCATTCACGGGGCAGAATCAGAACTGTGGGACAAAAGGCTCTACAAGATA
CGTACAATCTTGAAATTTCTCCAGAGTTAGAAGCCCTTTTGATTGTTTGC
ATGGCGATTACACTTTTCCTTTTGGTTTCGTTTTGTTTCCACCACTGGAA
CTGTTGACTGGTTCTTAGTCGCAGTCAGGCCTGGACAGCGCCTGGACAGC
AACCAATTTCAGGCCCGGTCAGGCCTGGACAGCGGCAGTATGGGAATCTC
CCATTCTATAGTAGTGGGCTTACGCTCAGTCCTGAAGCAGTGTGGCCTAA
AAATCGCCACTAAGACCTAAGAGGGATTTGTCAGAGAGATAGACCGTGGT
GCACCATGGNATGCTTGCTCATTGTCATTAACTGTCGCCTCTTGGGACAA
ACG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no493_h11.b1 MSMg01no493_h11.b1 CHROMAT_FILE:
MSMg01no493_h11.b1 PHD_FILE: MSMg01no493_h11.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 20:18:00 2005
         (619 letters)



>mm_chrY_2880781_2881798
          Length = 1018

 Score =  799 bits (413), Expect = 0.0
 Identities = 573/649 (88%), Gaps = 46/649 (7%)
 Strand = Plus / Plus

                                                                       
Query: 1   taaaccaatcaaatatggggtatatatctaaatagagatgtcaa-tacagaagagtctaa 59
           |||||||||||||||||||||||||||||||||||||||||||| | ||||||| |||||
Sbjct: 201 taaaccaatcaaatatggggtatatatctaaatagagatgtcaagt-cagaagattctaa 259

                                                                       
Query: 60  aatggctaaggagcacttaaagataataatagtggcacttaaagatcataattgtgccac 119
           |||||||||||||||||||||||||||||||||| ||||||||||||||||| |||||||
Sbjct: 260 aatggctaaggagcacttaaagataataatagtgccacttaaagatcataatagtgccac 319

                                                                       
Query: 120 atcccatgggcaatagatattctaatcaacacactgcatcatagggcataaagaaagata 179
           ||||||||| ||| ||||||||||||||| ||||||||||||||  |||| |||||||||
Sbjct: 320 atcccatggtcaa-agatattctaatcaatacactgcatcatagaacatatagaaagata 378

                                                                       
Query: 180 ctgcatgattgcattcctctagtcacaggtgctacatacctacacccttatatg------ 233
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||      
Sbjct: 379 ctgcatgattgcattcctctagtcacaggtgctacatacctacacccttatatgtacaca 438

                                                                       
Query: 234 cacacacac--acacacacacacacactcacacatgcctatcggatatgcaagtgcatac 291
           |||||||||  |||||||||||||||| |||||| |||||||||||||||| ||||||||
Sbjct: 439 cacacacacaaacacacacacacacacacacacacgcctatcggatatgcatgtgcatac 498

                                                                       
Query: 292 aaatatatttgtctatttatttacttgcttgcttacttacttagttacttacttacttac 351
           ||||||||||     ||||||||      |  ||||||||||| ||||||||||||||||
Sbjct: 499 aaatatattt-----tttattta------t--ttacttacttacttacttacttacttac 545

                                                                       
Query: 352 attgttttaaatttgttgggtaagaacgatctgcatacacataaatgagttttagcaaat 411
            ||||||||||||||||||||||||||  |||||||||| ||||||||||||||||||||
Sbjct: 546 tttgttttaaatttgttgggtaagaactttctgcatacatataaatgagttttagcaaat 605

                                                                       
Query: 412 tcatccctatcttctcttccttgaattgttccccatttctcctgtatcaattttatcctt 471
           |||||||||||||||| |||||||||||||||||||||||||||||||| || |||||||
Sbjct: 606 tcatccctatcttctcctccttgaattgttccccatttctcctgtatcacttctatcctt 665

                                                                       
Query: 472 aattacattttcatttttgtatagacggctgtgtaatgccat-------------gc--- 515
           |||||||||||||||||| ||||||| |||||||| ||||||             ||   
Sbjct: 666 aattacattttcatttttatatagacagctgtgtagtgccatttctcaagtaatcgcgtg 725

                                                                       
Query: 516 ----cc-cgatcaatcgctgagaagagccgtgcatgccacgtgcaatcgccattataaat 570
               || | | |||||||||||||||||  ||| ||||| ||||||||||||||||||||
Sbjct: 726 cgtgccacaagcaatcgctgagaagagct-tgcgtgccatgtgcaatcgccattataaat 784

                                                            
Query: 571 cagtatttacatgtttccattgacacctgcaatggtgtaatgtttgcca 619
           |||||||||||| ||||||||||||||| |||| |||||||||||||||
Sbjct: 785 cagtatttacatatttccattgacacctccaattgtgtaatgtttgcca 833


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: 34
Number of extensions: 4
Number of successful extensions: 4
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 619
Length of database: 1018
Length adjustment: 10
Effective length of query: 609
Effective length of database: 1008
Effective search space:   613872
Effective search space used:   613872
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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