BAC Information

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BAC

Clone NameMSMg01-074N06
ChromosomeY (Build37)
Map Location 1,712,216 - 1,712,885
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 nameMSMg01-074N06.T7 (MSMg01no074_n06.b1)MSMg01-074N06.TJ (MSMg01no074_n06.g1)
ACCAG297791AG297792
length704737
length of high quality
(start - end)
656 (49 - 704)345 (75 - 419)
definitionCHROMAT_FILE: MSMg01no074_n06.b1 PHD_FILE: MSMg01no074_n06.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:23:19 2005CHROMAT_FILE: MSMg01no074_n06.g1 PHD_FILE: MSMg01no074_n06.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:23:19 2005
singlet/doubletsinglet---
BLAST hitpluralno hit data
sequence
CCCCTCATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCG
CGGAATTCTTGTGAGATGATGTCATCACAGAGGGATCCAATGGGCTAGAA
AGAGAAAAGAGGGAATCAAACTCCCTTTCATAATTAAACCTTTTCTATAA
CAGCATTATTAAATTATTTTTATATGTAGGTCATATCCCTCCTGACCCAT
TCAATTTATTCCAAATATATTCACACCTGGGGATTAATCTTCAGAAAATT
ATTTTGGGGAAAAACATGTGATTATTTCAACATCTATAGTAGTGTGGGGG
CATTATTCTCCCTACATCATGTACACTTAAGATCTTTAGATACCTCCTTC
CCTGTGATAGCCTTGCAGCTCACTGAGTGACATGTGCATTTGATGATAAA
TGATACACAAACTTTGAAGCACCTTACCATATCCTGTCACTCATATCATG
TTCAACATAGCAAGAACCACAAGTGAGTTGAAAAATACAAATACATTTTT
TAGTGTCTTGAAGCTAAAATCCCCAAATTAATCAAAATATTATTTGGACT
CTGTTACTTTAAACCAGTGTTTTATTAAGTGTACAAGTCGCAGGCCTTTT
CTGTGAACCTTTGCACAGGTTTACAGTGTCCTTTTACCATCTTCATCCTC
CCCACTATCCTCCATTGCTATCAGATCTCCCCCCTCCTGCTGCGCTTACT
CTTC
CAATGCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXCAAGCCCAGGATCCGCCCAAGGACTA
CCTAGAATATTGGTGAAGGACAGGGAGCAAAGTTGGATATTGCTTAGGTA
TTTGCCAAGTCATTACTTGGAGGCACTTATAATAAAACAACATTGAAAGA
AGTCACAAAGATTCAATCACTTACTAATTTAAGGACAAGTTTGATGCATT
TTTTCCAGGATGGTATGTTCCTAAAGACTTAGTTTCCATGAACTTTTTGA
CTAGGGACTGTGTCTAAATATTTAGGACTGTCATGGGAGTCACTACTGGG
GTTTGTGTTCCAATGGCTGGTGTGCGTTTGTGTGTGGGTGTGTGAGTGCG
TGTGTGTTTGTGTGAATGTTGTTTATAATTTTNATTATATTTTATATTAT
TATTATTATTTATTATAATTTTTTTTAATTATTTTATTTTTTTTTATTAT
TAAAATTTATTTTATATTATTTATTATTTTTTTATATATATTAAATAAAA
TAATTAATTTATATTTAATATTAAAAAAATATATTATTTTTAAACTATAT
TCTACACCTTTCCCTATCACCTTCTTATTTTCCCAATTAACTCTNTTCCN
TNCCGCCCCCCCTCCCCTCCCCCCCCCTTCTTTCTCCCCCCTCTTCCCCC
CCCTCCCCTCCTCTTTTCGCCTTCCTTCTCCCCTCTC
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no074_n06.b1 MSMg01no074_n06.b1 CHROMAT_FILE:
MSMg01no074_n06.b1 PHD_FILE: MSMg01no074_n06.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 17:23:19 2005
         (656 letters)



>mm_chrY_1712011_1713067
          Length = 1057

 Score =  466 bits (241), Expect = e-135
 Identities = 563/691 (81%), Gaps = 61/691 (8%)
 Strand = Plus / Plus

                                                                       
Query: 6   aattcttgtgagatgatgtcatcacagag-ggatccaatgggctagaaagagaaaagagg 64
           ||||||||||||||| ||||||| || |  ||||||||||||||||||||| ||||||||
Sbjct: 206 aattcttgtgagatgttgtcatctcataacggatccaatgggctagaaagacaaaagagg 265

                                                                       
Query: 65  gaatcaaactccctttcataattaaaccttttctataacagcattattaaatt-attttt 123
           |   |||||||||||||||||||||||||||||||||||||||| ||||| || ||||||
Sbjct: 266 gcggcaaactccctttcataattaaaccttttctataacagcataattaa-ttgattttt 324

                                                                       
Query: 124 atatgtaggtcatatccctcctgacccattcaatttattc--caaa-tatattcacacct 180
           || |||||| |||||||||||||||||| ||||   ||||  |||| |||||| ||||||
Sbjct: 325 atttgtaggccatatccctcctgacccaatcaa---attctacaaaatatatttacacct 381

                                                                       
Query: 181 ggggattaatcttcagaaaatta-ttttggggaa--------aaaca-----tg----tg 222
           ||  ||||||||||||||||||  ||||||||||        |||||     ||    ||
Sbjct: 382 ggaaattaatcttcagaaaattccttttggggaatcacattcaaacaaaagatgaaggtg 441

                                                                       
Query: 223 attatttcaacatctatagtagtgtgggggcattattctccctacatcatgtacacttaa 282
           | |||||||||| ||||||| ||||||  | |||||||| ||||| |||||||| |||||
Sbjct: 442 aatatttcaacagctatagttgtgtggcagaattattcttcctacgtcatgtacccttaa 501

                                                                       
Query: 283 gatctttagatacctcct---tccctgtga--tagcct--tgcagctcactgagtgacat 335
           ||||| ||| |||||  |   || ||   |  || |||  |  |||||||||||||||||
Sbjct: 502 gatctctagctacctagtagctcact---agcta-cctaat--agctcactgagtgacat 555

                                                                       
Query: 336 gtgcatttgatgataaatgatacacaaa--ctttgaagcaccttaccatatcctg-tca- 391
           |||  ||||||||| ||||||| |||||  ||  |||||||||| ||||||| || ||| 
Sbjct: 556 gtgtttttgatgattaatgatatacaaagact--gaagcaccttgccatatc-tggtcaa 612

                                                                       
Query: 392 ctcatatcatgttcaacatagcaagaaccacaagtgagttgaaaaatacaaatacatttt 451
           | ||||||| | |||| | ||||| | ||||| |||||| | |||||| ||||| |||||
Sbjct: 613 c-catatcaagctcaaaagagcaacatccacatgtgagtagcaaaatataaataaatttt 671

                                                                       
Query: 452 ttagtgtcttgaagctaaaatccccaaattaatcaaaatattatttggactctgttactt 511
            |||||||||||||||||||||||||  |||||||||| ||||||| |||||||||||||
Sbjct: 672 gtagtgtcttgaagctaaaatccccagtttaatcaaaacattatttagactctgttactt 731

                                                                       
Query: 512 ta-aaccagtgt--tttattaagtgtacaagtcgcaggccttttct-gtgaaccttt--g 565
           || ||| |||||  ||||   |||||||||||| | ||  |||| | ||||  ||||  |
Sbjct: 732 tataac-agtgtgcttta---agtgtacaagtcaccggg-ttttgttgtga--ctttttg 784

                                                                       
Query: 566 cacaggtttacagtgtccttttaccatcttcatcctccccactatcctccattgctatca 625
           || ||||||| ||||||||||||||||||||| || ||||||||| ||||||| ||||| 
Sbjct: 785 cataggtttatagtgtccttttaccatcttcacccaccccactattctccatttctatct 844

                                          
Query: 626 gatctcccccctcctgctgcgcttactcttc 656
           | || |||||||  |||||| ||||||||||
Sbjct: 845 gctcacccccctgatgctgcccttactcttc 875


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: 10
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: 656
Length of database: 1057
Length adjustment: 10
Effective length of query: 646
Effective length of database: 1047
Effective search space:   676362
Effective search space used:   676362
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)