BAC Information

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BAC

Clone NameMSMg01-536E04
ChromosomeY (Build37)
Map Location 2,870,367 - 2,871,013
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 nameMSMg01-536E04.T7 (MSMg01no536_e04.b1)MSMg01-536E04.TJ (MSMg01no536_e04.g1)
ACCAG603516AG603517
length745750
length of high quality
(start - end)		524 (50 - 573)653 (81 - 733)
definitionCHROMAT_FILE: MSMg01no536_e04.b1 PHD_FILE: MSMg01no536_e04.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 21:14:19 2005CHROMAT_FILE: MSMg01no536_e04.g1 PHD_FILE: MSMg01no536_e04.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 21:14:19 2005
singlet/doublet---singlet
BLAST hitno hit dataplural
sequence
GGTATCTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXC
GCGGAATTCTCACCTGAGGAATACCGAATGGCAGAGAAGCACTTGAACAA
ATGTTCAACATCCTTAATCATCAGGGAAATGCAACTCAAAACAACCCTGA
GATTCCACCTCACACCAGTCAGAATGGCTAAGATCAAAAATTCAGGTGAC
AGCAGATGCTGGCGAGGATGTGGAGAAAGAGGAACACTCCTCCATTGTTG
GTGGGAGTGCAGGCTTGTACAACCACTCTGGAAATCCTTCTGGCGGTTCC
TCAGAAAACTGAACATAGTACTACCGGAGGATCCAGCAATACCTCTCCTG
GGCATATATCCAGAAGATGCCCCAACTGGTAAGAAGGACACATGCTCCAC
TATGTTCATAGCAGCCTTATTTATAATAGCCAGAAGCTGGAAAGAACCTA
GATGCCTCTCAACAGAGGAATGGATACTGAAAATGCGGTACATCTACACA
ATGGAGTACTACTCAGCTATTAAAAAGCATGAATTTATGACATTCCTAAC
CAAATGGATGGACCTTGAGGGCATCATCCTGAGTGAGGTAACTCATTCAC
AAAGAAACTCACACAATATGTATTCACTGATAAGTGGATATTAGCCCCAA
ACCTAGGATACCCTAGATATACGATATAATTTGCTCAACTCATGAAACTC
ATGATGAATGAATACTGAAGTGCGTACACTATGCCTCCTCCTTAG

NNCCCGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTCCTTTGCTTTTCTCTTGTT
TCTCCAATTACTTCAGCAAGATTCTGCGTTGCCTTTTGTTTTGGAAGATT
CTCGAGGAATCCTAAATCCAGACTTTAGGGCAGTTATTAAAAATTCTTAC
TGGTCGTTCTGACAATGGTTTCCTCTTCTTTTTTTTTTTTTAATTAGATA
TTTTTTCATTTACATTTCCAATCCTATCCCAAAAGTCCTCCCATACCCAC
CTCAACCCCACCACCACCACCCCCATATCTTGTCGCTGGCATACCCCTGA
ACTAAGGCATATAAAGTTTGCAAGACTGATGAGCCTCTCTTTCCAATGAT
GTTCAACTAGTCCGTCTTCTGATACAAATGCAGCCAGAAATACGAGCACT
GATAAGTTGCTAGAAAAATGAGCTCTGCGGGGTTTCTTTAGTTCATATTG
TTGTTCCACTTATGGGATTGCAGACCCCTTTAGCTCCTTGGGAACCTTCT
CTACCTCCTCCATTTCGGTCCCTGTGATTCATCCAATAGCTGACTGTGAG
CATCCACTTCTGTGTTTGCTAGGCCATGGCATAGCCTCACAAGAGACAGC
TAAATCTGGGTCCTTCCAGCAAAATCTTGCCAGTGTATGCAATGGTGTCA
GTGTTTGGAGGCTGATTATGGGATGGATCCCTAGGAATGGCAGTCTCTAN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no536_e04.g1 MSMg01no536_e04.g1 CHROMAT_FILE:
MSMg01no536_e04.g1 PHD_FILE: MSMg01no536_e04.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 21:14:19 2005
         (653 letters)



>mm_chrY_2870164_2871216
          Length = 1053

 Score =  944 bits (488), Expect = 0.0
 Identities = 609/654 (93%), Gaps = 11/654 (1%)
 Strand = Plus / Plus

                                                                       
Query: 4   tttgcttttctcttgtttctccaattacttcagcaagattctgcgttgccttttgttttg 63
           ||||||||||||||||||||||||||||  || ||||||||||| || ||||||||||||
Sbjct: 204 tttgcttttctcttgtttctccaattacagcaccaagattctgcatttccttttgttttg 263

                                                                       
Query: 64  gaagattctcgaggaatcctaaatccagactttagggcagttattaaaaattcttactgg 123
           |||||||||||| |||||||||||||||||||||||||||||||| ||||||||| ||||
Sbjct: 264 gaagattctcgatgaatcctaaatccagactttagggcagttatttaaaattcttgctgg 323

                                                                       
Query: 124 tcgttctgacaatggtttcctcttctttttttttttttaattagatattttttcatttac 183
           | ||||||||||||||||||||       |||||||| |||||| |||||||||||||||
Sbjct: 324 tggttctgacaatggtttcctc------attttttttaaattaggtattttttcatttac 377

                                                                       
Query: 184 atttccaatcctatcccaaaagtcctcccatacccacctcaaccccacc---accaccac 240
           ||||||||| ||||||||||||||| |||||||||||||||||| ||||   ||||||||
Sbjct: 378 atttccaatactatcccaaaagtccccccatacccacctcaaccacacccctaccaccac 437

                                                                       
Query: 241 ccccatatcttgtcgctggcatacccctgaactaaggcatataaagtttgcaagactgat 300
           | ||| |||||||| |||||||||||||||| ||||||||||||||||||||||||||||
Sbjct: 438 caccacatcttgtccctggcatacccctgaaataaggcatataaagtttgcaagactgat 497

                                                                       
Query: 301 gagcctctctttccaatgatgttcaactagtccgtcttctgatacaaatgcagccagaaa 360
           | | |||||||||||||||||  |||||||||| ||||||||||||| |||||| |||||
Sbjct: 498 ggggctctctttccaatgatgaccaactagtccatcttctgatacaactgcagctagaaa 557

                                                                       
Query: 361 tacgagcactgataagttgctagaaaaatgagctctgcg-gggtttctttagttcatatt 419
            | |||| |||||| |  |||||||||||||| |||| | ||||||||||||||||||||
Sbjct: 558 catgagctctgatatgcagctagaaaaatgagttctg-gagggtttctttagttcatatt 616

                                                                       
Query: 420 gttgttccacttatgggattgcagacccctttagctccttgggaaccttctctacctcct 479
           ||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||
Sbjct: 617 gttgttccacttatgggattgcagacccctttagctccttgggtaccttctctacctcct 676

                                                                       
Query: 480 ccatttcggtccctgtgattcatccaatagctgactgtgagcatccacttctgtgtttgc 539
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 677 ccatttcggtccctgtgattcatccaatagctgactgtgagcatccacttctgtgtttgc 736

                                                                       
Query: 540 taggccatggcatagcctcacaagagacagctaaatctgggtccttccagcaaaatcttg 599
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 737 taggccatggcatagcctcacaagagacagctaaatctgggtccttccagcaaaatcttg 796

                                                                 
Query: 600 ccagtgtatgcaatggtgtcagtgtttggaggctgattatgggatggatcccta 653
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 797 ccagtgtatgcaatggtgtcagtgtttggaggctgattatgggatggatcccta 850


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: 21
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: 653
Length of database: 1053
Length adjustment: 10
Effective length of query: 643
Effective length of database: 1043
Effective search space:   670649
Effective search space used:   670649
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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