BAC Information

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BAC

Clone NameMSMg01-389A18
ChromosomeY (Build37)
Map Location 2,795,534 - 2,795,987
singlet/doubletsinglet
Overlap genenone
Upstream geneLOC100039450, 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, LOC100039652
Downstream genenone
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-389A18.T7 (MSMg01no389_a18.b1)MSMg01-389A18.TJ (MSMg01no389_a18.g1)
ACCAG491395AG491396
length572760
length of high quality
(start - end)		---480 (86 - 565)
definitionCHROMAT_FILE: MSMg01no389_a18.b1 PHD_FILE: MSMg01no389_a18.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:32:31 2005CHROMAT_FILE: MSMg01no389_a18.g1 PHD_FILE: MSMg01no389_a18.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:32:31 2005
singlet/doublet---singlet
BLAST hitno hit dataplural
sequence
CCCGGGGGNNNNNNNNNNNNNNNNNTNTTTNNCCCCTAACACTCCATTTC
ACACATCCCAAATCATCATTCCCAATTCATATTTTCCTTCCAAAAAANTT
AAAATCCAAAGACTTAATTTNGATTCCGGGCCCATCCCCACCAATACCCA
ACTTCACATTTAAACCTCCACCCCAATCTTNTAATNNNGACTTTTTTAAA
GCCATTCCGAACCGAGGGGCTGGGGGCGGGGCAGACTGCGGGAAGACAAG
CAGACCGGCGCAAAGAACAAGACATAGAACAAAGAACCGGCGGGGCGGGC
GGGCGGGGGGGGGGGGCCAGGCGGGGGGGGGGGGCCCCNTNNNNNTNNNN
NNTTNNNTNTNNNNNTTTNNNNNTNNTNTTTNTNNTTNNTTNTNTTTTNN
NTTTTNTTTTNTTTTTNTTTTTNNTTNTNNNTNNTTTNTTNTTTTNTTNT
TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTNNTTTTTTNNNTTNTTNTN
TTTTNTNTTTTNNNAATATAAAACTTATTTATTAAAAGAAAAGAGGGNNA
NNTTNNNNNNTTCTTTCTTTTG

NCCCTTCTTCCCATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXACCCTGTATACCAGG
GTGGCGTCAAAATCAAAAATCTCCCTGCCTCTGCCTCCCAACGTCTGGGA
TTAAGGCATGTGCCACCAGTGACTGACCCAACTTAAAACTTGAGATAGGT
TCTCTCTGAATATGCAGCTCACCAATGCCACTACCTCAGCTAGCCAGCAA
GCTGTCTCCACCTACTCAGCACTGGTTGGCAGCCTGCATTTTAGAAGTGG
ATTCTAGGCCCCCACTTTTATTTTCAAGGAAAACATTTTACTAAAACAGC
CATCTCTCTAGCCTCTCTTCAAGGTTTGTTCTGTTGCTATAGACACTGCA
ATTTTTTGTTTGTTTGTCTTTTGTTTGTTTGTTTTCTTTTTCTATTTCTC
TAATCATGCCTAAGTTTAGGCTCCTAAAATGCTTAGTGGTGGTTTTGCTT
GTTTCCTTACAACAGCAAATTGGTTTTCTTGCTCACTTTACAATTTGCAG
TTAATTTTGACATAGGCTTATTGCTGTGTTTTGTTTCCTTTGGNTCTTTT
TTTTTTTTTTTTTTTTTTGGTAAATATGCCGGGGTTGTCGGNTTTTTGCG
GGNTTTTTGGTTTTGGTTTTCCCCCCCGGAAAACAAAATCCCTATCCTTT
TAAGGGGGGGTTTCTCCCTGGACATCATCCTTTGCTAAACCCTTTATTTT
TGTAACGGTG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no389_a18.g1 MSMg01no389_a18.g1 CHROMAT_FILE:
MSMg01no389_a18.g1 PHD_FILE: MSMg01no389_a18.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 23:32:31 2005
         (480 letters)



>mm_chrY_2795317_2796196
          Length = 880

 Score =  221 bits (114), Expect = 1e-61
 Identities = 380/492 (77%), Gaps = 59/492 (11%)
 Strand = Plus / Plus

                                                                       
Query: 1   accctgtataccagggtggcgtca-aaa-tcaaaaatctccctgcctctgcctcccaacg 58
           ||||| ||||||||||||||  || ||| ||| |||| ||||||| | | ||||  ||  
Sbjct: 218 accctttataccagggtggc--cacaaactcagaaatttccctgctttttcctcaaaa-- 273

                                                                       
Query: 59  tctg--gg-attaaggcatgtgccaccagtgactgacccaacttaaaacttgagataggt 115
            |||  || ||||||| ||||||||||| || | ||| |||||||||| |||||| ||| 
Sbjct: 274 -ctgcaggtattaaggaatgtgccaccactgtcagacacaacttaaaagttgagacagga 332

                                                                       
Query: 116 tctctctgaatatgcagctcaccaatgccacta-cctcagctagccagcaagctgtctcc 174
           | ||||||||| |||||||||| || ||||||| |||  |||||||||| | |||| |||
Sbjct: 333 tatctctgaatctgcagctcacaaacgccactagcct-ggctagccagccatctgtatcc 391

                                                                       
Query: 175 acctactcagcactggttggcagcctgca-ttttagaagtggattctaggccccca-ct- 231
           ||||||||||||||||   ||||  || | ||||| | ||||||||||| |||||| || 
Sbjct: 392 acctactcagcactggccagcagaatgtactttta-acgtggattctagacccccatctt 450

                                                                       
Query: 232 --tt---tat--tttcaaggaaaacattttactaaaacagccatctctctag-cctctct 283
             ||   |||  |||||||||||||| ||||| |||||| |||||||||||| || | ||
Sbjct: 451 aattccatataatttcaaggaaaacaatttaccaaaacaaccatctctctagacc-c-ct 508

                                                                       
Query: 284 t---caaggtttgttctgttgctatagacactgcaattttttgtttgtttgtcttttgtt 340
           |     || |||||||   |||| ||| |||| | | || || ||  ||           
Sbjct: 509 tgtg--agatttgttc---tgctgtagtcactacca-ttattattaatt----------- 551

                                                                       
Query: 341 tgtttgttttctttttctatttctctaatcatgcctaagtttaggctcctaaaatgctta 400
                      |||||||||| ||||||||||||||||||||||||||||||| || |||
Sbjct: 552 -----------tttttctattgctctaatcatgcctaagtttaggctcctaaagtgttta 600

                                                                       
Query: 401 gtggtggttttgcttgtttccttacaacagcaaattggttttcttgctcactttacaatt 460
           ||| |||||||||||| |||||||||| || ||||||||||||||||||| |||||| ||
Sbjct: 601 gtgctggttttgcttgcttccttacaatagaaaattggttttcttgctcagtttaca-tt 659

                       
Query: 461 -tgcagttaatt 471
            | |||||||||
Sbjct: 660 atacagttaatt 671


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: 5
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: 480
Length of database: 880
Length adjustment: 10
Effective length of query: 470
Effective length of database: 870
Effective search space:   408900
Effective search space used:   408900
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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