BAC Information

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BAC

Clone NameMSMg01-484M01
ChromosomeY (Build37)
Map Location 1,232,671 - 1,233,188
singlet/doubletsinglet
Overlap genenone
Upstream geneJarid1d, Eif2s3y, Tspy-ps, Uty, Ddx3y, LOC100042763, LOC385246, Usp9y, LOC100039278, EG667079
Downstream geneLOC667089, Rhoay-ps1, Zfy2, Ube1y1-ps2, LOC667137, LOC100039373, LOC100039381, LOC667143, LOC100039401, LOC100039430, Vmn2r-ps137, LOC100039450, LOC547210, Ube1y1-ps1, Sry, LOC100042840, LOC100042849, LOC620228, LOC667181, Rbmy1a1, LOC667189, LOC100042874, LOC667194, LOC100042881, LOC667201, LOC100039546
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-484M01.T7 (MSMg01no484_m01.b1)MSMg01-484M01.TJ (MSMg01no484_m01.g1)
ACCAG564364AG564365
length765712
length of high quality
(start - end)		169 (77 - 245)635 (76 - 710)
definitionCHROMAT_FILE: MSMg01no484_m01.b1 PHD_FILE: MSMg01no484_m01.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:06:26 2005CHROMAT_FILE: MSMg01no484_m01.g1 PHD_FILE: MSMg01no484_m01.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:06:26 2005
singlet/doublet---singlet
BLAST hitno hit dataplural
sequence
NNAAGATCTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XCGCGGAATTCTGTGGTAACATTGAATTGAAATGTCAGTCATGGGTCTTT
GATGAAGGCTTTGGTCCACAGTACAATGTTCATAGGTAGTACAATATGCT
CTCTGAAAAGTGATTGGAAACTGAGGGCTTTAATCAATGAGTTAATCAAT
CAATGGATGTGCATGGAATGGGTAAAAAACTTGTAAATGAACNNNGTGGT
CNATNNTTGGGACAATGGGTCCCTTTCCCNCNNNNNNNNNNNNNNNNNNN
NNNNNNTTNNNNCNNCNNCCNNCCCCNNTCCCTTTCCTCTTCCCTTTTTT
TTTTTTTCCTTCTTCTTTTTTCTCCCCTTTCCTTCCCCCCTTTTCTTTTT
TTCTTTTTTCTCTTTTTTTTTTTTTCTCTCCCCCTTTCTTTCCTTTTCCT
TTTCTTTCTCTTTTCTCCCCCTCCCCCCTTTTTTTTTTTTTCCTCTTCTT
CCCCTCTTTTTTTCTTTTTCTTTTTTTTTTTCCTTCCTCCCCCTCCCCTT
TTTTTCCTTTTTTTTCNCTCTCTCTTTTTTTTTTTTTTTCCCCTCTCCTT
TCTTTTTTTCCCTCTCCCCCTCTCTTTTCCCTCCCCCTCCTCCTTTTCCT
TTTCCTCCTCTTNCTCCCTTCTTTCTTTCTTTTTCTTCTTTTTTTTCTCC
CCCCCCCTCTTCTTCNTCTTCCTTTCCTCTCCCCCNCTCCTTCCTCCCTT
TTCTTTTTTCTCTTN

CGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXTTGTTTGCTTTTCTCTTGTTTCTCC
AATTACAGCACCAAGATTCTTCATTTCCTTTTGTTTTGGAAGATTCTCAA
GGAATCTTAAATCCAGACTTTAGGGCAGTTATTTAAAATTCACACCTGGG
GATTAATCTTCAGAAAATTATTTTTGGGAAAAACATGTGATTATTTCAAC
ATCTATAGTAGTGTGGGGGCATTATTCTCCCTACGTCATGTACACTTAAG
ATCTTTAGATACCTCCTTCCCTGTGATAGCCTTGCAGCTCACTGAGTGAC
ATGTGCATTTGATGATAAATGATACACAAACTTTGAAGCACCTTGCCATA
TCCTGTCACCCATATCATGTTCAACATAGCAAGAACCACAAGTGAGTTGA
AAAATACAAATATATTTTTTAGTGTCTTGAAGCTATAATCCCCAAATTAA
TCAAAATATTATTTGGACTCTGTTACTTTATACCAGTGTTTTTTTTAAGT
GTACAAGTCGCAGGCCTTTTCTGTGACCCTTTGCACAGGTTTACAGTGTC
CTTTTACCATCTTCATCCTCCCCACTATCCTCCATTGCTATCAGATCTCC
CCCCTCCTGCTGCGCTTACTCTTCCAAAATACCTCCTATTTTTGGTTGGA
ACATGAAAAATA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no484_m01.g1 MSMg01no484_m01.g1 CHROMAT_FILE:
MSMg01no484_m01.g1 PHD_FILE: MSMg01no484_m01.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 20:06:26 2005
         (635 letters)



>mm_chrY_1232237_1233277
          Length = 1041

 Score =  333 bits (172), Expect = 3e-95
 Identities = 429/538 (79%), Gaps = 58/538 (10%)
 Strand = Plus / Minus

                                                                       
Query: 113 attcacacctggggattaatcttcagaaaattatttttggg-aaaaacat---------- 161
           ||||||||||||  ||||||||||||||||||| ||||||| ||| ||||          
Sbjct: 952 attcacacctggaaattaatcttcagaaaattacttttgggcaaacacattcaaatcaga 893

                                                                       
Query: 162 -------gtgattatttcaacatctatagtagtgtgggggcattatt-ctccctacgtca 213
                  | || |||||||||||||||||||||||| |||||||||| || ||||| |||
Sbjct: 892 gacgagggagaatatttcaacatctatagtagtgtgagggcattattcct-cctacctca 834

                                                                       
Query: 214 tgtacacttaagatctttagatacctccttccctgt-gatagccttgcagctcactgagt 272
           ||||| ||||||      || ||||||||||||||| | ||| || ||||||||| ||||
Sbjct: 833 tgtacccttaag------agctacctccttccctgtag-tagtctagcagctcacggagt 781

                                                                       
Query: 273 gacatgtg--catttgatgataaatgatacacaa--actttgaagcaccttgccatatcc 328
           ||||||||  |  |||||||| ||||||| ||||  ||   |||||||||||||||||||
Sbjct: 780 gacatgtgttc--ttgatgattaatgatatacaaagac--ggaagcaccttgccatatcc 725

                                                                       
Query: 329 tgtcacccatatcatgttcaacatagcaagaaccacaagtgagttgaaaaatacaaatat 388
           |||||||||||||| | |||| ||| ||| | ||||| |||| | |||||||||||||| 
Sbjct: 724 tgtcacccatatcaagctcaaaataacaatagccacatgtgaatagaaaaatacaaata- 666

                                                                       
Query: 389 attttt-tagtgt--cttgaagctataatccccaaattaatcaaaatattattt-ggact 444
           |  ||| |||| |  |||||||||| || |||||| |||||||||||||||||| || ||
Sbjct: 665 agctttatagtctttcttgaagctaaaagccccaatttaatcaaaatattatttagg-ct 607

                                                                       
Query: 445 ctgttactttataccagtgt--tttttttaagtgtacaagtcgcaggccttt-tctgtga 501
           ||||| |||||||||| |||  |||    |||||||||| || ||||  ||| | |||| 
Sbjct: 606 ctgtttctttataccaatgtgcttt----aagtgtacaaatctcagggatttgt-tgtgg 552

                                                                       
Query: 502 ccctttgcacaggtttacagtgtccttttaccatcttcatcctccccactatcctccatt 561
           | |||| |||||||||| |||||||  | ||||||||||||||||| |||||||||||||
Sbjct: 551 ctctttacacaggtttatagtgtcccataaccatcttcatcctcccaactatcctccatt 492

                                                                     
Query: 562 gctatcagatct-cccccc------tcctgctgcgcttactcttccaaaatacctcct 612
            | ||| | | | ||||||      | ||||||| |||||||||||||||||||||||
Sbjct: 491 tccatctgtt-tacccccccaaccttgctgctgcccttactcttccaaaatacctcct 435


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: 6
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: 635
Length of database: 1041
Length adjustment: 10
Effective length of query: 625
Effective length of database: 1031
Effective search space:   644375
Effective search space used:   644375
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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