BAC Information

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BAC

Clone NameMSMg01-396F19
ChromosomeY (Build37)
Map Location 1,655,846 - 1,656,259
singlet/doubletsinglet
Overlap genenone
Upstream geneUsp9y, LOC100039278, EG667079, LOC667089, Rhoay-ps1, Zfy2, Ube1y1-ps2, LOC667137, LOC100039373, LOC100039381, LOC667143
Downstream geneLOC100039401, LOC100039430, 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 nameMSMg01-396F19.T7 (MSMg01no396_f19.b1)MSMg01-396F19.TJ (MSMg01no396_f19.g1)
ACCAG496958AG496959
length738750
length of high quality
(start - end)		422 (62 - 483)449 (68 - 516)
definitionCHROMAT_FILE: MSMg01no396_f19.b1 PHD_FILE: MSMg01no396_f19.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:08:28 2005CHROMAT_FILE: MSMg01no396_f19.g1 PHD_FILE: MSMg01no396_f19.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:08:28 2005
singlet/doubletsinglet---
BLAST hituniqueno hit data
sequence
ATCTCGTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTCA
AAACAATCCAAATCTCTTCAATCTGTCTCACCAATCATACATTAGGTCCA
ATGCTTGGGTGCTTTCTGTTTCAGGCTCACAATGATCAATGGTATATACT
TTCTAGGTTGTATAACAGCACTTCATTTCTCTACAGGAACCTTTCCTCAG
ATTCTGTCCTCATCAAGAATCCCATCTAATACCATCAGACACTTCTATGC
ATCAGAGGGAACAAGGTCTAGCTGTGTGCCTTGCAGGTTGGGTAGAGCAC
TGTCAATATCCCTTCTCCTCCAGCAAACCCTCTCAAGGCTCACAACGGTT
GTCTTCCAGAATAAAATCTGATTGCCTAAGAGAAGGAGCAAATCATCTCT
GCTTGCTCTAATGTCTAAATGACATTGCAGATTAAGAAAAAACCTAGAGC
TTCCCTAAGATTCTCAGTCCGGGAGCATTTGGACAATCCATTACTTTCAT
AGGGTCAAAAATTGTTTGATTCTACAGACCAATGATTGTCCCATTATAAG
CAACTTTCCAGCAGGTAGCAGCAGCTCCACTGTTGTCTCCAAGGCAGGTA
ACAAAAACAACCGAAAAAGAAGGGAATTGTCCTGGCCCACCAAGGGAATT
TGGTTTTGGGGGAAGGGGCAATTAATGTTTGAAAACCGTCTCGTTGAAGG
GTCCCCCCAACCACCCCTTGTAAAACAAAAGAATTCCN

GTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXAAGGCCCATATCTAAACATAAAAAAAAAAAAAC
AATAGACAGCAAACGAGTAGGAAACATTAAACTAAATGAAACAATCCCAT
TAAAATCAGGGACTAGACAAGGCTGCCCACTTTCTTCATACCTATTGAAT
ATAGTAGTTGAAGTCCTAACCAGAGCAATTAGACAACAAAAGGAAAACAA
ATGAATACAAATTGGAAAGGAAGAAGTCAAAATATCACTATTTCCAGAAT
ATATGATAGCATGTATCAGTGACCCAAAAATGTACCAGAGAAATCGTAAC
CATATATATGACTTCAGTGCAGTAGGTGAATATAAAATTAACTCAAACAT
ATCAGTGACCTTTCTCTACTCAAAGGAAAAAGAGGATGAGAAAGAAATTA
GGGAAAAATCACCCTTCACAATACTCACAAATAATATAAAATAGCTTGGT
GTGACTCTAACTTAGAAAGTGAAAGATATATATGATAAAAACTTCATGTC
TCTTGAGAAAGAAATGAAACAAGATCTCATAACATGGAATGAACTTCCAT
GCTCTTGCATTGTAAGGATATTATAGTAAAATGGGCTGTCCGGCCAAAGA
GTTTAAAATTCAATAAATCCCCCTCAAATCCACCTCCTTTTTTTTTGGGT
AAAAAGGGCGTTTACAAATCCCCTGGGATTGTAAATAAAAAAACAACAAN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no396_f19.b1 MSMg01no396_f19.b1 CHROMAT_FILE:
MSMg01no396_f19.b1 PHD_FILE: MSMg01no396_f19.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:08:28 2005
         (422 letters)



>mm_chrY_1655643_1656460
          Length = 818

 Score =  323 bits (167), Expect = 1e-92
 Identities = 360/427 (84%), Gaps = 22/427 (5%)
 Strand = Plus / Plus

                                                                       
Query: 4   tcttcaatctgtctcaccaatcatacattaggtccaatg-cttgggtgctttctgtttca 62
           |||||||  ||||||| |||| || |||||||||||||| | |  ||||| || | ||||
Sbjct: 204 tcttcaaagtgtctcagcaattatgcattaggtccaatgtc-tcagtgctctcagcttca 262

                                                                       
Query: 63  ggctcacaatgatcaatggtatatacttt-ctaggttgtataacagcacttca-tttctc 120
           |||||||   ||| |||||| |||| ||| |||  ||||||||| ||||| || ||| ||
Sbjct: 263 ggctcac---gattaatggtttata-tttgctaccttgtataactgcactacagttt-tc 317

                                                                       
Query: 121 ta-caggaacctttcctcagattctgtcctcatcaagaatcccat-ctaataccatcaga 178
           || | |||| ||| |||||||| ||||||||| |||| ||  ||| | || |||||||||
Sbjct: 318 tacctggaaacttgcctcagatcctgtcctcagcaaggat--catgc-aacaccatcaga 374

                                                                       
Query: 179 cacttctatgc-atcagagggaacaaggtctagctgtgtgccttgcaggttgggtagagc 237
            | |||||||| | |||||||||||| ||||||||||||||| ||||| |||| ||||||
Sbjct: 375 aaattctatgcta-cagagggaacaaagtctagctgtgtgccatgcagtttggttagagc 433

                                                                       
Query: 238 actgtcaatatcccttctcctccagcaaaccctctcaag-gctcacaacggttgtcttcc 296
           ||||||||||||||||||||||||||||||||||||||  |||||||| | |||||||||
Sbjct: 434 actgtcaatatcccttctcctccagcaaaccctctcaaatgctcacaaagtttgtcttcc 493

                                                                       
Query: 297 agaata-aaatctgattgcctaagagaaggagcaaatcatctctgcttgctctaatgtct 355
           |  | | |||||||| ||||||| |||||||||||| ||||||  ||||||| ||| |||
Sbjct: 494 a--agacaaatctgagtgcctaaaagaaggagcaaagcatctccacttgctccaatatct 551

                                                                       
Query: 356 aaatgacattgcagattaagaaaaaacctag-agcttccctaagattctcagtccgggag 414
           ||||| ||||||||||||||||||  ||||| || ||||| |||||||||||||| ||||
Sbjct: 552 aaatgccattgcagattaagaaaatccctagcag-ttccccaagattctcagtccaggag 610

                  
Query: 415 catttgg 421
           |||||||
Sbjct: 611 catttgg 617


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: 422
Length of database: 818
Length adjustment: 9
Effective length of query: 413
Effective length of database: 809
Effective search space:   334117
Effective search space used:   334117
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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