BAC Information

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BAC

Clone NameMSMg01-525G04
ChromosomeY (Build37)
Map Location 1,655,815 - 1,656,283
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 nameMSMg01-525G04.T7 (MSMg01no525_g04.b1)MSMg01-525G04.TJ (MSMg01no525_g04.g1)
ACCAG595235AG595236
length723727
length of high quality
(start - end)
477 (63 - 539)469 (74 - 542)
definitionCHROMAT_FILE: MSMg01no525_g04.b1 PHD_FILE: MSMg01no525_g04.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:59:58 2005CHROMAT_FILE: MSMg01no525_g04.g1 PHD_FILE: MSMg01no525_g04.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:59:58 2005
singlet/doubletsinglet---
BLAST hitpluralno hit data
sequence
TXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATT
CAAACAATTTCGGACCCTATGAAAGTAATGGATTGTCCAAATGCTCCCGG
ACTGAGAATCTTGGGGAAGCTCTAGGTTTTTTCTTAATCTGCAATGTCAT
TTAGACATTAGAGCAAGCAGAGATGATTTGCTCCTTCTCTTAGGCAATCA
GATTTTATCCTGGAAGACAACCGTTGTGAGCCTTGAGAGGGTTTGCTGGA
GGAGAAGGGATATTGACAGTGCTCTACCCAACCTGCAAGGCACACAGCTA
GACCTTGTTCCCTCTGATGCATAGAAGTGTCTGATGGTATTAGATGGGAT
TCTTGATGAGGACAGAATCTGAGGAAAGGTTCCTGGTAGAGAAATGAAGT
GCAGTTATACAACCTAGAAAGTATATACCATTGATCATTGTGAGCCTGAA
ACAGAAAGCACCCAAGCATTGGACCTAATGTATGATTGGTGAGACAGATT
GAAGAGATTTCGTTTGCTTTGAATTCTCTGTATAGGCATGGATACATTGT
CTCATGGGAAGGGGGAGTGTGGATTCCCTGTGGTTACTAAAATAGAAGAA
GTTGTAAACAGTCTATGGAAATGCGGTTAGTCCAAGTGTATGTTGTGCAT
GAACTGCCTTTGTTCACAAATGCTTGACCCTCCCTTTCAGATTCCATAAG
ATATTTTAAGAAGAACACCCTAC
TGCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXAGAAAAAAGACCAGTGGTGTGGGTAGC
AGCAAAGTTATTGAGTCTCAAAGACAACAGATACCGTGGCTGAATATTCC
AACTACAACAACTAGGTAACATTGGTTCTACACTTAGCATGCCGTTTCTA
GAAAAAAAAATTAAATAATTAAGCCATGTTTCCTCTGAACCTGACATGTT
ACTATCACAAATGAAAGAAGGATCCATGATCACATGAATATGAAAGGGGC
ATGAAGCAGCAAAATTGTTCAACTTATTGGCAGCTAGTCAGCATTAACAC
AAGAAGGGACAAAGACAATAAACAGCTTTGAAGACATGTCCAAATGACCA
CGTTCATTTACAAGTTTTTTACCCATTCCATGCACATCCATTGATTGATT
AACTCATTGATTAAAGCCCTCAGGTTCCAATCACTTTTCAGAGAGCATAT
TGTACTACCTATGAACATTGTACTGTGGACCTAAGCCTTCATCAAAGACC
CATGACTGACATTTCAAAACAATTTATCCTCTTAACTCTTTATTTGAAAC
AAAGTGATAGGATCCATCTATCTCTTCATGGATATCTCCGTTTTGCTCAT
AAAGAACAAATAATGCATTGTATGCTCACGATATTGATTACCTTATTTTG
CATTTTAAACCCATAGGTTCTTGCCAG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no525_g04.b1 MSMg01no525_g04.b1 CHROMAT_FILE:
MSMg01no525_g04.b1 PHD_FILE: MSMg01no525_g04.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 20:59:58 2005
         (477 letters)



>mm_chrY_1655615_1656486
          Length = 872

 Score =  416 bits (215), Expect = e-120
 Identities = 413/481 (85%), Gaps = 19/481 (3%)
 Strand = Plus / Minus

                                                                       
Query: 1   gaccctatgaaagtaatggattgtccaaatgctcccggactgagaatcttggggaagct- 59
           ||||||||||||||||| ||||| ||||||||||| |||||||||||||||||||| || 
Sbjct: 669 gaccctatgaaagtaatagattgcccaaatgctcctggactgagaatcttggggaa-ctg 611

                                                                       
Query: 60  ctaggttttttcttaatctgcaatgtcatttagacattagagcaagcagagatgatttgc 119
           |||||  |||||||||||||||||| |||||||| ||| |||||||  |||||| |||||
Sbjct: 610 ctagggattttcttaatctgcaatggcatttagatattggagcaagtggagatgctttgc 551

                                                                       
Query: 120 tccttctcttaggcaatcagattttatcctggaagacaaccgttgtgagc-cttgagagg 178
           ||||||| ||||||| ||||| ||| || |||||||||| | ||||||||  ||||||||
Sbjct: 550 tccttcttttaggcactcaga-tttgtcttggaagacaaactttgtgagcatttgagagg 492

                                                                       
Query: 179 gtttgctggaggagaagggatattgacagtgctctacccaacctgcaaggcacacagcta 238
           |||||||||||||||||||||||||||||||||||| |||| ||||| ||||||||||||
Sbjct: 491 gtttgctggaggagaagggatattgacagtgctctaaccaaactgcatggcacacagcta 432

                                                                       
Query: 239 gaccttgttccctctgat-gcatagaagtgtctgatggtattag-atgggattcttgatg 296
           ||| |||||||||||| | |||||||| | ||||||||| || | |||  || |||| ||
Sbjct: 431 gactttgttccctctg-tagcatagaattttctgatggtgtt-gcatg--atccttgctg 376

                                                                       
Query: 297 aggacagaatctgaggaaaggttcctggtagagaaa-tgaagtgcagttatacaacctag 355
           ||||||| |||||||| ||| |||| |||||| ||| || |||||||||||||||  |||
Sbjct: 375 aggacaggatctgaggcaagtttccaggtaga-aaactgtagtgcagttatacaaggtag 317

                                                                       
Query: 356 -aaagtatataccattgatcattgtgagcctgaaacagaaagcacccaag-cattggacc 413
            ||| |||| |||||| |||   ||||||||||| | || |||||  | | |||||||||
Sbjct: 316 caaa-tataaaccattaatc---gtgagcctgaagctgagagcactga-gacattggacc 262

                                                                       
Query: 414 taatgtatgattggtgagacagattgaagagatttcgtttgctttgaattctctgtatag 473
           ||||| || |||| |||||||  ||||||| |||| ||||| ||||||||||||||||||
Sbjct: 261 taatgcataattgctgagacactttgaagacattttgtttgttttgaattctctgtatag 202

            
Query: 474 g 474
           |
Sbjct: 201 g 201


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: 477
Length of database: 872
Length adjustment: 10
Effective length of query: 467
Effective length of database: 862
Effective search space:   402554
Effective search space used:   402554
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)