BAC Information

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BAC

Clone NameMSMg01-460G16
ChromosomeY (Build37)
Map Location 1,271,970 - 1,272,449
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 nameMSMg01-460G16.T7 (MSMg01no460_g16.b1)MSMg01-460G16.TJ (MSMg01no460_g16.g1)
ACCAG545779AG545780
length719720
length of high quality
(start - end)
532 (58 - 589)542 (69 - 610)
definitionCHROMAT_FILE: MSMg01no460_g16.b1 PHD_FILE: MSMg01no460_g16.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 19:33:39 2005CHROMAT_FILE: MSMg01no460_g16.g1 PHD_FILE: MSMg01no460_g16.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 19:33:39 2005
singlet/doubletsinglet---
BLAST hitpluralno hit data
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTCAGAA
TCTCCAGAGGTTGCTTACTGCAAGAAGGTATTCTGCAAAAGCAATAGATG
ATAAAAGTACTGAAATATCTATCAGTGCTCTACAATATTATATTCTAGGT
GATGAAATTTCTCTTTCTCTCTGTCTCTGTGACTCTGTGTCTCTGTCTCT
ATCTCTATGTCTGTCTGTCTGTTTGTCTCTCTCTCTCTCAATTTCTACTT
CTCTAATACTTATTATGAATTATGATTCTTTTATCTTATTCCCTCCAATG
TTTATGATATTGGAATGGCATCTGTAACATTCATTCACATTCCTACACAA
TTTGTGCTTTCTATTAACAATCAACTAATATCAAAGTCACACATTCACTC
AGATTACAAAATAAGATATCTGAGCTCATGTAAAGTGATATTCTGAATCA
GAGTAGGGGAAGGGCACTTCCAATGTGTAGTTTCACTCAAGAGCATGGCT
TTTAAGAACTGGTCAATTGGAAGAAGATGAGATAATGTATAGAAGAGGGT
GTTTCTTTTGGTTTAGTTTGGTTTAGCTTTGTTTCTTTAGGTTACCCACA
GTCATTTTAAGAAACATTGATAAACACTGTTTATTACCTATATCTTGAAC
TGACCGTGAATACGTCCCTTAAAACCCCCGTTATTTTTCTCAGTTAAAAT
ATGCCATATATTTTTTAAG
AAGTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXAAATCCCTGTCTAAGCTAGAGATGTGACTCGA
TGGTAGTGTTTGATTTGCATACATGCTAAACCCACCACCAGAAAAGAAAA
ACAAAACAGACACCAAAAAAAGAAGATACTCACAATTCAGTTTATCTGTT
TGTTGTGAGTAAATCCACAGCAAATATGAATGGTTAACAACACAGGAAGG
TATTATGCAAAGGAAGTCACACACACTCACCCTCATGCACACACACACAC
ACACTTTTTGAAAAAGAACACAGAAGAAAAAAAACAGTCCAGTCAGGAAG
CTATTGAAGAGAGTCCTTTAAAACTTATGATAAAGAAGATAAAGTGTATT
TCTTCACAATTGGTGGTTTCTGGTGGACAGTAATTAAGGATTCATTTTTA
TAGTTGGTGTTTGATATTTTCTAGGATCTTCTTTTTATAACCCCTAACGC
TAGATAGGACAAAAATAAGGGTATATTAGAGAGAGGAATTAGAAAATCTC
TGAATTTAATTTCTTTCCTTGTTCTTCTCCTTTAATTATGGCTACTAACA
AACCACAACCAACTTGTGTAACCAACCACCAACCACCAGAATAAAAGGAC
AAGTTTTGACAATAAATCTTGTGCCAAGTTAATGCCGCAGGAGTTCTTTC
CAAATGGAGGGTGGGGATAA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no460_g16.b1 MSMg01no460_g16.b1 CHROMAT_FILE:
MSMg01no460_g16.b1 PHD_FILE: MSMg01no460_g16.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 19:33:39 2005
         (532 letters)



>mm_chrY_1271734_1272663
          Length = 930

 Score =  317 bits (164), Expect = 1e-90
 Identities = 416/528 (78%), Gaps = 66/528 (12%)
 Strand = Plus / Plus

                                                                       
Query: 9   tactgcaagaaggtattctgcaaaagcaata---gatgataaa-agtactgaaatatcta 64
           ||||||||  |||| ||||||||||||||||   ||| ||||| |  |||||| | ||| 
Sbjct: 237 tactgcaatcaggtcttctgcaaaagcaatacacgat-ataaata--actgaattttctg 293

                                                                       
Query: 65  tcagtgctctacaatattatattctaggtgatgaaatttctctttctctctgtctctgtg 124
           |||||||||||||     |||||||| |||||||||  ||||  ||||||  |||||   
Sbjct: 294 tcagtgctctaca-----atattctatgtgatgaaa--tctc--tctctcaatctct--- 341

                                                                       
Query: 125 actctgtgtctctgtctctatctctatgtctgtctgtctgtttgtctctctctctctcaa 184
            |||    ||||  ||||| ||||    ||| ||| ||      ||||||||||||||||
Sbjct: 342 -ctc----tctc--tctctctctc----tctctctctc------tctctctctctctcaa 384

                                                                       
Query: 185 tttctacttc-tctaatacttattatgaattatgattcttttatcttattccctccaatg 243
           | ||||| || ||||| ||||| ||||||| |||||||| |||||||     |||   ||
Sbjct: 385 tatctac-tcttctaacacttagtatgaataatgattctcttatctt-----ctc---tg 435

                                                                       
Query: 244 tt---t-----atgatattggaatggcatctgtaacattcattcacattcctacacaatt 295
            |   |     |||||||||||||| |||||| ||||||||||||| ||||||| || ||
Sbjct: 436 ctacatagggcatgatattggaatgtcatctgcaacattcattcactttcctactcagtt 495

                                                                       
Query: 296 tgtgctttctattaacaatcaactaatatcaaagtcacacattcactcagattacaaaat 355
           |||||||||| |||  ||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 496 tgtgctttctcttaggaatcaactaatatcaaagtcacacattcactcagattacaaaat 555

                                                                       
Query: 356 aagatatctgagctcatgtaaagtgatattctgaatcagagtaggggaaggg-cacttcc 414
           ||| ||||| ||||||| |||  || |||||||| | ||||| || ||| || |||||||
Sbjct: 556 aaggtatcttagctcatataac-tgttattctgagtgagagt-ggagaaaggacacttcc 613

                                                                       
Query: 415 aatgtgtagtttcactcaagagcatggcttttaagaactggtcaattgga----agaaga 470
           ||||||||||| ||| |||||| ||||| ||||| ||||||| ||    |    ||||||
Sbjct: 614 aatgtgtagttacacccaagagtatggcctttaaaaactggtaaa----acagtagaaga 669

                                                           
Query: 471 tgagataatgtatagaagagggtgtttcttttggtttagtttggttta 518
           |||||  |||||||||||||| | ||||||| ||||| ||||||||||
Sbjct: 670 tgagaccatgtatagaagaggttatttcttt-ggtttggtttggttta 716


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: 13
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: 532
Length of database: 930
Length adjustment: 10
Effective length of query: 522
Effective length of database: 920
Effective search space:   480240
Effective search space used:   480240
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)