BAC Information

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BAC

Clone NameMSMg01-199D07
ChromosomeY (Build37)
Map Location 2,487,523 - 2,488,217
singlet/doubletsinglet
Overlap geneLOC667217
Upstream geneUbe1y1-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, Rhoay-ps2, LOC100039568, LOC100041505, LOC100039581, LOC676356
Downstream geneLOC100039613, LOC100041537, LOC667227, LOC667236, EG631479, LOC667244, LOC100039652
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-199D07.T7 (MSMg01no199_d07.b1)MSMg01-199D07.TJ (MSMg01no199_d07.g1)
ACCAG386232AG386233
length730736
length of high quality
(start - end)		673 (45 - 717)648 (89 - 736)
definitionCHROMAT_FILE: MSMg01no199_d07.b1 PHD_FILE: MSMg01no199_d07.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:19:41 2005CHROMAT_FILE: MSMg01no199_d07.g1 PHD_FILE: MSMg01no199_d07.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:19:41 2005
singlet/doublet---singlet
BLAST hitno hit dataplural
sequence
CTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGA
ATTCTCAAGATATCACTCAGTGTTCAATTTCTGATCAATAGTGCTGCAGA
CATAGGAATAACAGGATAAAACTATTCTATACAATAATATGAAGCTCCTA
TCACCATCCTCCTATTTTAGAGAATCTTAGATCTATCACCAATCCTGAGA
CGGGCAGAAACAATTCTTCTCCTGAACATAGGGATACTGCATATGTCTCT
CCTTGCCCAAAGTATTCCAATTACTGTCTTTTTACTGAATTTGCTTTTAG
ACTATACCTGAAATATTCCACTTTTCACCAAAAGATCTACCAGCCCTCCC
TGTTCTAATAGAGAGCTACCGTCCACCAATATCCAAAGGGTTCTCAGACA
TTCTAAATATGCCCCTGCGGGAGTAAACTTACTAAGTCTATTTAATTGGG
CCTCAGATCCTTCTGCTTTGACCAAAAAGATTTCAATCTACTGACTCTGA
GTTACCAGGGGCCTCAGATCTCATTTTCCCCAAGTGGTCATCAAATATGC
CTTTCTGACCAATAATGACCTTGCAATGTTCTCCTCTGATGGAGACACTT
AGACACCCCCCCTTCAATTTTAACTCCCAAATGGACCTCCAGACCACCCA
AGCTTAAAGTACCTGAGCCGAACATTAAGAAGTACAGCCCAGAACAAAAG
CTTATTTCCTCAATGCAGAAACTAAAATGA

TGTCTTCNNNNCCGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTGGGTCCATATT
AATGGAGACATCTAGTCCTCCTACAGGGTTGGTCTCCTCCTCAGTCTCCT
TCAGTTTTTCTCCAATTAAACCAATGGTTCAACATATTCTGTCCGTTGGT
TGGTTGCATACAACTTCATCTGATTGTTTCACCTACTTGTTAGTTCTTAA
GAAGTACAGTCATAGTAGTATTAATATTACAAATGTGTGAATTCAGAAAA
TTGCAGAGGTTGCTTACTGCAAGAAGGTATTCTGCAAAAGCAATAGATGA
TAAAAGTACTGAAATATCTATCAGTGCTCTACAATATTATATTCTAGGTG
ATGAAATTTCTCTGTCTCTCTGTCTCTGTGTCTCTGTGTCTCTGTCTCTA
TCTCTATGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTCTCTCTCTCTC
TCAATTTCTACTTCTCTAATACTTATGAATTATGATTCTTTTATCTTATT
CCCTCCAATGGGAATGATATTGGAATGGCATCTGTAACATTCATTCACAT
TCCTACACAATTTGTGCTTTCTATTAACAATCAACTAATATCAAAGTCAC
ACATTCACTCAGATTACAAAATAAGATATCTGAGCTCATGTAAAGTGATA
TTCTGAATCAGAGTATGGGAAGGGCACTTCCAATGT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no199_d07.g1 MSMg01no199_d07.g1 CHROMAT_FILE:
MSMg01no199_d07.g1 PHD_FILE: MSMg01no199_d07.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 20:19:41 2005
         (648 letters)



>mm_chrY_2487370_2488417
          Length = 1048

 Score =  298 bits (154), Expect = 1e-84
 Identities = 554/710 (78%), Gaps = 77/710 (10%)
 Strand = Plus / Plus

                                                                       
Query: 1   tgggtccatattaatggagacatct-agtcctcctacagggttggtctcctcctcagtct 59
           ||||| ||||||||| |||||| || | |||||| ||||||||  |||||||||||| ||
Sbjct: 154 tgggttcatattaattgagacacctga-tcctcccacagggttactctcctcctcagcct 212

                                                                       
Query: 60  ccttcagtttttctccaattaaaccaatggttca-acatattctgtccgttggttggttg 118
           |||||||| | ||||||||||||||||||||| | | | |||||||||  ||||||||||
Sbjct: 213 ccttcagtctctctccaattaaaccaatggttgaga-agattctgtccactggttggttg 271

                                                                       
Query: 119 catacaacttcatctgattgtttcaccta-cttgttagttcttaagaagtacagtcatag 177
           |||||| || || |||||||||||||| | ||  ||||||||| ||||||||||| || |
Sbjct: 272 catacatctgcacctgattgtttcacc-agctcattagttcttcagaagtacagtaat-g 329

                                                                       
Query: 178 t--agtattaatattacaaatgtgtgaattcagaaaattgcagaggttgcttactgcaag 235
           |  | |||| ||||||||| | |||||||||||||   |||||||| ||| |||| ||||
Sbjct: 330 ttca-tattcatattacaagtatgtgaattcagaagcctgcagaggctgcatactacaag 388

                                                                       
Query: 236 aaggtat-tctgcaaaagcaatagatgataaaagtactgaaatatctatcagtgctctac 294
            | || | | ||||||||||||||||| || |||||| ||||| |||||| ||||||| |
Sbjct: 389 catgtctgt-tgcaaaagcaatagatggtataagtacagaaatttctatctgtgctctgc 447

                                                                       
Query: 295 aatattatattctaggtgatgaaatt-tctct--gtct--ctct--gtct--ctgt--gt 343
           | |||| ||||||||||||||||||| |||||   |||  ||||   |||  || |   |
Sbjct: 448 agtattctattctaggtgatgaaattctctctccctctccctctccctctccctctccct 507

                                                                       
Query: 344 ct--ctgt--gtct--ctgt--ctct--atct--ctat--gtct--gtct--gtct--gt 383
           ||  || |   |||  || |  ||||   |||  || |   |||   |||   |||   |
Sbjct: 508 ctccctctccctctccctctccctctccctctccctctccctctccctctccctctccct 567

                                                                       
Query: 384 ct--gtct--gtct--gtct--gtct--ctct--ctct--ctctcaatttct----actt 425
           ||   |||   |||   |||   |||  ||||  ||||  |||||    |||    ||| 
Sbjct: 568 ctccctctccctctccctctccctctccctctccctctccctctc----tctaatgactc 623

                                                                       
Query: 426 ctctaatac-t--tatgaattatgattcttttatcttattccctc---caatgggaatga 479
           |||||| || |  ||||||| |||||||| | |||   ||| |||   ||| ||| ||||
Sbjct: 624 ctctaacacatagtatgaatgatgattctctaatc---ttctctcttacaa-ggggatga 679

                                                                       
Query: 480 tattggaatggcatctgtaacattcattcacattcctacacaatttgt-gctttctatta 538
           |||||||||| |||||| ||||||||||||| |||||||||| ||| |  |||||| |||
Sbjct: 680 tattggaatgccatctgcaacattcattcactttcctacacagttt-tcactttctctta 738

                                                                       
Query: 539 acaatcaactaatatcaaagtcacacattcactcagattacaaaataagatatctgagct 598
            |||||||||||||||||||||||||||||||||||||||||||||||| |||| |||||
Sbjct: 739 ccaatcaactaatatcaaagtcacacattcactcagattacaaaataaggtatccgagct 798

                                                             
Query: 599 catgtaaagtgatattctgaatcagagtatgggaagggcacttccaatgt 648
           |||||||| || ||||||||||||||||| || ||||  |||||||||||
Sbjct: 799 catgtaaactgctattctgaatcagagtacggaaaggatacttccaatgt 848


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: 10
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: 648
Length of database: 1048
Length adjustment: 10
Effective length of query: 638
Effective length of database: 1038
Effective search space:   662244
Effective search space used:   662244
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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