BAC Information

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BAC

Clone NameMSMg01-495H12
ChromosomeY (Build37)
Map Location 2,890,685 - 2,891,345
singlet/doubletsinglet
Overlap genenone
Upstream geneUbe1y1-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, LOC100039652
Downstream genenone
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-495H12.T7 (MSMg01no495_h12.b1)MSMg01-495H12.TJ (MSMg01no495_h12.g1)
ACCAG572506AG572507
length712763
length of high quality
(start - end)
411 (56 - 466)659 (80 - 738)
definitionCHROMAT_FILE: MSMg01no495_h12.b1 PHD_FILE: MSMg01no495_h12.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:20:33 2005CHROMAT_FILE: MSMg01no495_h12.g1 PHD_FILE: MSMg01no495_h12.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:20:33 2005
singlet/doublet---singlet
BLAST hitno hit dataplural
sequence
NNNNAAAAATCTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXCGCGGAATTCAAGTTTCATACTTAAACATAATAAAAGCAATATAT
AGCAAACCAGTAGTCAACATCAAACTAAATGGAGAGAAACTAAAACCAAT
CCGACTAAAATCAGGGACTAGACAAGACTGTCCACTTTCTTCCTATCTGT
TCAATATAGCACTTGAAATCCTAGCCAGAGCAATTGGACAACAGAAGTAC
ATCAAGGGAACACCGTGGTCCCTTGCCAGGGGTGTCTCTGGACACCCCCA
AGGACACACACAGGATCCACCACGGGATCCTAAGACCTCTGGTGAGTGGA
ACACAGCACCTGGTCCAATCCAATCGCACAGGACCCGAGACTGCACATTA
TTATTATGCATATCAGATAGGCATGTGTGTGTGTGTGTGTGTGTGTGTGT
TTATGTGTGTGTGNGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTTN
TNNTNNTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
TTTTTTTTTNNNTNNNTTTNTTNNTTTTCTTTTTTTTTTTTTTTTTTTTT
TTNTNNTTTTTTTNTTTTTTTTNTTTTTTTTTTTTNNNTTTTTTTTTTTT
TTTTTTTTTTTTTTTTTTNNTTTTTTTTTTTTTTTTTNNTTTTTTTTTTN
TTTTTTTTTTTN
NCCCGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXACTATTCTCCGTTTGCAGTTG
TAAATGCTCGTGAGAACAACGAACTCCCTTTTTCAGATGGAAAAGGGTTA
CTGACAGACATGTCAGGAGAAACCGGCTGCCACCCTTTGGGACATCCCTG
GAGTTCTGAGGGAGTTCTAGGGATACCTGGAGATCTCCTATCAGTGTGCC
AAGTGAGAGTGTGCTCACTCGGCTGTCTGTTTCTGTTACTGGGTGCCAAG
TGAGTGTGTGCTTTCTTGGCCATCTTATTGGGGCCTGGTCTTGGTTATTG
TAATCTTTTTTGTGTATATGTTTTTTTTCCCTGTATGTGACTCTGATGAT
GGGACCGACTATTATCATGCCCCTTGGACTGACCCTTGATCACTCGACTG
AAATTAAGACTAACACTCACATTCTCTCTGTGGATGTCTGAAATCGATTT
TAGAGAACTTTCTGATCTACAGAATGGCCAGCTTTGATGATAGTTGGCCA
CTAGAGGGCACTCTTTGTTTGGTTCTGTTTTCAGCTCTTAAAGTTGTTTT
ACAGAGGGGACCAGGGTCTCAGCCAGATTACGTGCCATACATTCTCATCT
AGAAAAATTTAGCACAGGATCCCCCCTCTCCCATCCTGTTTAAAGCCTTG
GGTTAAAAAGAATAATCCAGGCTCCCCAGTCCTGGCCCTCTGCCACCCAG
AGGTGAAAAAAAA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no495_h12.g1 MSMg01no495_h12.g1 CHROMAT_FILE:
MSMg01no495_h12.g1 PHD_FILE: MSMg01no495_h12.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 20:20:33 2005
         (659 letters)



>mm_chrY_2890485_2891543
          Length = 1059

 Score =  907 bits (469), Expect = 0.0
 Identities = 614/663 (92%), Gaps = 6/663 (0%)
 Strand = Plus / Plus

                                                                       
Query: 1   actattctccgtttgcagttgtaaatgctcgtgagaacaacgaactccctttttcagatg 60
           ||||||||| |||| |||||||| |||||||||||| ||||||| ||||| |  ||||||
Sbjct: 201 actattctcggtttacagttgtacatgctcgtgagagcaacgaaatccctctcccagatg 260

                                                                       
Query: 61  gaaaagggttactgacagacatgtcaggagaaaccggctgccaccctttgggacatccct 120
           ||| |||||||||||||||||||| |||||||||||||||||| ||| ||||||||||| 
Sbjct: 261 gaagagggttactgacagacatgtgaggagaaaccggctgccagcctgtgggacatccca 320

                                                                       
Query: 121 ggagttctgagggagttctagggatacctggagatctcctatcagtgtgccaagtgagag 180
           |||||||||||||||||| |||||||||||||||||||||||||| |||||||| |||||
Sbjct: 321 ggagttctgagggagttccagggatacctggagatctcctatcagggtgccaagagagag 380

                                                                       
Query: 181 tgtgctcactcggctgtctgtttctgttactgggtgccaagtgagtgtgtgctttcttgg 240
           ||||||||||||| |||||||||||||||||||||||||||||||||| |||| |||  |
Sbjct: 381 tgtgctcactcggttgtctgtttctgttactgggtgccaagtgagtgtatgctctctcag 440

                                                                       
Query: 241 ccatcttattggggcctggtcttggttattgtaatcttttt-tgtgtatatgtt--tttt 297
           ||||||||||||||||||||||||||||||||||||||||| || |||||| ||  ||||
Sbjct: 441 ccatcttattggggcctggtcttggttattgtaatctttttctgggtatatattgttttt 500

                                                                       
Query: 298 ttccctgtatgtgactctgatgatgggaccgactattatcatgccccttggactgaccct 357
           |||||||||||| ||| ||||||||||||||||||||| |||||||||||||||||||| 
Sbjct: 501 ttccctgtatgtaactatgatgatgggaccgactattagcatgccccttggactgaccca 560

                                                                       
Query: 358 tgatcactcgactgaaattaagactaacactcacattctctctgtggatgtctgaaatcg 417
           ||| |||| |||||||||||| ||||| |||||||||||||||||||||||||||||| |
Sbjct: 561 tgagcactggactgaaattaaaactaaaactcacattctctctgtggatgtctgaaatag 620

                                                                       
Query: 418 attttagagaactttctgatctacagaatggccagctttgatgatagttggccactagag 477
           |||||||||||||||||| |||||||||||||||||||||||| ||||||||||||||||
Sbjct: 621 attttagagaactttctgctctacagaatggccagctttgatgttagttggccactagag 680

                                                                       
Query: 478 ggcactctttgtttggttctgttttcagctcttaaagttgttttacagaggggaccaggg 537
           ||||||||| ||||||| ||||||||||||||||||||||||||||||| ||||||| ||
Sbjct: 681 ggcactctt-gtttggtcctgttttcagctcttaaagttgttttacagaagggaccaagg 739

                                                                       
Query: 538 tctcagccagatt-acgtgccatacattctcatctagaaaaatttagcacaggatccccc 596
           ||||||||||||| | ||||| |||||||| ||||| ||||| |||||||||||||||||
Sbjct: 740 tctcagccagattga-gtgccctacattctgatctaaaaaaaattagcacaggatccccc 798

                                                                       
Query: 597 ctctcccatcctgtttaaagccttgggttaaaaagaataatccaggctccccagtcctgg 656
           ||||||||||||||| ||||||||||||| ||||||||||||||||||||||||||||||
Sbjct: 799 ctctcccatcctgttgaaagccttgggttcaaaagaataatccaggctccccagtcctgg 858

              
Query: 657 ccc 659
           |||
Sbjct: 859 ccc 861


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: 23
Number of extensions: 3
Number of successful extensions: 3
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 659
Length of database: 1059
Length adjustment: 10
Effective length of query: 649
Effective length of database: 1049
Effective search space:   680801
Effective search space used:   680801
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)