BAC Information

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BAC

Clone NameMSMg01-390I23
ChromosomeY (Build37)
Map Location 2,783,462 - 2,783,956
singlet/doubletsinglet
Overlap genenone
Upstream geneVmn2r-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, LOC100039652
Downstream genenone
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-390I23.T7 (MSMg01no390_i23.b1)MSMg01-390I23.TJ (MSMg01no390_i23.g1)
ACCAG492542AG492543
length735750
length of high quality
(start - end)
517 (82 - 598)496 (85 - 580)
definitionCHROMAT_FILE: MSMg01no390_i23.b1 PHD_FILE: MSMg01no390_i23.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:34:30 2005CHROMAT_FILE: MSMg01no390_i23.g1 PHD_FILE: MSMg01no390_i23.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:34:31 2005
singlet/doublet---singlet
BLAST hitno hit dataunique
sequence
NNAAGGATCTATAATTGCGGNCGCTAAACGAATCACTATAGTCCGNACCC
CCGCGGAATTCCAAATGGATTTCACACCTCCTTCCCTGTTATGCAAAGTA
ATTACATGTAATATCTCAAACAGAGGACATGATACTTGCTTTCTCTTGCC
CAGGGAGAAAACAATCATTACAATGTGAATTTGGGTGTCCCTTTGTGACC
CTTCTGTCCTAGGAGGCCACAAATATATACATCATATGAAAATCAATTTC
AAAAGGATCACGGAACAAAAGGGGAGCTGTAGTTCTTTCCTCTCCCCTAA
AAGGGAATGTCAGACCATATCAGTCTGAGCATTGTGAACTCAGACTTTCC
AGTTCTCACCAAAGGGACATTGGCTATGTGTCCTCTTTCAGTCAGGCTCA
GAATGCTTTAGCCTGAAAGAGGCAGGCTCTCAAATGCCCAATCTAAAAAA
AATGTGCTTCACAGATGCTTTCTATGAAAAAAGAGATATCATAAATGCTC
TAGGAAGCTTATGACTTAATCCTCACTCCCGAATTACTCCTTTGACCCAA
GGACACACCAGAACTTTACAGCTTGCCAAATGGAACCTGTAAGGCAGTCC
TTCTCAAGAGGGTGGCCAGTGCCCTTCTCTCTTTTACCCTGGCATTTTTC
GTTCTTTTTTTGACCCACCAGCTGCCCCTGTTTTCCCTTTCCTTGCCCTT
ATGAGCAACATGAGTTTAGAACTTTTACTTCTCCN
NNNNNNNCCCGATGATAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTTGTGAGATGATGTCA
TCACAGAGGGAACCAATGGGCTAGAAAGAGAAAAGAGAGTGCCAAACTCC
CTTTCATAATTAAACCTTTTCTATAACAGCATAATTAAATTATTTTTATA
TGTAAGTCATATCCCTCCTGACCCATTCAATTTCTTCCAAATATATTCAC
ACCTGGGGATTAATCTTCAGAAAATTATTCTTTGGAAACACATGTGATTA
TTTCAACATCTATAGTAGTGTGGGGGCATTATTCTCCCTACGTCATGTAC
ACTTAATATCTTTAGATACCTCCTTCCCTGTGATAGCCTTGCAGCTCACT
GAGTGACATGTGCATTTGATGATAAATGATACACAAACATTGAAGCACCT
TACCATATCCTGTCACCCATATCATGTACAACATAGCAAGAACCACACCT
GAGTTGAAAAATACAAATATATTTTATAGTGTCTTGAAGCTAANATCCCC
AAATTAATCAAAATATTATTTGGACTCTGTTACTTTATACCAGTGTTTTT
TAAGTGTACNAGTCGCAGGCCTTTTCTGTGACCCTTTGCACAGGTTTATA
GGGTCCCTTTTACCATCCTCATCCTCCCCACTATCCTCCATTGGGAACAA
ACCTCCCCNTGGCTGCTGGGCTTAATCCTTCCCAAAAACCCCCTATTTTT

quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no390_i23.g1 MSMg01no390_i23.g1 CHROMAT_FILE:
MSMg01no390_i23.g1 PHD_FILE: MSMg01no390_i23.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 23:34:31 2005
         (496 letters)



>mm_chrY_2783141_2784036
          Length = 896

 Score =  787 bits (407), Expect = 0.0
 Identities = 475/500 (95%), Gaps = 9/500 (1%)
 Strand = Plus / Minus

                                                                       
Query: 1   ttgtgagatgatgtcatcacagagggaaccaatgggctagaaagagaaaagagagtg--c 58
           |||||||||||||||||||||| |||| ||||||||||||||||||||||||| | |  |
Sbjct: 816 ttgtgagatgatgtcatcacagtgggatccaatgggctagaaagagaaaagag-g-gaac 759

                                                                       
Query: 59  caaactccctttcataattaaaccttttctataacagcataattaaattatttttatatg 118
           |||| ||||||||||||||||||||||||||||||||||| |||||||||||||||||||
Sbjct: 758 caaa-tccctttcataattaaaccttttctataacagcattattaaattatttttatatg 700

                                                                       
Query: 119 taagtcatatccctcctgacccattcaatttcttccaaatatattcacacctggggatta 178
           || |||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 699 taggtcatatccctcctgacccattcaatttcttccaaatatattcacacctggggatta 640

                                                                       
Query: 179 atcttcagaaaattattcttt--ggaaacacatgtgattatttcaacatctatagtagtg 236
           ||||||||||||||||  |||  ||||| |||||||||||||||||||||||||||||||
Sbjct: 639 atcttcagaaaattat--tttggggaaagacatgtgattatttcaacatctatagtagtg 582

                                                                       
Query: 237 tgggggcattattctccctacgtcatgtacacttaatatctttagatacctccttccctg 296
           ||||| ||||||||||||||| |||||||||||||| |||||||||||||||||||||||
Sbjct: 581 tggggccattattctccctacatcatgtacacttaagatctttagatacctccttccctg 522

                                                                       
Query: 297 tgatagccttgcagctcactgagtgacatgtgcatttgatgataaatgatacacaaacat 356
           |||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||
Sbjct: 521 tgatagccttgcagctcactgaatgacatgtgcatttgatgataaatgatacacaaacat 462

                                                                       
Query: 357 tgaagcaccttaccatatcctgtcacccatatcatgtacaacatagcaagaaccacacct 416
           ||||||||||||||||||  ||||||||||||||||| |||||||||||||||||||| |
Sbjct: 461 tgaagcaccttaccatatgatgtcacccatatcatgttcaacatagcaagaaccacacgt 402

                                                                       
Query: 417 gagttgaaaaatacaaatatattttatagtgtcttgaagctaanatccccaaattaatca 476
           ||||||||||||||||||| ||||||||||| ||||||||||| ||||||||||||||||
Sbjct: 401 gagttgaaaaatacaaatacattttatagtggcttgaagctaaaatccccaaattaatca 342

                               
Query: 477 aaatattatttggactctgt 496
           ||||||||||||||||||||
Sbjct: 341 aaatattatttggactctgt 322


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: 17
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: 496
Length of database: 896
Length adjustment: 10
Effective length of query: 486
Effective length of database: 886
Effective search space:   430596
Effective search space used:   430596
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)