BAC Information

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BAC

Clone NameMSMg01-489L01
ChromosomeY (Build37)
Map Location 2,477,941 - 2,478,286
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 nameMSMg01-489L01.T7 (MSMg01no489_l01.b1)MSMg01-489L01.TJ (MSMg01no489_l01.g1)
ACCAG568112AG568113
length720728
length of high quality
(start - end)
426 (55 - 480)587 (82 - 668)
definitionCHROMAT_FILE: MSMg01no489_l01.b1 PHD_FILE: MSMg01no489_l01.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:13:01 2005CHROMAT_FILE: MSMg01no489_l01.g1 PHD_FILE: MSMg01no489_l01.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:13:01 2005
singlet/doubletsinglet---
BLAST hituniqueno hit data
sequence
CAAAAACATCTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXCGCGGAATTCTAAATATAACTTTATATTCGTTATGGAGAATGTATT
ATGAGCTTGTCAAGAGCATTTGAATATGAATTTCTTTCCTGTTATGTTTA
TTTTTCTTTGGTGATTTGAAGTGGAAGCTACTCACAGGAAAAAAAAGAGA
GGTATCTAAAACTACTTCTCATTATCTCACTTTCTTTAAATTGAGATTTC
TGATGTTGAAGAGGAATGAAGTGAGTGTGCAGATTTTGTCCACATAACTC
CTTATAGAAAGAGCAATAGTCATGTTCCACAAACACATGTATTCAACACC
CCAATTAAATTGCATGGGTACTGGCTGAATCTAAAGTCCCTGTAAATGAA
TGTGTGTGTGTGTGTGTGTGTGTGTGNGTGTGTGAATGTTTCCATGTGTG
TGTGTGTCTGTGACTCANTATATCTAGGTGTATATGTACCTGTGTGTGTT
AGATTATATTGGTGGAAAAGATCTCCTTATTAATGGATGTTTTATTATAA
AATCCTTTTATTGGGGCTTGGTTATGGGTTCAAAAATTTCAGCCCCCTTT
TTTTTAGCGGGTAAATTATTTTCGGGTTCCCTTCTCTGCTGGTTTTTTTT
TGACGTTGCAATTTTTTTACACCCTCCTTTATCATTTTCTTTAATAATTT
AACCCTTCTCTTCTCTTAGG
NAAAATTCGATGATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXACTCTCGCACCTGCGTACA
AGGCTTGTTTACTAGTTAGGCACTGTGGAGGCCCGCACCATCTTATAATG
GTGATTGCTCACGGCACACATGGCTCTTCTCAGAGCTTACTGGCGGCACG
CACGTAATTGCTTGCAGCACATACCGGCTCTCCACAATTCACCACGATAT
CTGCAGTCCCTTCTATGAATAGTCTGTTGTAACCTGGAGAGTTCTGGTCA
TCCACTCTGATACCACTACTGTTGTAGCAACTTGAACTTCTCTTAAACCA
GTCAGTCCCTTTCTATAGAGATGATTCATCCCTGAAGCATCTACATGGGA
GAGAGAATGGGGAGCATAGAAATCAGAGAGAGGCAGAAGTAATCTAGACT
TCAAGTTGAGAAAAGAAAAAGTGGTCCTGGGGAAAATACAGTGATTTCTG
GGTAGAGAATATGGAGCATCCCAGTAAAGGTAGTTCTGAACTGGCTTGTT
TATCTTGAAGGCAGACTTGGGCATTGTATAAAGCTCTCTTGTAAGATCTC
ATACACAAAATTTTGCTCAATGTCTGACTCAGAAGTAATATTTCAGCAGT
ATCTAGGATTCATGCTGGANAAAACTGGAGAAAAGAATCAGGATTTTTGT
GGGCCAAGGTCCATGACATAAGGCTTCA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no489_l01.b1 MSMg01no489_l01.b1 CHROMAT_FILE:
MSMg01no489_l01.b1 PHD_FILE: MSMg01no489_l01.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 20:13:01 2005
         (426 letters)



>mm_chrY_2477746_2478567
          Length = 822

 Score =  248 bits (128), Expect = 7e-70
 Identities = 296/354 (83%), Gaps = 14/354 (3%)
 Strand = Plus / Minus

                                                                       
Query: 21  tttatattcgttatggagaatgtattatgagcttgtcaa-gagcatttgaatatgaa-tt 78
           |||| |||| ||| || |||| ||||||||| ||| ||| || |||||| || |||| ||
Sbjct: 541 tttacattcattaaggggaatatattatgagattgccaagga-catttggatgtgaattt 483

                                                                       
Query: 79  tctttcctgttatgtttatttttctttggtgatttgaagtggaagctactcacaggaaaa 138
           |||||| ||||||  ||||||| ||||  ||| |||||||| ||||||| |||| || ||
Sbjct: 482 tctttcttgttatacttattttccttttctgacttgaagtgcaagctac-caca-gacaa 425

                                                                       
Query: 139 aaaagagaggtatctaaaactacttctcattatctcactttctttaaattgagatttctg 198
            |   |||| ||| |||||||| ||||||||||||| || ||| |||||||| |||||| 
Sbjct: 424 ca---agagttatataaaactatttctcattatctccctctctgtaaattgacatttcta 368

                                                                       
Query: 199 atgttgaagaggaatgaagtgagtgtgcagattttgtccacataac-tccttatagaaag 257
           | ||||||||||||||||||||||||||||||||||||||||| || |||| | |||| |
Sbjct: 367 aagttgaagaggaatgaagtgagtgtgcagattttgtccacat-acttcctaaaagaagg 309

                                                                       
Query: 258 agcaatagtcatgttccacaaacacatgtattca-acaccccaattaaattgcatgggta 316
           |||||||||||||||||||||||||||||| ||| |||  ||||| |||||||| |||| 
Sbjct: 308 agcaatagtcatgttccacaaacacatgta-tcagacataccaatgaaattgcaggggtc 250

                                                                 
Query: 317 ctggctgaatctaaagtccctgtaaatga--atgtgtgtgtgtgtgtgtgtgtg 368
           |||||| |||  |||  ||||||||||||  || ||| ||||||||||| ||||
Sbjct: 249 ctggctaaatagaaaacccctgtaaatgaggatttgtttgtgtgtgtgtctgtg 196


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: 5
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: 426
Length of database: 822
Length adjustment: 9
Effective length of query: 417
Effective length of database: 813
Effective search space:   339021
Effective search space used:   339021
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)