BAC Information

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BAC

Clone NameMSMg01-388A13
ChromosomeY (Build37)
Map Location 1,591,619 - 1,591,919
singlet/doubletsinglet
Overlap genenone
Upstream geneDdx3y, LOC100042763, LOC385246, Usp9y, LOC100039278, EG667079, LOC667089, Rhoay-ps1, Zfy2, Ube1y1-ps2
Downstream geneLOC667137, 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, LOC667217, LOC100039613, LOC100041537, LOC667227, LOC667236
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-388A13.T7 (MSMg01no388_a13.b1)MSMg01-388A13.TJ (MSMg01no388_a13.g1)
ACCAG490626AG490627
length775760
length of high quality
(start - end)
403 (125 - 527)586 (77 - 662)
definitionCHROMAT_FILE: MSMg01no388_a13.b1 PHD_FILE: MSMg01no388_a13.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:31:16 2005CHROMAT_FILE: MSMg01no388_a13.g1 PHD_FILE: MSMg01no388_a13.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:31:16 2005
singlet/doublet---singlet
BLAST hitno hit dataplural
sequence
GGGCCGCAATACGACTCACTATTCCCAGAGGATCCGCGGAATTCACTCCT
AGTCACTCCCATTCTCGGGGTGAAATAGTCAAGTGATGGGCAAGCAATGA
ATCAGGAGCTGTCATGCCATATCAGGTGCTGAAATGTCACGCTGCAGGTT
ATAAAAGCAGCGCCATTTTCCCGGTTCGGGATCTTCCTGATAAGCAAGCA
ATAAAGCTCTTGCTGTGGAAGATTCTAGTTTGTTGTATTTTTCTTGCCGG
TCGAGCGGGACGCAATAGTGAATAGCTTTTACCTCCCTGCTGTTGCTCTC
CTAGTACTGACCAGAAACTGAGGTGCCATTTCCAGCAGACTGTGCTAGGA
CATAGTCATAGAACACATCTTCCTTCAAAAGCAGCTTCTAGGCTTCATTG
GAAAAAACTTAAATCTGTGAATATTGGGAACAGAGTCTGTACATAGCTCA
GTTGACAGAGTGACTGCCTAGCATTTAGCATGCCTAGGACTCAGTGATTA
GTGCTGTCTTTACTTTATTGCCTTTAGTGTGTCTACTTATTATATTGTAA
TACACTTGGGATCATAGAAAGGGATATCATGATGACCTAAGACCAAGACT
GTCAATGATGTTGGTTAGAGTCTTCTCTTGTATCCTCCGGCTAAAGAGAC
CTGATACCCGAGTGACCCCCCTTACTGAGAAACTCCCAGTTCCATTTTCA
TTCCTTTTTAAGGCCCCCTAATTCAAAAAACCTTGCCCTTACCAGGGGGA
ACCCTCCCCCCCCTTATCTCTTTTT
CCGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXAAGAAAACAAATCCAGTTTTTTTG
CGGTACAGTAGTGCTCTTGACAACATGGTCATCTATTCCCATTAAGATAT
CTTTTTAAGAAATCCAATATTAACATGCAGAAAAGAGACCAGGTAGAAGT
TAAGAAAGATTAAATTGATGGTGACCTTTAAAAACAATAAAGGACACACA
AAGGACTAGAGGACACTGAGGGACAAATGAATTCTAAGATGAAGTTCTCA
AAATGTGAAGCAGGAGACCCTTTTAAGAATAGAAATTTTGTGCAAATAGT
TAAAATTGGGCATATCCACATTAGGTTCTTTGGTTTCTTAACAAATAGCC
AGCTGATCAGATCAAAGAGTAATTTAAAAGAGAAAATGAATAAACTGTGA
GATAATATATGGTAGGGCATGGATCCTGAGTTCTTTCCCTGTGCAATCTT
TGCCTGGGATGAATCCTGTGATCTTTTGGAGGTCTCTGTTGAGTGCCCCA
GATGACCATCAAAAAGCTCACCACTGGCCTGTTCCCCTGGCTCTCCTCCA
AACATCTGACTCCCAACATACCTATGTACCATTTCAGCCTGTCTATTCCC
TGGAAATTCCTGTCTCANATTTATGTGTGACCTCTTTCTCATAAAACAGT
GAAGGTGTACTCAATGCATATGTGCTGATCTCTTTTCTATGGCCGTTCTC
ATGGGTTTCN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no388_a13.g1 MSMg01no388_a13.g1 CHROMAT_FILE:
MSMg01no388_a13.g1 PHD_FILE: MSMg01no388_a13.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 23:31:16 2005
         (586 letters)



>mm_chrY_1591357_1592342
          Length = 986

 Score =  294 bits (152), Expect = 1e-83
 Identities = 265/308 (86%), Gaps = 18/308 (5%)
 Strand = Plus / Minus

                                                                       
Query: 27  gtacagtagtgctcttgacaacatg-gtca----tctattcccattaagatatcttttta 81
           ||||| |||||||||| || || || ||||    |||| | |||| ||||||| ||| ||
Sbjct: 563 gtacaatagtgctctttaccac-tgagtcatctctctagtaccataaagatatatttgta 505

                                                                       
Query: 82  agaaatccaatattaacatgcagaaaagagaccagg-tagaagttaagaaagattaaatt 140
           |||||||||||||| ||||||||||||||||||||| | |||| |||||| ||| |||||
Sbjct: 504 agaaatccaatattcacatgcagaaaagagaccaggat-gaaggtaagaatgatcaaatt 446

                                                                       
Query: 141 gatggtgacctttaaaaacaataaaggacacacaaaggactagaggacactgagggacaa 200
           |||||||||||||||||  |||||||||||||||||||| ||||||||||||||||||||
Sbjct: 445 gatggtgacctttaaaaggaataaaggacacacaaaggagtagaggacactgagggacaa 386

                                                                       
Query: 201 atgaattctaagatgaagttctcaaaatgtgaagcaggagaccctttta---agaataga 257
           ||||||||||||||| ||||||||||| ||||| ||||||||||    |   ||||||||
Sbjct: 385 atgaattctaagatggagttctcaaaaagtgaaccaggagaccc----aggaagaataga 330

                                                                       
Query: 258 aattttgtgcaaatagttaaaattggg-catatccacattagg-ttctttggtttcttaa 315
           || ||| || ||||||| ||| ||||| ||||| |||||| || ||||||||||| ||||
Sbjct: 329 aagtttctggaaatagtcaaacttggggcatattcacatt-ggcttctttggttttttaa 271

                   
Query: 316 caaatagc 323
           ||||||||
Sbjct: 270 caaatagc 263


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: 4
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: 586
Length of database: 986
Length adjustment: 10
Effective length of query: 576
Effective length of database: 976
Effective search space:   562176
Effective search space used:   562176
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)