BAC Information

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BAC

Clone NameMSMg01-071C19
ChromosomeY (Build37)
Map Location 2,870,390 - 2,870,867
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 nameMSMg01-071C19.T7 (MSMg01no071_c19.b1)MSMg01-071C19.TJ (MSMg01no071_c19.g1)
ACCAG295022AG295023
length702704
length of high quality
(start - end)
479 (79 - 557)391 (70 - 460)
definitionCHROMAT_FILE: MSMg01no071_c19.b1 PHD_FILE: MSMg01no071_c19.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:18:29 2005CHROMAT_FILE: MSMg01no071_c19.g1 PHD_FILE: MSMg01no071_c19.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:18:29 2005
singlet/doubletsinglet---
BLAST hitpluralno hit data
sequence
NGTCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTTTACTGATCCGCGGAA
TTCTTGTTTCTTTTTCTCTAGATTCTCCATTACAGCACCAAGATTCTGCA
TTTCCTTTTGTTTTGTAAGATTCTCGAGGAATCCTAAATCCAGACTTTAG
GGCAGTTATTTAAAATTCTTGCTGGTGGTTCTGACAATGGTTTCCTCATT
TTTTTTTAAATTAGGTATTTTTTCATTTACATTTCCAATACTATCCCAAA
AGTCCTCCCATACCCACCTCAACCACACCCCCACAACCACCACCACATCT
TGTCCCTGGCATACCCCTGTTTTAAGGCATATAAAGTTTGCAAGACTGAT
GGGGCTCTCTTTCCAATGATAACCAACTAGTCCATCTTCTGATACAACTG
CAGCTAGAATCATGAGCTCTGATATGCTGCTAGAAAAATGAGCTCTGGGG
GGTTTCTTTAGTTCATATTGTTGTTCCACTTATGGGATTGCAGACCCCTT
TAGCTCCTTGGGTACCTTCTCTACCTCCTCCATTTCTGTCCCTGTGATTC
ATCCAATAGCTGACTGTGAGCATCCACTTCTGTGTTTGTCAGGCCATGGC
ATAGCCTCACAAGAGACAGCTAATTCTGGGTCCTTCCAGTANAAATTTGT
CAGTGTATGCAATGAGGTCATTTTTTGGAGGCTGATTTTGGAATGGAACC
CT
CATGAAGTGGTAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXTACGTGTCTCAACCCTTCGCTGATGAAGGGC
TTCTCCACCTGGATTTCCTCTGCATTTTCCTACTTTAAGGAGTGGGTGGG
GGTAGGCTTTTTGCCGTGATCCTATGTGGTGGAGTGTTGCTTTTGCTCTG
GATGGTCTGTAAACTTAAAGCCCAAACAAAAAGGGACAAGATGGTGATAG
CCCAAGCACTTGTAGCATTAGAACATGGTACCTCCCTTGATATGTGGTTA
TCTATACTTAAGCAATAGGTCACTGGCTGCTCAGCTTTTGCACCCCATGA
GGCTAGTCTCATTGCACAGGATAGAGGTAGTGTGCTTCAGCAGCCGATAG
AGTTTTATGGCTAAGCACTGCAGTAGAAAGGCTCTGTGGCATAAAATGAG
CCTATTCTAGGGAGACATGTCATCTTGTATGAAGGTTGAGGGTCCAAGTG
TTTTTCCCCCTGGTAAAATGACGCGTGAGCGGACCAAGACCCCTCCGGTT
GATGAGCCTGGGAGGAGGTTTTGTGTAATGCCCCTATTTTTGCACACTGT
GGATTTGACCTCTATCCTCCACTCTCAATACTGGGTGGCCTGTTGCCCTT
AAAACAAAAAAAAAGGGAAGATGTGAGGAATCATCCTTGCACTCCCCTTA
CTGT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no071_c19.b1 MSMg01no071_c19.b1 CHROMAT_FILE:
MSMg01no071_c19.b1 PHD_FILE: MSMg01no071_c19.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 17:18:29 2005
         (479 letters)



>mm_chrY_2870190_2871068
          Length = 879

 Score =  810 bits (419), Expect = 0.0
 Identities = 464/479 (96%), Gaps = 1/479 (0%)
 Strand = Plus / Plus

                                                                       
Query: 1   attacagcaccaagattctgcatttccttttgttttgtaagattctcgaggaatcctaaa 60
           ||||||||||||||||||||||||||||||||||||| ||||||||||| ||||||||||
Sbjct: 201 attacagcaccaagattctgcatttccttttgttttggaagattctcgatgaatcctaaa 260

                                                                       
Query: 61  tccagactttagggcagttatttaaaattcttgctggtggttctgacaatggtttcctca 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 261 tccagactttagggcagttatttaaaattcttgctggtggttctgacaatggtttcctca 320

                                                                       
Query: 121 tttttttttaaattaggtattttttcatttacatttccaatactatcccaaaagtcctcc 180
           |||||||| |||||||||||||||||||||||||||||||||||||||||||||||| ||
Sbjct: 321 tttttttt-aaattaggtattttttcatttacatttccaatactatcccaaaagtccccc 379

                                                                       
Query: 181 catacccacctcaaccacacccccacaaccaccaccacatcttgtccctggcatacccct 240
           ||||||||||||||||||||||| || |||||||||||||||||||||||||||||||||
Sbjct: 380 catacccacctcaaccacacccctaccaccaccaccacatcttgtccctggcatacccct 439

                                                                       
Query: 241 gttttaaggcatataaagtttgcaagactgatggggctctctttccaatgataaccaact 300
           |   |||||||||||||||||||||||||||||||||||||||||||||||| |||||||
Sbjct: 440 gaaataaggcatataaagtttgcaagactgatggggctctctttccaatgatgaccaact 499

                                                                       
Query: 301 agtccatcttctgatacaactgcagctagaatcatgagctctgatatgctgctagaaaaa 360
           ||||||||||||||||||||||||||||||| ||||||||||||||||| ||||||||||
Sbjct: 500 agtccatcttctgatacaactgcagctagaaacatgagctctgatatgcagctagaaaaa 559

                                                                       
Query: 361 tgagctctggggggtttctttagttcatattgttgttccacttatgggattgcagacccc 420
           |||| ||||| |||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 560 tgagttctggagggtttctttagttcatattgttgttccacttatgggattgcagacccc 619

                                                                      
Query: 421 tttagctccttgggtaccttctctacctcctccatttctgtccctgtgattcatccaat 479
           |||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||
Sbjct: 620 tttagctccttgggtaccttctctacctcctccatttcggtccctgtgattcatccaat 678


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: 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: 479
Length of database: 879
Length adjustment: 10
Effective length of query: 469
Effective length of database: 869
Effective search space:   407561
Effective search space used:   407561
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)