BAC Information

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BAC

Clone NameMSMg01-360F08
ChromosomeY (Build37)
Map Location 2,870,358 - 2,870,816
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 nameMSMg01-360F08.T7 (MSMg01no360_f08.b1)MSMg01-360F08.TJ (MSMg01no360_f08.g1)
ACCAG469533AG469534
length759765
length of high quality
(start - end)		464 (47 - 510)402 (76 - 477)
definitionCHROMAT_FILE: MSMg01no360_f08.b1 PHD_FILE: MSMg01no360_f08.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:55:03 2005CHROMAT_FILE: MSMg01no360_f08.g1 PHD_FILE: MSMg01no360_f08.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:55:03 2005
singlet/doubletsinglet---
BLAST hitpluralno hit data
sequence
CCTTAACXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCG
GAATTCTTGTTTGTTCTTCTCTTGCTTCTCCAATTACAGCACCAAGATTC
TGCATTTCCTTTTGTTTTGGAAGATTCTCAAGGAATCCTAAATCCAGATT
TTAGGGCAGTTATTTAAAATTCTTGCTGGTGATTCTGACAATGGTTTCCT
CATTTTTTTAAAAATTAGGTATTTTTTCATTTACATTTCCAATACTATCT
CAAAAGTCCCCACATACCCACCTCAACCACACCCCCACCACCACCACCAC
ATCTTGTCCCTGGCATACCCCTGATTTAAGGCATATAAAGTTTGCAAGAC
TGATGGGGCTCTCTTTCCAATGATAACCAACTAGTCCATCTTCTGATACA
ACTGCAGCTAGAAACATGAGCTCTGATATGCTGCTAGAAAAATGAGCTCT
GGGGGGTTTCTTTAGTTCATATTGTTGTTCCACTTATGGGATTGCAGACC
CCTTTAGCTCCTTGGGTACCTTCTCTACCTCCTCCATTTCGGTCCCTGTG
ATTCATCCCATAGCTGACTGTGAGCATCCACTTCTGTGTTTGTTAGGCCA
TGGGAAAGCCCCAATAGAAAAAGCTTAATTCTGGGTTCCTCCCGCCAAAT
CCTTGCCGTTGTATTGCTTTGTTGTCTGTTGTTTGTCAGTCTGTTCTTTG
GTTTGTTTCAACTTGTATATGTTAAACCCATAATTTTTGTGTACCTAATG
GGGTCCTCN

NCCGATGCAGTGTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXTTTGTTCAGTTCTGAGCCCCATTTT
TTAATGGGGTTATTTGATTTTCTGAAGTCCACCTTCTTGAGTTCTTTATA
TATGTTGGATATTAGTCCCCTATCTGATTTATGATAGGTAAAGATCCTTT
CCCAATCTGTTGGTGGTCTTTTTGTCTTATTGACGGTGCCTTTTGCCTTG
CAGAAACTTTGGAGTTTCACTAGGTCCCGTTTGTCAATTTTCGATCTTAC
AGCACAAGCCATTGCTGTTCCGTTCAGGAATTTATCCCCTGTGCCCATAT
CTTCAAGGCTTTTCCCCACTTTCTCCTCTATAAGTTTCAGTGTCTCTGTT
TTTATGTGAAGTTCCTTGATCCACTTAGATTTGACCTTACTACAAGGAGA
TATGTATGGATCGATTCACATTCTTCTACATGATAACAACCAGTTGTGCC
ACCACCCATTGTTGAAAATGCTGTCTTTTCTCCCCTGTATGTCTTTAATT
CTCCTGTTCAATATCAATTGATCATAGGTGTGCGCTTTCCTTTTTTGGGT
TTTTTTTTCGTTTTCACCGGGTTTTCCCTTTTTGGTTCTATTTCGCCCGC
ATGTGTTTTTTTTTTATTATCAGGCTCTTTTTCTTATTTTATCCCGTTTC
GTTGGCGCTTTTTTCCCTTTCCTTTTTTTCCCTTTTTTTCATTTCTTTTT
TCTTTCCTTTTTCTN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no360_f08.b1 MSMg01no360_f08.b1 CHROMAT_FILE:
MSMg01no360_f08.b1 PHD_FILE: MSMg01no360_f08.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:55:03 2005
         (464 letters)



>mm_chrY_2870154_2871017
          Length = 864

 Score =  752 bits (389), Expect = 0.0
 Identities = 443/461 (96%), Gaps = 3/461 (0%)
 Strand = Plus / Plus

                                                                       
Query: 5   gaattcttgtttg-ttcttctcttgcttctccaattacagcaccaagattctgcatttcc 63
           ||||||||||||| || |||||||| ||||||||||||||||||||||||||||||||||
Sbjct: 205 gaattcttgtttgctt-ttctcttgtttctccaattacagcaccaagattctgcatttcc 263

                                                                       
Query: 64  ttttgttttggaagattctcaaggaatcctaaatccagattttagggcagttatttaaaa 123
           |||||||||||||||||||| | |||||||||||||||| ||||||||||||||||||||
Sbjct: 264 ttttgttttggaagattctcgatgaatcctaaatccagactttagggcagttatttaaaa 323

                                                                       
Query: 124 ttcttgctggtgattctgacaatggtttcctcatttttttaaaaattaggtattttttca 183
           |||||||||||| |||||||||||||||||||||||||||  ||||||||||||||||||
Sbjct: 324 ttcttgctggtggttctgacaatggtttcctcattttttt-taaattaggtattttttca 382

                                                                       
Query: 184 tttacatttccaatactatctcaaaagtccccacatacccacctcaaccacacccccacc 243
           |||||||||||||||||||| ||||||||||| ||||||||||||||||||||||| |||
Sbjct: 383 tttacatttccaatactatcccaaaagtccccccatacccacctcaaccacacccctacc 442

                                                                       
Query: 244 accaccaccacatcttgtccctggcatacccctgatttaaggcatataaagtttgcaaga 303
           |||||||||||||||||||||||||||||||||||  |||||||||||||||||||||||
Sbjct: 443 accaccaccacatcttgtccctggcatacccctgaaataaggcatataaagtttgcaaga 502

                                                                       
Query: 304 ctgatggggctctctttccaatgataaccaactagtccatcttctgatacaactgcagct 363
           ||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||
Sbjct: 503 ctgatggggctctctttccaatgatgaccaactagtccatcttctgatacaactgcagct 562

                                                                       
Query: 364 agaaacatgagctctgatatgctgctagaaaaatgagctctggggggtttctttagttca 423
           |||||||||||||||||||||| |||||||||||||| ||||| ||||||||||||||||
Sbjct: 563 agaaacatgagctctgatatgcagctagaaaaatgagttctggagggtttctttagttca 622

                                                    
Query: 424 tattgttgttccacttatgggattgcagacccctttagctc 464
           |||||||||||||||||||||||||||||||||||||||||
Sbjct: 623 tattgttgttccacttatgggattgcagacccctttagctc 663


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: 21
Number of extensions: 2
Number of successful extensions: 2
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 464
Length of database: 864
Length adjustment: 10
Effective length of query: 454
Effective length of database: 854
Effective search space:   387716
Effective search space used:   387716
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)


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