BAC Information

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BAC

Clone NameMSMg01-145P05
ChromosomeY (Build37)
Map Location 1,260,930 - 1,261,412
singlet/doubletsinglet
Overlap genenone
Upstream geneJarid1d, Eif2s3y, Tspy-ps, Uty, Ddx3y, LOC100042763, LOC385246, Usp9y, LOC100039278, EG667079
Downstream geneLOC667089, Rhoay-ps1, Zfy2, Ube1y1-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
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-145P05.T7 (MSMg01no145_p05.b1)MSMg01-145P05.TJ (MSMg01no145_p05.g1)
ACCAG349617AG349618
length704703
length of high quality
(start - end)
533 (46 - 578)455 (75 - 529)
definitionCHROMAT_FILE: MSMg01no145_p05.b1 PHD_FILE: MSMg01no145_p05.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 19:07:11 2005CHROMAT_FILE: MSMg01no145_p05.g1 PHD_FILE: MSMg01no145_p05.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 19:07:11 2005
singlet/doubletsinglet---
BLAST hitpluralno hit data
sequence
TTCATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGG
AATTCATATCCAAAGTCCAACAATCAGCTCCATGGGATCTGACAACTCAT
GCCTCCGTGGTCACCTGTACTCACAAGCACATGCCCTACACCCACCCATA
TAAGTAAAGATAATAAATGTTAAAATGAGAGACAAGTTTCATTAGGTTTC
ATTACTCAAATGATACCTGATTTTGTTTGATTTCTGAGTCTCTTTGGATT
AGTTTCCTGGATTGCACTTTGTGTAACAAGGCCACATTCCTTTTATCTAT
CACTCTTTCCCCAACTTGTTGTTTCTCCCTCAGACTTCATACCAGAGATT
CTATCTATGCTTGTTTTATCCCCTACTTCCTAAACATCCATCTTTTGCTG
CCATCCCTGCTCCTCTAAGTCGTATCTCCAATTCCTTGCTCACTATGCAG
ACCATAGAAGCTAAGTCCTGTCCATTTTTGCCTGTGTGATATTAGATGTA
TGCACTGTTCACAGCCTGAGTTTCAACATTCATCTTCCTTTTGATGTTCT
TTCCACCATAGTCCATCTTTACCAACAAAATGTTCACTAAAAGCATGTCA
TGTCACACGTATTTATTTTTAGAACAAAAAAAATTCATTGTCAAAGATAC
TGGGGTTGTCAAAGACCCATAAGTAACCCGTACAGGAAAACAAACATTTA
TTTN
NCGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXTCACCTGAGGAATACCGAATGGCAGA
GAAGCACCTGAAAAATTGTTCAACATCCTTAATCATCAGGGAAATCCAAA
TCAAAACAACCCTGAGATTCCACCTCACACCAGTCAGAATGGCTAAGATG
AAAAATTCAGGTGACAGCAGATGCTGGCATGGATGTGGAGAAAGAGGATC
ACTCCTCCATTGTTGTTGGGATTGCAGGCTTGTACAACCACTCTGGAAAT
CAGTCTGGCGGTTCCTCAGAAAATTGGACATAGTACTACCGGAGGATCCA
TCAATACCTTTTCTGGGCATATATCCAGAAGATGCCCCAACTTGTAGCAC
TATGTTCAAGCAGCCTTATATAGCCAGAAGCTGGAAAGAACCCAGATGCC
CCTCAACAGAGGAATGGATACAGAAAATGTGGTACATCTACACAATGGAG
TACAACTCAGCTATTAAAAAGAATGAATTTTTGAAATTCCTAGGCAAATG
GTTGGACCTGGAGGGCATCATCCTGAGTGAGGTAACACATTCACAAAGGA
ACTCACACGATATGTACTCACTGATAAGTGGATATTAGCCCCAAACCTAA
GATACCCCAGATATAAGATACAATTTGCTAAACCCATGAAAACTCACTAA
GAA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no145_p05.b1 MSMg01no145_p05.b1 CHROMAT_FILE:
MSMg01no145_p05.b1 PHD_FILE: MSMg01no145_p05.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 19:07:11 2005
         (533 letters)



>mm_chrY_1260701_1261629
          Length = 929

 Score =  435 bits (225), Expect = e-126
 Identities = 428/501 (85%), Gaps = 32/501 (6%)
 Strand = Plus / Minus

                                                                       
Query: 30  cagctccatgggatctgacaactcatgcctccgtggtcacctgtactcacaagcacatgc 89
           |||||||| |||| |||||||||||||  || ||||||||||||||||||||||||||||
Sbjct: 712 cagctccaggggacctgacaactcatgtttctgtggtcacctgtactcacaagcacatgc 653

                                                                       
Query: 90  cctacacccacccatataagt-aaagataataaatgttaaaatgagagacaagtttcatt 148
           ||||| |||||||| |||||| ||| ||||||||| |||||| |||||||||||||||||
Sbjct: 652 cctacccccacccacataagtcaaa-ataataaatcttaaaaagagagacaagtttcatt 594

                                                                       
Query: 149 aggtttcattactcaaatg-atacctgattttgtttgatttctgagtctctttggattag 207
           ||||||||||| ||||||| | ||||| |||| | |||||||||||||| ||||||| ||
Sbjct: 593 aggtttcattattcaaatgga-acctgtttttctctgatttctgagtctgtttggatcag 535

                                                                       
Query: 208 tttcctggattgcactttgtgtaa--caaggccacattccttttatctatcactctttcc 265
           |||  ||| || ||| |||||  |  ||||||||||||| |||||||| ||||||    |
Sbjct: 534 ttttttgggtttcacattgtg--attcaaggccacattctttttatctgtcactc----c 481

                                                                       
Query: 266 ccaacttgt-tgtttctccctcagacttcataccagagattctatct-atg-cttgtt-t 321
           ||||||| | ||||||||||||||| |||||||||||||||||| || ||| |||||  |
Sbjct: 480 ccaactt-tatgtttctccctcaga-ttcataccagagattcta-cttatgtcttgtcct 424

                                                                       
Query: 322 tatcccctacttcctaaacatccatcttttgctgccatccctgctcctctaagtcgt-at 380
           | |||| |||||||||||||||||||||||||||||||||||| ||||| ||||| | ||
Sbjct: 423 tctcccttacttcctaaacatccatcttttgctgccatccctggtcctccaagtc-tcat 365

                                                                       
Query: 381 ctccaattcc-ttgctcactatgcagaccatagaagctaagtcctgtccatt--ttt-gc 436
           ||||||| || || ||| | ||||||| || ||||||||||||||||   ||  ||| ||
Sbjct: 364 ctccaatgccatt-ctctccatgcagatcagagaagctaagtcctgt---ttagtttagc 309

                                                                       
Query: 437 ctgtgtgatattagatgtatgcactgttcacagcctgagtttcaa-cattcatcttcctt 495
            |||||||||||||||||||  ||||||||||  |||| ||  || | ||||||||||||
Sbjct: 308 atgtgtgatattagatgtatatactgttcacaatctgaattg-aagctttcatcttcctt 250

                                
Query: 496 ttgatgttctttccaccatag 516
           | ||||||| |||||||||||
Sbjct: 249 t-gatgttccttccaccatag 230


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: 12
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: 533
Length of database: 929
Length adjustment: 10
Effective length of query: 523
Effective length of database: 919
Effective search space:   480637
Effective search space used:   480637
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)