BAC Information

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BAC

Clone NameMSMg01-434J07
ChromosomeY (Build37)
Map Location 1,655,339 - 1,655,866
singlet/doubletsinglet
Overlap genenone
Upstream geneUsp9y, LOC100039278, EG667079, LOC667089, Rhoay-ps1, Zfy2, Ube1y1-ps2, LOC667137, LOC100039373, LOC100039381, LOC667143
Downstream geneLOC100039401, 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, EG631479, LOC667244
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-434J07.T7 (MSMg01no434_j07.b1)MSMg01-434J07.TJ (MSMg01no434_j07.g1)
ACCAG526091AG526092
length751752
length of high quality
(start - end)		550 (25 - 574)441 (69 - 509)
definitionCHROMAT_FILE: MSMg01no434_j07.b1 PHD_FILE: MSMg01no434_j07.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:59:02 2005CHROMAT_FILE: MSMg01no434_j07.g1 PHD_FILE: MSMg01no434_j07.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:59:02 2005
singlet/doubletsinglet---
BLAST hitpluralno hit data
sequence
XXXXXXXXXXXXXXXXXXXXXXXXTTTCAGAGGATCCGCGGAATTCTCTG
CTGATCTGCACAGGAAAGCACAGAAATCTAGGACTATACAGAAATATCCA
GTTCCAGAGAAGAAAAACAAAAGAAACAGTGAGGAATTGGGAAGTACAAA
TAAGAATTTGAATGTACAGATTGTAAATCCTGTCTCTGGGAATAATAATC
AAGATACTTTGAAAGGAACAATCAAGCCATGTTTAAAAGACTGGACACAC
CATTTGGCATATGTTATATAAATCAGTAAAAATAATTAAAAATGTCTCAT
TAAAATTCACAACAGTCCCCTTAAGTTTTTTCTTCTGGTTTTCTTCTTTA
AATATCTTATTGAATCTGAAGTGATGGCTCAGCATTTCTGAACACTGGCA
GCTCATGCACAGCATACACTTGGACTTGCCACATTTCCATAGGCTGTTTA
CAACTTCTTCTATTTTAGTAACCACAGGGAATCCACACTCCCCCTTCCCA
TGAGACAATGTATCCATACCTATACAGAGAATTCAAAACAAACAAAATGT
CTTCAATCTGTCTCACCAATCATACATTAGGTCCCATGCTTGGGGTGCTT
TCTGCTTCAGGCTCATAATGATCCATGTGATATACTTTCTAGATTGTATA
AACGCCCTTCATTTTCTCTACCAAGAAAACTTTTCCTCCAATTCGGTCCC
TCTTAAAAATCCCTTTTATAACACCAGAAACTTTTTTTTGCTCTTAGGAA
N

GTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXACTCCTAGTCACTCCCATTCTCCCATTCTCGG
GGTGAAATATTCAGGTGATGGGCAAGCAATGAATCAGGAGCTGTCATGCC
ATATCAGGTGCAGAAATGTCACGCTGCAGGTTATAAAAGCAGCGCCATTT
TCCCGGTTCGGGATCTTCCTGATAAGCAAGCAATAAAGCTCTTGCTGTGG
AAGATTCTAGTTTGTTGTATCTTTCTTGCCAGTTGAGCGGGACGCAATAG
TGAATAGCTTTTACCTCCCTGCTGTTGCTCTCCTAGTACTGACCAGAAAC
TGAGGTGCCATTTCCAGCAGACTGTTCTAGGACATAGTCATAGAACACAT
CTTCCTTCGAAAGCAGCTTCTAGGCTTCATTGGAAAACCTTAAATCTGTG
AATATTGGGAACAGAGTCTGTACATAGCTCAGTTGACAGAGTGACTGCCT
AGCATTTAGGATGCCTAGGACTCAGTGATTAGTGCTGTCTTTACTTTATT
GCCTTTAGTNGGTCTACTTATATATTGTAATACCCTTGGGATCATAGAAA
GGGATATCATGATGACCTAAGAACAAGACTGGCCATGATGGTTGGTTAAA
ACCTTCTCTTGGATCTTCTGGTCAAAAAAACTTGATTCCATAAGGCCACC
TCTTTTTGGGAAAAACCCAGCTTCCCATCTCTTTTCCTCTTTATTGCTCC
TN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no434_j07.b1 MSMg01no434_j07.b1 CHROMAT_FILE:
MSMg01no434_j07.b1 PHD_FILE: MSMg01no434_j07.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:59:02 2005
         (550 letters)



>mm_chrY_1655123_1656070
          Length = 948

 Score =  437 bits (226), Expect = e-127
 Identities = 460/540 (85%), Gaps = 22/540 (4%)
 Strand = Plus / Plus

                                                                       
Query: 17  gaattctctgctgatctgcacaggaaagcacag-aaatctaggactatacagaaatatcc 75
           |||||||||||||| ||||||||||| ||| || ||| |||||||||| |||||| || |
Sbjct: 217 gaattctctgctgaactgcacaggaaggcatagaaaaactaggactatccagaaaaatgc 276

                                                                       
Query: 76  agttccagagaagaaaaaca-aaagaaaca-gtgaggaattgggaag-tacaaataagaa 132
           ||| ||||| |||||||||| ||| ||| | | |||||||||| |||  | |||||||  
Sbjct: 277 agtcccagaaaagaaaaacagaaa-aaa-aggagaggaattggtaagcaaaaaataag-- 332

                                                                       
Query: 133 tttgaatgtacagattgtaaatcctgtctctgggaataataatcaagata-ctttgaaag 191
             ||||||| | |||||||||||||||||||| ||||||||||||||| | |||| ||||
Sbjct: 333 --tgaatgt-ctgattgtaaatcctgtctctgagaataataatcaagacaccttt-aaag 388

                                                                       
Query: 192 gaacaatcaagccatgtttaaaag-actggacacaccatttggcatatgttatataaatc 250
           ||||||| || |||||  |||||| ||| ||||||| || ||||| ||||||||||||||
Sbjct: 389 gaacaatgaaaccatgagtaaaagaactagacacacaatatggcaaatgttatataaatc 448

                                                                       
Query: 251 agtaaaaataattaaaaatgtctcattaaaattcacaacagtccccttaagttttttctt 310
           |||| ||| |||||||||||| ||||||||| | | || | |||||||| ||||| ||||
Sbjct: 449 agtagaaacaattaaaaatgtgtcattaaaaatgaaaatattccccttatgttttctctt 508

                                                                       
Query: 311 ctggtttt-cttctttaaatatcttattgaatctgaagtgatggctcag-catttctgaa 368
            ||||||| ||| ||||||| |||||||||||||| || ||| | |||| | |||||| |
Sbjct: 509 gtggttttcctt-tttaaatgtcttattgaatctggagggattgatcagac-tttctgga 566

                                                                       
Query: 369 cactggcagctcatgcacagcatacacttggacttgccacat-ttccataggctgtttac 427
           ||| | |||| ||| ||||||||||||||||||||||||| | |||||| |||| |||||
Sbjct: 567 caccgccagcacatacacagcatacacttggacttgccac-tcttccattggctctttac 625

                                                                       
Query: 428 aacttcttctattttagtaaccacagggaat-ccacactcccccttcccatgagacaatg 486
           |||| | |||| || ||| ||||||||| || |||||||||| ||||||||| |||||||
Sbjct: 626 aactccgtctacttcagtgaccacaggg-atgccacactccctcttcccatgggacaatg 684

                                                                       
Query: 487 tatccatacctatacagagaattcaaaacaaacaaaatgtcttcaatctgtctcaccaat 546
           ||| ||||||||||||||||||||||||||||||||||||||||||  ||||||| ||||
Sbjct: 685 tattcatacctatacagagaattcaaaacaaacaaaatgtcttcaaagtgtctcagcaat 744


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: 6
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: 550
Length of database: 948
Length adjustment: 10
Effective length of query: 540
Effective length of database: 938
Effective search space:   506520
Effective search space used:   506520
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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