BAC Information

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BAC

Clone NameMSMg01-233I09
ChromosomeY (Build37)
Map Location 2,478,311 - 2,478,912
singlet/doubletsinglet
Overlap geneLOC667217
Upstream geneUbe1y1-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, Rhoay-ps2, LOC100039568, LOC100041505, LOC100039581, LOC676356
Downstream geneLOC100039613, LOC100041537, LOC667227, LOC667236, EG631479, LOC667244, LOC100039652
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-233I09.T7 (MSMg01no233_i09.b1)MSMg01-233I09.TJ (MSMg01no233_i09.g1)
ACCAG399698AG399699
length727708
length of high quality
(start - end)		348 (380 - 727)631 (76 - 706)
definitionCHROMAT_FILE: MSMg01no233_i09.b1 PHD_FILE: MSMg01no233_i09.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:50:14 2005CHROMAT_FILE: MSMg01no233_i09.g1 PHD_FILE: MSMg01no233_i09.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:50:14 2005
singlet/doublet---singlet
BLAST hitno hit dataplural
sequence
CTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGG
AATTCTTAATGACTCTTGTGCAAAATAGAGGAATAAAAACATAATGACTC
GCAGGGACTGAGCAATATAATACCTGAGATGAATACTTCTCTAAAGCCAG
CTACATCCTTTGAAGCCAGGTTTGAACACTTTATGATCACACCTTGCAAA
TGGCTTTCACACTCAAGCCATGATTCTAATTAGGGAGTTTCTCTCTAGCT
AATCTTCTCATGAATAATTCAAAACTGTTGTTCCCCCTCAAACCACAGCA
CAATTTATTTCCTAAACCACTGTAAATTCCTGTATATGAGAGGGATTGTA
TGGGGGAATCTTTCTACTGACAACCAATTTAGTCTGCCTTGCATAAGTAT
AACAAATATTCTAAACATACTTTCCTAAACTTGTCCTGAGATTTTTATCT
CTATGTAGTATATAGCAATGGTTGTCACTATCTCTCTTATAATACTAGAG
GTAACTCTGCTTGTTACTGGTAACATTCTTACTGAATTCCAAGCCCAGGA
TCGGCTCAAGGACTACCTAGAATATTGGTAAAGGGCAGGGATCAAAGTTG
GATATTGCTTAGGTGTTTGCCAAGTCATTACTTGGAGGCACTTATAATAA
AACAACATTGAAAGAAGGCACAGAGATTCAATCACGTACTAATCTAAGGA
CAAGTTTGATGCATTTTTTCCAGGATG

CCGATGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXCCACGGAGATGAGACACTTGAAAAA
TCCTTACTCTCAGATAGGTTTCGGTATTTCATTTCTTTGAAAAGGAACAC
CAATTTAAAAAGACAAAAGCTAGATTGTTTTGTGCACGAGTTGAATCAGA
AACATTTGATAATGTGCATACAGGGACTCACCACATTTTTACAAATATAT
ATATATATATATATTGAGAGGGTGAAAGGAGACATCTGGAGAACCATAAG
CCCCTTATTAGCAATAAAAATTCCTGAGGTCAAGTAATAACCTTTAGCAA
CAACAATAACAACAACAATAAAAACAACAACAAGAATAGATGTTCAATAG
GAAGAACTTTTTTTATTTAAATAACCTTCCATTTAGCCACAGAAAGAGGG
GGCATGATCCATCTGCAACACTTTATAGGTGCTTTTTACAATTACCACTA
AAATTTTAAAAATAATATGGATTTTTAAAAAAATGTAATTGAAGTAAAAT
AGATTTTTCAGCTGTTATTTCGGGGTAAAATATGTTCTAGAATTAAATAA
AGAGTGTAAGAACTACTTGATTTTTTAATAAAGAACATCCTTATAACTCA
TGTGTCAGTAAGTATCAGGAGTATAATGCAGTTGATTTTCTCAGTCTAGA
ATAATTTN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no233_i09.g1 MSMg01no233_i09.g1 CHROMAT_FILE:
MSMg01no233_i09.g1 PHD_FILE: MSMg01no233_i09.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 20:50:14 2005
         (631 letters)



>mm_chrY_2478105_2479136
          Length = 1032

 Score =  290 bits (150), Expect = 2e-82
 Identities = 498/636 (78%), Gaps = 67/636 (10%)
 Strand = Plus / Plus

                                                                       
Query: 7   agatgagacacttgaaaaatccttactctcagatagg-tttcggtattt-catttctttg 64
           |||||||||  ||||||||||||||||||||| |||| ||| |||||||  |||||  ||
Sbjct: 207 agatgagacttttgaaaaatccttactctcaggtaggcttt-ggtatttatatttccctg 265

                                                                       
Query: 65  aaaaggaacaccaatttaaaaagacaaaagctagattgttttgtgcacgagttgaatcag 124
           |||||||||||||||  ||||||||| ||||||||| |  |||| ||| |||||||||||
Sbjct: 266 aaaaggaacaccaatggaaaaagacagaagctagatagcattgtccacaagttgaatcag 325

                                                                       
Query: 125 aaacatttgataatgtgcatacagggactcaccacatttttacaaatatatatatatata 184
           ||||||||||||||||||||||||||| ||||||||||||||||  || | | ||| || 
Sbjct: 326 aaacatttgataatgtgcatacagggattcaccacatttttacagttaaaaaaatacat- 384

                                                                       
Query: 185 tatat-tgagagggtgaaaggagacatctggagaaccata-agcc---cctt-attagca 238
               | || |||| ||||||||||| ||||||     ||| || |   |||| ||||| |
Sbjct: 385 ----tgtgtgaggctgaaaggagacctctgga-----atacagtcagtccttcattagta 435

                                                                       
Query: 239 ataaaaa---ttcctgaggtcaagtaataacctttagcaacaacaataacaacaacaata 295
            ||||||   | ||||| | |||| |||||| || | ||| ||||| | ||||||||| |
Sbjct: 436 ttaaaaaaaatccctgaagccaagaaataacattcaacaataacaacagcaacaacaaca 495

                                                                       
Query: 296 aaaacaa---caacaagaatagatgttcaataggaagaactttttttatttaaataacct 352
           | |||||   |||||| ||||||| |||| ||||||||||||||||| ||||| ||||||
Sbjct: 496 acaacaaaaccaacaaaaatagattttcattaggaagaacttttttt-tttaa-taacct 553

                                                                       
Query: 353 tccatttagccacagaaagagggggcatgatccatctgcaacactttataggtg-ctttt 411
               |||||  ||||||||||||||||||||||| |||  ||| ||||||| |  || | 
Sbjct: 554 g---tttagtaacagaaagagggggcatgatccagctgggacattttatagataactat- 609

                                                                       
Query: 412 ta--caattaccactaaa-attttaaaaataatatggatttttaaaaaaatgtaatt-ga 467
            |  || ||||||||||| ||||||||  ||||||| | |||||||||  | ||||| ||
Sbjct: 610 -aatca-ttaccactaaatattttaaa--taatatgcagttttaaaaa--t-taatttga 662

                                                                       
Query: 468 agtaaaat-agatttttcagctgtta----tttcggggtaaaatatgttctagaatta-- 520
           | |||||| |||  ||| |||||| |    |   |||  ||||| ||| | ||||  |  
Sbjct: 663 a-taaaattagaaatttaagctgtcaaaagt---ggg--aaaatgtgtcccagaa--agc 714

                                                                       
Query: 521 aataaagagtgtaagaact---acttgattttttaataaagaa---catccttataactc 574
           || |||| |||||||||||   ||||| |||||  | ||| ||   ||||||||||||||
Sbjct: 715 aacaaagcgtgtaagaactcatacttgcttttt--acaaaaaatatcatccttataactc 772

                                               
Query: 575 atgtgtcagtaagtatcaggagtataatgca-gttg 609
           || |||| || |||||||||| || |||||| ||||
Sbjct: 773 atatgtctgttagtatcaggattaaaatgcaagttg 808


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: 631
Length of database: 1032
Length adjustment: 10
Effective length of query: 621
Effective length of database: 1022
Effective search space:   634662
Effective search space used:   634662
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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