BAC Information

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BAC

Clone NameMSMg01-100H08
ChromosomeY (Build37)
Map Location 2,565,520 - 2,565,855
singlet/doubletsinglet
Overlap genenone
Upstream geneLOC667137, 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, LOC667217, LOC100039613, LOC100041537, LOC667227
Downstream geneLOC667236, EG631479, LOC667244, LOC100039652
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-100H08.T7 (MSMg01no100_h08.b1)MSMg01-100H08.TJ (MSMg01no100_h08.g1)
ACCAG316156AG316157
length687675
length of high quality
(start - end)
363 (37 - 399)535 (56 - 590)
definitionCHROMAT_FILE: MSMg01no100_h08.b1 PHD_FILE: MSMg01no100_h08.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:58:19 2005CHROMAT_FILE: MSMg01no100_h08.g1 PHD_FILE: MSMg01no100_h08.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:58:19 2005
singlet/doubletsinglet---
BLAST hitpluralno hit data
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXCAAGACAGGATCCGCGGAATTCTAT
TGTATCTTTTTTTATGATATGAAACATAACTCTCCCAAATTTTCTAGATT
TTAAACCTTCTTTACATTCTGTCCCTGCAATATGCTAATTTTCCTTAGCT
TGGCAATTCTGTCTGAGTTTTCTGACTAATACATTCTGGTGTCTGAGAAG
CCTTGATCATCTGTTAAACATTTTCTCACACAGGTTACATGTATAGGGAT
GGTCAGCAATGTGGGTCAGCTGGTGCTTAATGACGTGACATTTTTGAAGG
AATGGTCTCCCACATTCAATACAGTTAAACAGGATTCTCTCCTGTATAAA
ATCATTGATGTTCAACTAAATTTGTATTATGATTAAAGGTTTTCTGGCAC
CAGCAACACAGATGTACTTTTATTTCTTAGTGACTCCGATAATATATTTT
AAAATCTGAACGATGTTTTTCTGTGTGTGAGGCCGCATGTGTGTGTGCGC
GTGTGCGCGTGCGCTTCTCCCCCCCTCCTTCCCTTTCTTCACCACTCTCC
ACCTCCCACCCCACTCCTCACCTCCTCCTCTCCACTCTCAACCCATCTCA
CACTTTCTCCCCTTATCCCAATCCCTCCATCCTCCCCCCCTCCTTCTTCC
ATTGCTTACTCCCCCCCTTCCCTCCCTCCCCCTCACT
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXCAAGCCGCTGAAACCAAGAATAAACCCCTAATAAACTCTTTATTT
GTAAGCTGTTTTTGCCACAGTGTCTTATTGTGACAACAGAAAAGTAATTA
AAACACTCTAATTCACCTATTTTGTACATTATGAAATATGTCTTCTATAG
TACAATGAGTTTCATGGATCAATAGGGTAAATTGTACTACAACTTTAATT
TTTCAATAGCAGTGATTCTTGGCTGTTTTTTGTATTAATATGCATTTAAG
AGCATCCAGAATACATAGGCAGAGTTCTGTAATATTTGTAAAATTTGCAT
TACCATTCTTTTATTAAGGTGTATGTCACAAATGTATGTCTTATACATGT
TTTATATGTATAAATAATAATGAACTGATTACAACTATTGAAATATCATC
TATTACTTGATACAGTTATGGTATTTTATAATGACTTTAAAGAATATTGA
CAATTAACTCACTGTATATGTATATGATAATATTAAGTATAACAAGTACA
AAATTCAATAGTTCTCTGGAACTTATTTTTTTATTATATTCAGTGTAACA
ATATTTTTATGTATAAATCATAGTGGCATGTTTATGTTTCCTGCCCCAAT
GATTTGCACTCCCTTATGAAAATAA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no100_h08.b1 MSMg01no100_h08.b1 CHROMAT_FILE:
MSMg01no100_h08.b1 PHD_FILE: MSMg01no100_h08.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 17:58:19 2005
         (363 letters)



>mm_chrY_2565298_2566059
          Length = 762

 Score =  346 bits (179), Expect = 1e-99
 Identities = 302/351 (86%), Gaps = 25/351 (7%)
 Strand = Plus / Plus

                                                                       
Query: 23  tttttatgatatgaaacataactctcccaaattttctagattttaaaccttctttacatt 82
           ||||||||||| |||||||||||||||||||||||||||||||| | |||||||||||||
Sbjct: 223 tttttatgataagaaacataactctcccaaattttctagatttttatccttctttacatt 282

                                                                       
Query: 83  ctgtccctgcaatatgctaattttccttagcttggcaattctgtctgagttttctgacta 142
           |||| |||| |||||||||| |||||||||| | | || ||||||||||||| |||||| 
Sbjct: 283 ctgttcctgaaatatgctaaatttccttagcctagtaa-tctgtctgagtttcctgact- 340

                                                                       
Query: 143 atacattctg-----gtgtctgagaa-g--ccttgatca-tctgttaaacattttctcac 193
           ||   || ||     ||||||||||| |  ||   || | ||||||||||||||||||||
Sbjct: 341 at--gtt-tgtttttgtgtctgagaatgctcc---at-agtctgttaaacattttctcac 393

                                                                       
Query: 194 acaggttacatgtatagggatggtcagcaatgtgggtcagctggtgcttaatgacgtgac 253
           ||| |||||||||||||||||| |||| |||||||||||||||||  ||||||| |||||
Sbjct: 394 acaagttacatgtatagggatgatcagaaatgtgggtcagctggtttttaatgaggtgac 453

                                                                       
Query: 254 atttttgaaggaatggtctcccacattcaatacagttaaacagga-ttctctcctgtata 312
           ||||||||||||||||||||||| ||||||||||||||||  ||| ||||||||||||| 
Sbjct: 454 atttttgaaggaatggtctcccaaattcaatacagttaaa--ggacttctctcctgtatg 511

                                                              
Query: 313 aaatcattgatgttcaactaaatttgtattatgattaaaggttttctggca 363
           ||||| ||| ||||    ||| ||||||||| || ||||||||||||||||
Sbjct: 512 aaatctttggtgtt----taagtttgtattaagactaaaggttttctggca 558


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: 10
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: 363
Length of database: 762
Length adjustment: 9
Effective length of query: 354
Effective length of database: 753
Effective search space:   266562
Effective search space used:   266562
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)