BAC Information

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BAC

Clone NameMSMg01-177H20
ChromosomeY (Build37)
Map Location 2,549,982 - 2,550,172
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
Downstream geneLOC100041537, LOC667227, LOC667236, EG631479, LOC667244, LOC100039652
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-177H20.T7 (MSMg01no177_h20.b1)MSMg01-177H20.TJ (MSMg01no177_h20.g1)
ACCAG371865AG371866
length725737
length of high quality
(start - end)
---233 (125 - 357)
definitionCHROMAT_FILE: MSMg01no177_h20.b1 PHD_FILE: MSMg01no177_h20.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 19:50:04 2005CHROMAT_FILE: MSMg01no177_h20.g1 PHD_FILE: MSMg01no177_h20.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 19:50:04 2005
singlet/doublet---singlet
BLAST hitno hit dataplural
sequence
TCATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGA
ATTCTACCTCGTACTGAATATGGATATGACATTTGATTCACACCAAAATC
ATAAATTTATTAAAACTAACTCCAATAATTTTCTGTGGAAAGATTCGTGT
GCGTAACAAAAAACGTCCTATGATGAGACTCCAACTTAAAGTGCATCTCG
CATGAAAGTAAAACCCCTAGACGTTCCCCACGCTTGTTTTCCCTGATCTC
TGAAAATACCGTTAGGAACAATCTCTTTGCTCTCTATATTCCGCACAAAG
GCTTTTTGTTTCTATACTTTTCTACCAAAGATGCCTGCCTTCCTGTGCCA
AGGACTAGGTGTATTTAATCTACAACCCACTCACGCCCCACTCCTGCCTT
GTAAATTTCCACACCACCACCAGGAAGAGAGGAACTCCCCTAAAAACATT
TCCCAACTCCTCCCAACTCTCCTCCCAACTCCTCCCAATTCCTCAGCTAG
CTGTTAAAAGCCCCTTACTGTCACAGCTCGGTGACAAACTCCCCTGCCCT
GCTAGGCAGAGTGACTTTGTCTTCACCCAGCTAATAGTAAAAACTCTTGC
AATTTGCATCAGTTGTGGTTTTCTCTTGGTACATTGGGGTGCTGGTCAGC
TCATTCCAGGACTTGAGAGGAGGTCCCGCTTCTGAGGTCTTACATTTGGG
GGCTTCTCCACCATGATTTGCGGCN
NCGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXCTACTCAAAGTCTTTGGAGACACAGGGA
TTTTATTGGGTTCTTATGCCCAAGGGAGAGTGTTTGTGCTCCATTAAAAA
GGTACTCACATTCACTATTTTGATGCCTTTCTTTCTATTTGAGTGTGCTT
TGTACTTTTGTCTGCTATGTGTTGTGTTCTGTGTTCTTTGTTACTAACTC
TAGGGTTCTTCCCATACTTGGAAAATGAAAGTCAGTTTGAAAACCTTTCA
TATTTGTTCTCTGTATATATTTTCTCTCTCTCTCTCTCTCTCTCTCTCTC
TCTTTCTCATGCCTTCCCCCCCCCCCCCTGTAAGTGTTTAAACTGTGTGT
GACTGTGGGTCCCCCCCACAAAAAAAAAAAAAAAATAGGGGGTGTTGTAT
TTGTTAAATGCCAACGGACACAAACTGACATACACCCGCGTCAATATTGT
CTATAAAACTTTTCAAACTTGGAAAATGATTGAGAATTATTGAAACCGGA
CTAAAATTGATAATTAACGGTACCTTCAGCAATTTGAAAAAATGGATTAA
AGAGTCAAAAAATATGGGATAACGCGAAAAATTGGCAAAAAAAGTTTAAA
ACAGGTGGCCAACCTTTCATCAAACCTAAACCATACCACTAAATTTTCAT
ATCCAATTGTTTCATGCGGGATAAACATTTTTAAATT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no177_h20.g1 MSMg01no177_h20.g1 CHROMAT_FILE:
MSMg01no177_h20.g1 PHD_FILE: MSMg01no177_h20.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 19:50:04 2005
         (233 letters)



>mm_chrY_2549774_2550410
          Length = 637

 Score =  145 bits (75), Expect = 2e-39
 Identities = 163/197 (82%), Gaps = 16/197 (8%)
 Strand = Plus / Plus

                                                                       
Query: 9   tttgtgctccattaaaaaggtactcacattcactattttgatgcctttcttt---ctatt 65
           ||||||||| |||| |||| | || |||||| |||  |||||||| | |  |   |||||
Sbjct: 209 tttgtgctctattataaagatccttacattccctacattgatgcc-tgc--tggcctatt 265

                                                                       
Query: 66  tgagtgtgctttgtacttttgtctgctatgtgttgtgttctgtgttctttg-ttactaac 124
           |||||||||||||||| |||||||||||||||||||||||||||||||| | ||| ||||
Sbjct: 266 tgagtgtgctttgtacatttgtctgctatgtgttgtgttctgtgttctt-gattattaac 324

                                                                       
Query: 125 tctagggttcttcccatacttggaaaatgaaagt-----cagtttgaaaacctttcatat 179
           || ||| |||||  | |||||| ||||||||| |     |||||||||||||||||||||
Sbjct: 325 tcaagg-ttcttatcttacttgcaaaatgaaactattctcagtttgaaaacctttcatat 383

                            
Query: 180 ttgttct-ctgtatata 195
           || | || |||||||||
Sbjct: 384 ttct-cttctgtatata 399


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: 2
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: 233
Length of database: 637
Length adjustment: 9
Effective length of query: 224
Effective length of database: 628
Effective search space:   140672
Effective search space used:   140672
X1: 7 (13.9 bits)
X2: 517 (999.5 bits)
X3: 517 (999.5 bits)
S1: 7 (14.4 bits)
S2: 7 (14.3 bits)