BAC Information

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BAC

Clone NameMSMg01-110I14
ChromosomeY (Build37)
Map Location 1,655,943 - 1,656,284
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 nameMSMg01-110I14.T7 (MSMg01no110_i14.b1)MSMg01-110I14.TJ (MSMg01no110_i14.g1)
ACCAG323437AG323438
length727723
length of high quality
(start - end)		344 (80 - 423)475 (87 - 561)
definitionCHROMAT_FILE: MSMg01no110_i14.b1 PHD_FILE: MSMg01no110_i14.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 18:14:09 2005CHROMAT_FILE: MSMg01no110_i14.g1 PHD_FILE: MSMg01no110_i14.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 18:14:09 2005
singlet/doubletsinglet---
BLAST hituniqueno hit data
sequence
NNAAGAATATTTCGGATCTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXCGCGGAATTCAACAATTTCGGACCCTATGAAAGTAATGGA
TTGTCCAAATGCTCCCGGACTGAGAATCTTAGGGAAGCTCTAGGTTTTTT
CTTAATCTGTAATGTCATTTAGACATTAGAGCAAGCAGAGATGATTTGCT
CCTTCTCTTAGGCAATCAGATTTTATTCTGGAAGACAACCGTTGTGAGCC
TTGAGAGGGTTTGCTGGAGGAGAAGGGATATTGACAGTGCTCTACCCAAC
CTGCAAGGCACACAGCTAGACCTTGTTCCCTCTGATGCATAGAAGTGTCT
GATGGTATTAGATGGGATTCTTGATGAGGACAGAATCTGAGGAAAGGTTC
CTGGTAGAGAAATGAAGTGCAGTTATACCACCTAGAAAGTATATACCATT
GATCATTGTGAGCCTGAAACAGAAAGCACCCAAGCATTGGACCTAATGTA
TGATTGGTGAGACAGATTGAAGAGATTTTGTTTGTTTTGAATTCTCTGTA
TAGGTATGGACACATTGTCTCATGGCACGCTGTAGTGTTTTTTTTTTCGG
TTACTTTTCCCTATTACGTACTGCGCTGTCCCGCTACTTAATATTCTCGT
ACGCTCCATTTGATACCTTCGGCCTTGCCTTTTCTTATTATTGTTCGTTG
TTATTGTCTTGGAGTGTTTTTTCATCT

CAACAAAATTTTTCTATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXACCTGCTCATATGA
GGCCTCCAATACACATACAGAAGAGGACTGCTGGGAGAACTCTACAAGTC
CCCTTTCCCAACTGGAGGGCATTTCATCTAAGGTCACTCCCTTTGAGTCC
TGGGAGTCTCTCAGCTCCCAGGTCTCTGGTACATTCTAGAGGGTTTTCTC
ACCTCCTACCTCACAAAGTTGCCTGTTTCCATTCTTTTTGCTGATCTTCA
TCAATGCACTCCTGTTTCACAACCCCCCACAGTACTTGATCAAGTTCATC
TCTTCCCCTCCGTGTGTGGTTTCTCACCCAGGTCTCTCCCTCCCCCTTCT
TGTAGTAATTGTTTAACCTTCTTAACATTTCTAATTATTTTTATCATAAA
GATAATTGAATTTTTTGATTCATTATCTTATAAACTTCCCAATGCACTAG
ATACAATTATCGAAGGTACATTTGTTTGATTTTATTTCACTTCATTTTAG
TGTTGAGGTAGGCACTTAGTATGCTATGTATTCTCTAGGAAGTGATAGAG
TGTTGCGGTTCACCCTTTCGTGCTGTCGCTTCCAGTGGCATGCCTTATCT
TTACTCTGCTTCTACTTGTTCTTCTTATTATTCACTTTACTACCTTCTTT
TCATTTCTCCACCTTTTCCCCCG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no110_i14.b1 MSMg01no110_i14.b1 CHROMAT_FILE:
MSMg01no110_i14.b1 PHD_FILE: MSMg01no110_i14.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 18:14:09 2005
         (344 letters)



>mm_chrY_1655743_1656484
          Length = 742

 Score =  321 bits (166), Expect = 4e-92
 Identities = 303/350 (86%), Gaps = 14/350 (4%)
 Strand = Plus / Minus

                                                                       
Query: 1   ggaccctatgaaagtaatggattgtccaaatgctcccggactgagaatcttagggaagct 60
           |||||||||||||||||| ||||| ||||||||||| |||||||||||||| ||||| ||
Sbjct: 542 ggaccctatgaaagtaatagattgcccaaatgctcctggactgagaatcttggggaa-ct 484

                                                                       
Query: 61  -ctaggttttttcttaatctgtaatgtcatttagacattagagcaagcagagatgatttg 119
            |||||  ||||||||||||| |||| |||||||| ||| |||||||  |||||| ||||
Sbjct: 483 gctagggattttcttaatctgcaatggcatttagatattggagcaagtggagatgctttg 424

                                                                       
Query: 120 ctccttctcttaggcaatcagattt-tattctggaagacaaccgttgtgagc-cttgaga 177
           |||||||| ||||||| |||||||| | |  |||||||||| | ||||||||  ||||||
Sbjct: 423 ctccttcttttaggcactcagatttgtct--tggaagacaaactttgtgagcatttgaga 366

                                                                       
Query: 178 gggtttgctggaggagaagggatattgacagtgctctacccaacctgcaaggcacacagc 237
           |||||||||||||||||||||||||||||||||||||| |||| ||||| ||||||||||
Sbjct: 365 gggtttgctggaggagaagggatattgacagtgctctaaccaaactgcatggcacacagc 306

                                                                       
Query: 238 tagaccttgttccctctgat-gcatagaagtgtctgatggtattag-atgggattcttga 295
           ||||| |||||||||||| | |||||||| | ||||||||| || | |||  || |||| 
Sbjct: 305 tagactttgttccctctg-tagcatagaattttctgatggtgtt-gcatg--atccttgc 250

                                                             
Query: 296 tgaggacagaatctgaggaaaggttcctggtagagaaa-tgaagtgcagt 344
           ||||||||| |||||||| ||| |||| |||||| ||| || ||||||||
Sbjct: 249 tgaggacaggatctgaggcaagtttccaggtaga-aaactgtagtgcagt 201


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: 344
Length of database: 742
Length adjustment: 9
Effective length of query: 335
Effective length of database: 733
Effective search space:   245555
Effective search space used:   245555
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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