BAC Information

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BAC

Clone NameMSMg01-173G18
ChromosomeY (Build37)
Map Location 1,655,621 - 1,655,996
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 nameMSMg01-173G18.T7 (MSMg01no173_g18.b1)MSMg01-173G18.TJ (MSMg01no173_g18.g1)
ACCAG369033AG369034
length724725
length of high quality
(start - end)
396 (329 - 724)278 (382 - 659)
definitionCHROMAT_FILE: MSMg01no173_g18.b1 PHD_FILE: MSMg01no173_g18.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 19:44:06 2005CHROMAT_FILE: MSMg01no173_g18.g1 PHD_FILE: MSMg01no173_g18.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 19:44:06 2005
singlet/doubletsinglet---
BLAST hitpluralno hit data
sequence
CTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXGCGCGGA
ATTCTCTGCTGTTACGCACAAGAAAGCACAGAAATCTAGGACTATACAGA
AATATCAAGTTCCAGAGATGAACCCCAAAAGAAACAGGGAGGAATTGGGA
AGTACAAATAAGAATTTGAATGTACAGATTGTAAATCCTGTCTCTGGGAA
TAATAATCAAGATACTTTGAAAGGAACAATCAAGCCATGTTTAAAAGACT
GGACACACCATTTGGCATATGTTATATAAATCAGTAAAAATAATTAAAAA
TGTCTCATTAAAATTCACAACATTTTTCTTAAGTTTTTTCTTCTGGTTTT
CTTCTTTAAATATCTTATTGAATCTGAAGTGATGGCTCAGCATTTCTGAA
CACTGGCAGCTCATGCACAGCATACACTTGGACTTGCCACATTTCCATAG
GCTGTTTACAACTTCTTCTATTTTAGTAACCACAGGGAATCCACACTCCC
CCTTCCCATGAGACAATGTATCCATACCTATACAGAGAATTCAAAACAAA
CAAAATCTCTTCAATCTGTCTCACCAATCATACATTATGTCCAATGCTTG
GGTGCTTTCTGTTTCAGGCTCACAATAATCAATGGTATATACTTTCTAGG
TTGTATAACTGCACTTCATTTCTCTACCAGGAACCTTTCCTCAGATTCTG
TCCTCATCAAGAATCCCATCTAAT
CGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXACTCCTAGTCACTCCCATTCTCGG
GGTGTAATAGTGGGGTGATGTTCACCCAATGAATCAGGAGCTGTCATGCC
ATATCAGGTGCTGAAACGTCCGCTGCTAGTTATAAAAGCAGTGCCATTTT
CCCGGATCGGAATCTTCCTGAGAAGCAAGCAATAAAGCTCTTGCTGAGGA
AGATTCTGGTTTGTTGCATCTTTCTTGCTGGTCGAGCTGGACGCAATAAG
TGGTGCCAAAACCCGGGAACTGTCATCACACCAGCGCAAGGAAGATCCCT
CATTCACGGGGCAGAATCATAACTGTGGCACAAAAGGCTCTACAAGGTAC
GTACAATCTTGAAATTTCTCCAGAGTTAGAAGCCCTTTTGATTGTTTGCA
TGGCGATTACACTTTTCCTTTTGGTTTCGTTTTGTTTCCACCACTGGAAC
TGTTGACTGGTTCTTAGTCGCAGTCAGGCCTGGACAGCGCCTGGATAGCA
ACCAATTTCAGGACCGGTCAGGCCTGGACAGCGGCAGTATGGGAATCTCC
CATTCTATAGTAGTGGGCTTACGCTCAGTCCTGAAGCAGTGTGGCCTAAA
AATCGCCACTAAGACCTAAGAGGGATTTGTCAGAGAGATAGACCGTGTTG
CACCATGTTATGCTTGCTCATTGTN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no173_g18.b1 MSMg01no173_g18.b1 CHROMAT_FILE:
MSMg01no173_g18.b1 PHD_FILE: MSMg01no173_g18.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 19:44:06 2005
         (396 letters)



>mm_chrY_1655417_1656209
          Length = 793

 Score =  279 bits (144), Expect = 3e-79
 Identities = 325/386 (84%), Gaps = 17/386 (4%)
 Strand = Plus / Plus

                                                                       
Query: 5   gttttttcttctggtttt-cttctttaaatatcttattgaatctgaagtgatggctcag- 62
           ||||| |||| ||||||| ||| ||||||| |||||||||||||| || ||| | |||| 
Sbjct: 205 gttttctcttgtggttttcctt-tttaaatgtcttattgaatctggagggattgatcaga 263

                                                                       
Query: 63  catttctgaacactggcagctcatgcacagcatacacttggacttgccacat-ttccata 121
           | |||||| |||| | |||| ||| ||||||||||||||||||||||||| | |||||| 
Sbjct: 264 c-tttctggacaccgccagcacatacacagcatacacttggacttgccac-tcttccatt 321

                                                                       
Query: 122 ggctgtttacaacttcttctattttagtaaccacagggaat-ccacactcccccttccca 180
           |||| ||||||||| | |||| || ||| ||||||||| || |||||||||| |||||||
Sbjct: 322 ggctctttacaactccgtctacttcagtgaccacaggg-atgccacactccctcttccca 380

                                                                       
Query: 181 tgagacaatgtatccatacctatacagagaattcaaaacaaacaaaatctcttcaatctg 240
           || |||||||||| |||||||||||||||||||||||||||||||||| |||||||  ||
Sbjct: 381 tgggacaatgtattcatacctatacagagaattcaaaacaaacaaaatgtcttcaaagtg 440

                                                                       
Query: 241 tctcaccaatcatacattatgtccaatg-cttgggtgctttctgtttcaggctcacaata 299
           ||||| |||| || ||||| |||||||| ||  | |||| || | ||||||||||| || 
Sbjct: 441 tctcagcaattatgcattaggtccaatgtctcag-tgctctcagcttcaggctcacgat- 498

                                                                       
Query: 300 atcaatggtatatacttt-ctaggttgtataactgcacttca-tttctctaccaggaacc 357
            | |||||| |||| ||| |||  ||||||||||||||| || ||| |||||| |||| |
Sbjct: 499 -t-aatggtttata-tttgctaccttgtataactgcactacagttt-tctacctggaaac 554

                                     
Query: 358 tttcctcagattctgtcctcatcaag 383
           || |||||||| ||||||||| ||||
Sbjct: 555 ttgcctcagatcctgtcctcagcaag 580


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: 5
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: 396
Length of database: 793
Length adjustment: 9
Effective length of query: 387
Effective length of database: 784
Effective search space:   303408
Effective search space used:   303408
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)