BAC Information

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BAC

Clone NameMSMg01-235F22
ChromosomeY (Build37)
Map Location 1,792,496 - 1,792,815
singlet/doubletsinglet
Overlap genenone
Upstream geneUsp9y, LOC100039278, EG667079, LOC667089, Rhoay-ps1, Zfy2, Ube1y1-ps2, LOC667137, LOC100039373, LOC100039381, LOC667143, LOC100039401, LOC100039430, Vmn2r-ps137
Downstream geneLOC100039450, 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, LOC100039652
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-235F22.T7 (MSMg01no235_f22.b1)MSMg01-235F22.TJ (MSMg01no235_f22.g1)
ACCAG400964AG400965
length723733
length of high quality
(start - end)		323 (46 - 368)297 (77 - 373)
definitionCHROMAT_FILE: MSMg01no235_f22.b1 PHD_FILE: MSMg01no235_f22.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:52:41 2005CHROMAT_FILE: MSMg01no235_f22.g1 PHD_FILE: MSMg01no235_f22.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:52:41 2005
singlet/doubletsinglet---
BLAST hituniqueno hit data
sequence
TCATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGG
AATTCTGGTCCAGATTACTTGAGACAGCAGGTCCTCCTAAAGGGATACTC
TCCTCTTCAGCCTCCTTCAGTCTTTCTCCAATTCCCCAATGGTTCAGCAG
ATTCTGTCCATTGGTTGGTTGCAGACATATGCATCTGATTGTTTCAACTG
CTCATTAGGTCTTCAGAAGTGCATTCATGCTAGTATTCACATTACAATTA
TGTGAATTCAGAATTCAGCAGAGTTCGTGGACTGCAAGCAGGTCTTCTGA
AAAAGCAATGCATGATATAATTACCTGAATTTTCTGGCAGTGCTCTTCAA
TATTGTGTTCTACGTGATGCAATACCCCACTCTCTTTCTCTATCTCTGTC
TCTGTCTCTGTCCCTCTCTGTCTCTGTCTCTCTCTGTCTCTTTGTCTCTC
TCTCTCTGTCTCTCTGTATCTGTCTCTGTCTCTGTCTCTGTCTCTGTCTC
TCTCTCTCTCTCTCTCTTTCTCTCTCTCTCTGTCTGTCTCTCTCAATATC
TATTCCTCTAACACTCAGTATGACTAATGATTCTCTTATCTTCTCTTCTA
CAAAGGGGATGATATTTTAATGTCATCTGCAAATTGTTATTCTGAATCGG
AGTAGGGAAAGGACACTTTAAATCTGTTGTTACACCCAAGAGCATGGCTT
TTAAAACCTGGTGAATCAGTAAN

CGATGACXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXAAGGCATACACCTAAAAAAAAATA
AAAAGAAGGAGAAGAAAAGGAAAGAAAAGAAAAGAAAAGAAAAGAAAAGA
AAAGAAAAGAAAAGAAAAGAAAAGAAAAGAAAAGAAGGCCCAGGATTTAA
CTTTAATCTAAATGGTCAGAAACCAGAAGGAATCCCACTAAAATCTGGGA
CTGGACAAGGCTGCCCACTTTCCCCCTACCTATTTAATAGAGTACTTGAA
ATACTAGCCAGAGTAATTACACAAAAAAACAAAACAAAACAAAACAAAAC
AAAACAACAACAACAAAACAAAATAAAACCCACCCCACACAAAACGAAAA
CAGATGAATAAAAATTGGAAAGGAAGAAGCCAAAATTTCTCTATTTCCAG
AAGATATGATAGCATGTATCTATGACCCCAAAAATTACAACAGAGAAAAC
CTAATCCTGATACACATTTTCAGCTTAGGAGCTGAATTTAGAATAAATTT
AAACATAACAGTGGAATTTCTCTGCAGAAAAGACACATAGTATGAGAAAG
AAATTAGGAAAAAACGTGCTTCATAGTAGTCACAAATAATATAAAATTCC
TTGGTGTGACTCTGAGAAAGTGAAATATATGTATGATAAACACTTCATGA
TTCTTCAAGAAAGAAATCAAAGAAGATCTCTGG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no235_f22.b1 MSMg01no235_f22.b1 CHROMAT_FILE:
MSMg01no235_f22.b1 PHD_FILE: MSMg01no235_f22.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 20:52:41 2005
         (323 letters)



>mm_chrY_1792108_1792830
          Length = 723

 Score =  476 bits (246), Expect = e-139
 Identities = 303/322 (94%), Gaps = 5/322 (1%)
 Strand = Plus / Minus

                                                                       
Query: 5   gaattctggtccagattacttgagacagcaggtcctcctaaagggatactctcctcttca 64
           |||||||||||| || || || ||||||||||||||||||||||||||| |||||||| |
Sbjct: 708 gaattctggtcctgaataattaagacagcaggtcctcctaaagggataccctcctcttaa 649

                                                                       
Query: 65  gcctccttcagtctttctccaattc-cccaatggttcagcagattctgtccattggttgg 123
           ||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||
Sbjct: 648 gcctccttcagtctttctccaattcacccaatggttcagcagattctgtccattggttgg 589

                                                                       
Query: 124 ttgcagacatatgcatctgattgtttcaactgctcattaggtcttcagaagtgcattcat 183
           |||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||
Sbjct: 588 ttgcagacatatgcatctgattgtttcaactgctcattaggtctgcagaagtgcattcat 529

                                                                       
Query: 184 gctagtattcacattacaattatgtgaattcagaattca-gcaga-gttcgtggactgca 241
           ||||||||||||||||||||||||||||||||| |  || ||||| ||| | ||||||||
Sbjct: 528 gctagtattcacattacaattatgtgaattcagga-gcacgcagaggtt-gcggactgca 471

                                                                       
Query: 242 agcaggtcttctgaaaaagcaatgcatgatataattacctgaattttctggcagtgctct 301
           ||||||||||||| ||| |||||||||||||||||||||||||||||||| |||||||||
Sbjct: 470 agcaggtcttctgcaaaggcaatgcatgatataattacctgaattttctgtcagtgctct 411

                                 
Query: 302 tcaatattgtgttctacgtgat 323
           |||||||||| |||||||||||
Sbjct: 410 tcaatattgtattctacgtgat 389


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: 12
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: 323
Length of database: 723
Length adjustment: 9
Effective length of query: 314
Effective length of database: 714
Effective search space:   224196
Effective search space used:   224196
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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