BAC Information

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BAC

Clone NameMSMg01-502E22
ChromosomeY (Build37)
Map Location 1,656,916 - 1,657,373
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 nameMSMg01-502E22.T7 (MSMg01no502_e22.b1)MSMg01-502E22.TJ (MSMg01no502_e22.g1)
ACCAG577692AG577693
length775754
length of high quality
(start - end)
547 (36 - 582)529 (56 - 584)
definitionCHROMAT_FILE: MSMg01no502_e22.b1 PHD_FILE: MSMg01no502_e22.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:29:18 2005CHROMAT_FILE: MSMg01no502_e22.g1 PHD_FILE: MSMg01no502_e22.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:29:18 2005
singlet/doubletsinglet---
BLAST hituniqueno hit data
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTCTAAAC
AAGTGTAAGCTAATACACTATATAAAGCTGTACTGAGAAGCCTTAAGAAG
GCAGGTATCTCACTCTGACCAGGGCTAAGGTTGTTTCGACTGTATTGGCT
TTATTCTTCTGGAGATTCTTGTCAGGAATGGCGTCCTTTTACCAGACCAC
AACAGGAAACCTTCCATATGTCTCCTTTGGTGTCTGGGCATAGGATATGT
GAGATGCATCAAGACTGATTAAAGGTCATGTTCCCTAGATGTGAAACTGT
TTCCAGGAATACTATGGTATACACAAGGTCAACTCCAGAATACATAGCAT
CAGGTCTTTCTTGGCCAATTCAAAATTGGAGCCAAAATCTCAAGAGACAA
TGTATGTGTTGACAGACTTGCTGCTATCACACAGGTCGTGGCTTCAATTT
CCAGCAATTACATTGTGACTGTTTCTCTGTCTCTCTATCTGTCTCTCTGT
CTCTCTGTCTCTGTCTCTCTACCTCTCTCTCTTTCCTTCTAACTTCCCCA
CTCTCTGTATTGCTATCTCTCTGTATCTCAGNCTCAGACTGTGTTTCTCT
CTTTCCCTCTCACTCCCTGCCCCCCCCCTTTCTTTCTCATCCTCCCTGTA
ATTCCAGCAGCATATGCTGCTGTATCCTCTTCTGTCCTCTGATGGATTAC
ATATAAGAAGAGTCCATGCCAACTGTAATGTTTGCAAACAACATATCTGC
CTTCGCAAAATGATAAATAAAAAAA
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXAATGTTGCCTATTCAGTGACATTCAGAATTGCCTTTGGTATTACA
CTATCACTTAGAATAAAAGCCAAATCACTCCCACATACAGGAATTTACAA
TGGTTTAGGCAGTAGATCTGGCTGTGGTTTTAGGGTAATGAGATGGTTAG
CTAGAGCCAAACTCCCTAATTAGAAATATGACTTGGGTGTGAAAGCCATT
GCCCTAGGAGTGTAAGACCTCACACCTGGCTTCTAAGACTTTAGGTGACC
TTAGATAGGGCTGACTTTGTCTCAGTTGTTTTATTGACCAGTTCCTGCCT
GTCTTTGTGTTTACATTCCTCTGTTTTGTGTAAGAGCCATTAAGCACCCA
GTAACCTCATTTGTACTTTGCCAATGTGTCACCTAACTTCCCTATTTTCT
TGTGTATAAAAAGTTTGATGCTCAATTTGACAAATGACATTCAGATAGTA
CACAATCTCACGTGTTCATCTTTCTGTCATTCGCAGACTCTTTGCCCATC
TCGGACTAGTGACTCTTTCCATGCAGAAAGAGGGACCCAGAGGGTCTGTG
GCAACAGGACCAAAAACAGATTTCTTGCTATGGGAGCAATGAGAAATGGG
CTAATTTTTATTTCCTCATGAAAAGAATGGAAGATCTGGATGTCACTTAA
TGCATGATAGAAACTCTCTTGACATTTATCACAGAACCTGTGATCGTGCC
CTTT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no502_e22.b1 MSMg01no502_e22.b1 CHROMAT_FILE:
MSMg01no502_e22.b1 PHD_FILE: MSMg01no502_e22.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 20:29:18 2005
         (547 letters)



>mm_chrY_1656834_1657780
          Length = 947

 Score =  298 bits (154), Expect = 7e-85
 Identities = 387/472 (81%), Gaps = 35/472 (7%)
 Strand = Plus / Minus

                                                                       
Query: 21  taagctaatacactatataaagc-tgtactgagaagccttaagaaggcaggtatctcact 79
           |||||||| |||||| ||||||| | ||||||||||| |||||| |||||||| | ||||
Sbjct: 540 taagctaacacactacataaagcat-tactgagaagcattaagatggcaggtaccacact 482

                                                                       
Query: 80  ctgaccagggctaaggttgtttc-gactgtattggctttattcttctggagattcttgtc 138
           |||||||| |||||||||||||| | ||||||||||||||| |||| || ||||| ||||
Sbjct: 481 ctgaccagcgctaaggttgtttcag-ctgtattggctttatccttcaggggattc-tgtc 424

                                                                       
Query: 139 aggaatggcgt-ccttttaccaga-ccacaacaggaaaccttccatatgtctc-ctttgg 195
           || |||||  | |||  || |||| |||||||||||||||||||||||||||| |||| |
Sbjct: 423 agaaatgg-atacctgatatcagatccacaacaggaaaccttccatatgtctctcttt-g 366

                                                                       
Query: 196 tgtctgggcataggatatgtgagatgcatcaagactgattaaaggtcatgttccctagat 255
            ||||||||||||||||| |||||||||||| || ||||||||  |||||||||||||||
Sbjct: 365 agtctgggcataggatatatgagatgcatcaggaatgattaaacttcatgttccctagat 306

                                                                       
Query: 256 gtgaaac--tgtttccaggaatactatggtatacacaaggtcaactccagaatacatagc 313
            ||||||  | ||| |||| || ||||| ||| |||||||||| ||||| | ||| ||| 
Sbjct: 305 atgaaaccat-ttt-cagggatcctatgatatccacaaggtcagctccatactacgtaga 248

                                                                       
Query: 314 atcaggtctttcttggccaattc-aaaattggagccaaaatctcaagagacaatg--tat 370
           |||| |||||||||||||||||| |||||| || |||| |||| ||   | ||||  | |
Sbjct: 247 atcatgtctttcttggccaattcaaaaatt-gacccaacatcttaa---aaaatgacttt 192

                                                                       
Query: 371 gtgttgaca---gacttgctgctatcacacaggtcgtggcttcaatttccagcaattaca 427
            | ||  ||   || |||||||||||||| |||| |||||||||| | | ||||| ||||
Sbjct: 191 ctatt--caatggaattgctgctatcacaaaggtagtggcttcaagtgcaagcaaataca 134

                                                               
Query: 428 ttgtgactgt-t-tctctgtctctctatctg----tc--tctctgtctctct 471
           || || || | | ||||||||||| | ||||    ||  |||||||||||||
Sbjct: 133 tt-tggctatatctctctgtctctttgtctgtttttctttctctgtctctct 83


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: 16
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: 547
Length of database: 947
Length adjustment: 10
Effective length of query: 537
Effective length of database: 937
Effective search space:   503169
Effective search space used:   503169
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)