BAC Information

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BAC

Clone NameMSMg01-070L06
ChromosomeY (Build37)
Map Location 1,578,160 - 1,578,735
singlet/doubletsinglet
Overlap genenone
Upstream geneUty, Ddx3y, LOC100042763, LOC385246, Usp9y, LOC100039278, EG667079, LOC667089, Rhoay-ps1, Zfy2, Ube1y1-ps2
Downstream 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, LOC100041537, LOC667227
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-070L06.T7 (MSMg01no070_l06.b1)MSMg01-070L06.TJ (MSMg01no070_l06.g1)
ACCAG294661AG294662
length685711
length of high quality
(start - end)
572 (45 - 616)368 (74 - 441)
definitionCHROMAT_FILE: MSMg01no070_l06.b1 PHD_FILE: MSMg01no070_l06.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:17:52 2005CHROMAT_FILE: MSMg01no070_l06.g1 PHD_FILE: MSMg01no070_l06.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:17:52 2005
singlet/doubletsinglet---
BLAST hitpluralno hit data
sequence
TCAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGA
ATTCTTGTGAGATCATGTCATCACAGAGGGATCCAATGGGCTAGAAAGAG
AAAAGAGGGAATCAAACTCCCTTTCATAATTAAACCTTTTCTATAACAGC
ATTATTAAATTATTTTTATATGTAGGTCATATCCCTCCTGACCCATTCAA
TTTATTCCAAATATATTCACACCTGGGGATTAATCTTCAGAAAATTATTT
TGGGGAAAAACATGTGATTATTTCAACATCTATAGTAGTGTGGGGGCATT
ATTCTCCCTACATCATGTACACTTAAGATCTTTAGATACCTCCTTCCCTG
TGATAGCCTTGCAGCTCACTGAGTGACATGTGCATTTGATGATAAATGAT
ACACAAACTTTGAAGCACCTTACCATATCCTGTCACTCATATCATGTTCA
ACATAGCAAGAACCACAAGTGAGTTGAAAAATACAAATACATTTTTTAGT
GTCTTGAAGCTAAAATCCCCAAATTAATCAAAATATTATTTGGACTCTGT
TACTTTAAACCAGTGTTTTATTAAGTGTACAAGTCGCAGGCCTTTTCTGT
GAACCTTTGCACAGGTTTACAGTGTCCTTTTACCATCTTCATCCTCCCCA
CTATCCTCCATTGCTATCAGATCTCCCCCCTCCTG
TCGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXCAAGCCCAGGATCCGCCCAAGGACTAC
CTAGAATATTGGTGAAGGACAGGGAGCAAAGTTGGATATTGCTTAGGTAT
TTGCCAAGTCATTACTTGGAGGCACTTATAATAAAACAACATTGAAAGAA
GTCACAAAGATTCAATCACTTACTAATTTAAGGACAAGTTTGATGCATTT
TTTCCAGGATGGTATGTTCCTAAAGACTTAGTTTCCATGAACTTTTTGAC
TAGGGACTGTGTCTAAATATTTAGGACTGTCATGGGAGTCACTACTGGGG
TTTGTGTTCCAATGGCTGGTGTGCGTTTGTGTGTGGGTGTGTGAGTGCGT
GTGTGTTTGTGTGAGTGTTGTGTGTGTTTATGTGTGTGTGCGCAGCCTAC
TTTTTCCACCCCACCTTTCCCTTTTTTTTTGCGCATTATCCTTTTCTTAC
GACGTGTTATAATTGATCTGCAACAAAACATGATTATAATACTATTTATT
GTCCTTTTGCACTTTAGGTCGCGCGTTGTTATCATATTTCTTCTTAGATC
AAGTTGTATATTTTATTCTATTGACTCCTGCTTTTAGTCGCTGGTCTGTC
TGTTCCACGTTTTATCTTACAACCCTCTCTTAATTTACGATCAATTTTAA
TTTATTTCTCG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no070_l06.b1 MSMg01no070_l06.b1 CHROMAT_FILE:
MSMg01no070_l06.b1 PHD_FILE: MSMg01no070_l06.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 17:17:52 2005
         (572 letters)



>mm_chrY_1577957_1578929
          Length = 973

 Score =  431 bits (223), Expect = e-125
 Identities = 488/599 (81%), Gaps = 56/599 (9%)
 Strand = Plus / Plus

                                                                       
Query: 4   ggaattcttgtgagat-catgtcatcacag-agggatccaatgggctagaaagagaaaag 61
           |||||||||||||||| | ||||||||||| ||||||||||||||||||||||| |||||
Sbjct: 204 ggaattcttgtgagatgc-tgtcatcacagaagggatccaatgggctagaaagacaaaag 262

                                                                       
Query: 62  agggaatcaaactccctttcataattaaaccttttctataacagcattattaaatt-att 120
           |||||  |||| ||||||||||||||||||||||||||||||||||||||||| || |||
Sbjct: 263 agggagccaaagtccctttcataattaaaccttttctataacagcattattaa-ttgatt 321

                                                                       
Query: 121 tttatatgtaggtcatatccctcctgacccattcaatttattccaaatatattcacacct 180
           ||||| ||||||||||||||||||||||||| ||||||| ||  |||||||||| |||||
Sbjct: 322 tttatttgtaggtcatatccctcctgacccaatcaatttcttttaaatatattcccacct 381

                                                                       
Query: 181 ggggattaatcttcagaaaatta-ttttggggaaaaacat--------gtgat------- 224
           ||||||||||||||||||||||| ||||||| ||| ||||        | |||       
Sbjct: 382 ggggattaatcttcagaaaattacttttgggcaaacacattcaaacaagagatgggggta 441

                                                                       
Query: 225 --tatttcaacatctatagtagtgtgggggcattattctccctacatcatgtacacttaa 282
             |||||||||||||||||||| |||||  ||||||||| ||||| | |||||| |||| 
Sbjct: 442 aatatttcaacatctatagtagggtgggaacattattcttcctacctaatgtacccttac 501

                                                                       
Query: 283 gatctttagatacctccttccctgtgatagccttgcagctcactgagtgacatgtgcatt 342
           ||||| ||| || |||||||||| || |||||| ||| |||| |||||||| |||   ||
Sbjct: 502 gatctctagctatctccttccctatggtagcctagcaactcattgagtgacttgtt--tt 559

                                                                       
Query: 343 tgatgataaatgatacacaaa--ctttgaagcaccttacca----tatcctgtcactcat 396
           ||||||| ||| |||||||||  ||  |||| |||||        ||||||||||| |||
Sbjct: 560 tgatgattaataatacacaaagact--gaagtacctt----gtggtatcctgtcacccat 613

                                                                       
Query: 397 atcatgttcaacatagcaagaaccacaagtgagttgaaaaatacaaatacattttttagt 456
           |||| | |||| ||||||| | |||||        |||||||||||||| | ||| ||||
Sbjct: 614 atcaagctcaaaatagcaacagccaca--------gaaaaatacaaataaactttatagt 665

                                                                       
Query: 457 gtcttgaagctaaaa-tccccaaattaatcaaaat-attatttggactctgttactttaa 514
           |||||||| |||||| ||||||| ||||||||||  ||||||| |||| ||||| |||| 
Sbjct: 666 gtcttgaatctaaaaatccccaatttaatcaaaaacattatttagactttgttattttat 725

                                                                      
Query: 515 accagtgt--tttattaagtgtacaagtcgcaggccttt-tctgtgaac-ctttgcaca 569
           | || |||  ||||   |||||||||||| | || |||| | ||||| | |||||||||
Sbjct: 726 atcaatgtgcttta---agtgtacaagtcactgggctttgt-tgtga-ctctttgcaca 779


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: 572
Length of database: 973
Length adjustment: 10
Effective length of query: 562
Effective length of database: 963
Effective search space:   541206
Effective search space used:   541206
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)