BAC Information

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BAC

Clone NameMSMg01-505E02
ChromosomeY (Build37)
Map Location 2,432,846 - 2,433,406
singlet/doubletsinglet
Overlap geneLOC676356
Upstream geneUbe1y1-ps2, LOC667137, 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
Downstream geneLOC667217, LOC100039613, LOC100041537, LOC667227, LOC667236, EG631479, LOC667244, LOC100039652
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-505E02.T7 (MSMg01no505_e02.b1)MSMg01-505E02.TJ (MSMg01no505_e02.g1)
ACCAG579939AG579940
length744750
length of high quality
(start - end)
641 (48 - 688)539 (80 - 618)
definitionCHROMAT_FILE: MSMg01no505_e02.b1 PHD_FILE: MSMg01no505_e02.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:33:07 2005CHROMAT_FILE: MSMg01no505_e02.g1 PHD_FILE: MSMg01no505_e02.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:33:07 2005
singlet/doubletsinglet---
BLAST hitpluralno hit data
sequence
NCACCTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXTCCAAGAGGATCCG
CGGAATTCTTTATTTTCAAAAAGTGATAGGATCCATCTATCTCTTCAAGG
ATATCTCCGTTTTGTTCAAAAAGAACAAAAATGCAATGCAAGTTCAGGAT
ATTGATCACCTATCCATGCATCTTAAACCCATAGGTTCTAGCCAGAATGT
AAGGTCAGAAGTCTAAACTTCACCTATACTACAACTAACTCTGAAGATAT
CTAGCAATCTCCAGTTCCTTTCTGGTACTTACCCACACCAAGTCTTCATT
AAGGAATATAGTCTAGTGTGAGATAGTGCCAGCAGTTAATTGCAAAATCC
CACTCTGAGTTGAGTTGTATGTAAACTCAGACATCTGTAATATAGACACA
CATGCATATTCACAAATACTCACAGAAAGAGGCAAGAAGTAGAGGAGATG
AATCTTAGAAATCCTCAAGGAAGAGAATGAAAATCTTGTAAGGCACAGAG
GTAAGAGAAAAACTGTGTCTTTCTGCACAAAATCAGGCCATTCTGTCTTC
CATCACTGAACGGGAAGGCTCACTATCACTTATCACTATCTGATAAGGTA
TAGACAGTTGATGAAGGATGAATAGTCAGTTTTCATCAAAGGTATTGACT
TTGAAGGTGATAGATTGTTCATTCTCTACTGGAAGCCAGATGCCCAAGAG
TTTATGGGAAACACAAATGATTTGAATGGGTTGTAACAAACGGG
NCCCGATTAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXTTTGTTCAGTTCTGAGCCCCA
TTTTTTAATGGGGTTATTTGATTTTCTGAAGTCCACCTTCTTGAGTTCTT
TATATATGTAGGATATTAGTCCCCTATCTGATTTAGGATAGGTAAAGATC
CTTTCCCAATCTGTTGGTGGTCTTTTTGTCTTATTGACGGTGCCTTTTGC
CTTGCAGAAACTTTGGAGTTTCACTAGGTCCCGTTTGTCAATTTTCGATC
TTACAGCACAAGCCATTGCTGTTTTGTTCAGGAATTTATCCCCTGTGCCC
ATATCTTCAAGGCTTTTCCCCACTTTCTCCTCTATAAGTTTCAGTGTCTC
TGGTTTTATGTGAAGTTCCTTGATCCACTTAGATTTGACCTTACTACAAG
GAGATATGTATGGATCGATTCACATTCTTCTACATGATAACAACCAGTTG
TGCCAGCACCAATTGTTGAAAATGCTGTCTTTCTTCCACTGGATGGTTTT
AGCTCTCTTGTCGAAGATCAAGTGACCATAGGTGTGTGGGTTCATTTCTG
GGTCTTCAATTCTGTTCCATTGGTCTACTTGTCTGTCTCTATACCAGTAT
CATGCAGTTTTTATCACAAATGCTCTGTAGCTTTAGATCAGGCATGGTGA
TTCCACCAGAGGTTCTTTTATCCTTGAGAAGAGTTTTTGTTATCCTAAGT

quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no505_e02.b1 MSMg01no505_e02.b1 CHROMAT_FILE:
MSMg01no505_e02.b1 PHD_FILE: MSMg01no505_e02.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 20:33:07 2005
         (641 letters)



>mm_chrY_2432580_2433625
          Length = 1046

 Score =  389 bits (201), Expect = e-112
 Identities = 476/581 (81%), Gaps = 36/581 (6%)
 Strand = Plus / Plus

                                                                       
Query: 67  gttcaaaaagaacaaaaatgcaatgcaag-ttcaggatattgatcacctatccatgcatc 125
           |||||| ||||| |||||| |||||| || |||||||| |||||| || |||| ||||||
Sbjct: 267 gttcaagaagaagaaaaattcaatgc-agtttcaggatcttgatc-cccatccctgcatc 324

                                                                       
Query: 126 ttaaacccataggttctagccagaatgtaaggtcagaagtctaaacttcacctatactac 185
           |||| |||||||| |  || ||||| || |||||||||||||||||||||||||||||||
Sbjct: 325 ttaatcccatagggtggagtcagaaggttaggtcagaagtctaaacttcacctatactac 384

                                                                       
Query: 186 aactaactctgaagatatctagcaatctccagttcctttctggtacttacccacaccaag 245
           ||| |||| ||||||| |||||| |||||| ||| || |||||||||||  |||||||||
Sbjct: 385 aaccaactgtgaagatttctagccatctcctgtttctgtctggtacttagtcacaccaag 444

                                                                       
Query: 246 tcttcattaaggaata-t---agtctagtgtgagatagtgccagcagttaattgcaaaat 301
           ||| | |||||| ||| |   |||||||||||||||||||||||||| | ||||||||| 
Sbjct: 445 tctgccttaaggcatactgcaagtctagtgtgagatagtgccagcagatgattgcaaaaa 504

                                                                       
Query: 302 cccactctgagttgagttgtatgtaaactcagacatctgtaatatagacacacatg--ca 359
           |||||| || ||||| ||||| ||||| | |||||||| ||||||||||||||| |  ||
Sbjct: 505 cccactatgtgttgacttgtacgtaaaatgagacatctataatatagacacacacgtaca 564

                                                                       
Query: 360 tattcacaaatactcacagaaagaggcaagaagtagaggagatgaatcttagaaatcctc 419
           ||  |||| ||||||||||||||||| ||||||| ||| || ||| |||||| || ||||
Sbjct: 565 ta--cacacatactcacagaaagaggtaagaagtggagaagctgagtcttaggaaccctc 622

                                                                       
Query: 420 aaggaagagaatga----aaatcttgtaaggcacagaggtaagagaaaaactgtgtcttt 475
           ||||||||||  ||    ||||||||||||||||||||||          |||||||| |
Sbjct: 623 aaggaagaga--gagtagaaatcttgtaaggcacagaggt----------ctgtgtctat 670

                                                                       
Query: 476 ctgcacaaaatcaggccattctgtcttccatcactgaac-gggaaggc-tcactatcact 533
           |||||||||||| ||  |||||| ||||||| | || |  |||| ||| |||||||| ||
Sbjct: 671 ctgcacaaaatcgggttattctggcttccatta-tggagtgggagggcctcactatccct 729

                                                                       
Query: 534 tatca--ct-atctgataaggtatagacagttgatgaaggatgaatagtcagttttcatc 590
              ||  || |||||| || |||| |||||||| ||  ||| | | ||||||||||||||
Sbjct: 730 ---cattcttatctgagaaagtatggacagttgttgggggagggagagtcagttttcatc 786

                                                    
Query: 591 aaaggtattgactttgaaggtgatagattgttcattctcta 631
           |||||||| | ||||||| ||||||| |||| ||| |||||
Sbjct: 787 aaaggtatggcctttgaaagtgataggttgtccatgctcta 827


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: 9
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: 641
Length of database: 1046
Length adjustment: 10
Effective length of query: 631
Effective length of database: 1036
Effective search space:   653716
Effective search space used:   653716
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)