BAC Information

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BAC

Clone NameMSMg01-543L08
ChromosomeY (Build37)
Map Location 2,432,846 - 2,433,445
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 nameMSMg01-543L08.T7 (MSMg01no543_l08.b1)MSMg01-543L08.TJ (MSMg01no543_l08.g1)
ACCAG609180AG609181
length751755
length of high quality
(start - end)
670 (49 - 718)674 (80 - 753)
definitionCHROMAT_FILE: MSMg01no543_l08.b1 PHD_FILE: MSMg01no543_l08.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 21:24:09 2005CHROMAT_FILE: MSMg01no543_l08.g1 PHD_FILE: MSMg01no543_l08.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 21:24:10 2005
singlet/doubletsinglet---
BLAST hitpluralno hit data
sequence
ACATCTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCG
CGGAATTCTTTATTTGACACAAAGTGATAAGATCCATCTATCTCTTCAAG
TATATCTCTGTTTTGTTCAAAAAGGAGAAAAATGCAATCCAAGTTCAGGA
TCTTGATCCCTTATCCATGCATCTTAAACCCATAGGGGCTAGCCAGAATG
TAAGGTCAGAAGTCTAAACTTCACCTATACTACAACTAACTCTGAAGATA
TCTAGCAATCTCCAGTTCCTTTCTGGTACTTACCCACACCAAGTCTGCAT
TAAGGAATATGGTCTAGTGTGAGATAGTGCCAGCAGTTAATTGCAAAATC
CCACTATGTGTTGAGTTGTATATATACTGAGACATCTGTAATATAGACAC
ACATGCATATTCACAAATACTCACAGAAAGAGGCAAGAAGTAGAGGAGCT
GAAACTTAGAAATCCTCAAGGAAGAGAATGAAAATCTTGTAAGGCACAGA
GGTAAGAGAAAAACTGTGTCTTTCTGCACAAAATCAGGACATTCTGTCTT
CCATCACTGAATGGGAAGGCTCACTATCTCTTATCGCTATCTGATAAGGT
ATAGACAGTTGATGAAGGATGAATAGTAAGTTTTCATCAAAGGTATTGAC
TTTGAAGGTTATAGATTGTTCATGCTCTACTGGAAGCCAGATGCCTAAGA
GTTTATGGGAAACACAAAAGATTTGAATGGGTTGTAACAAAGGGGAAGAG
A
NCCCGATGACXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXTCACCTGAGGAATACCAAATG
GCTAAGAAGCACCTGAAACAATGTTCACCATCCTTAATCAGCAGTGAAAT
GTAAATCAAAACAACCCTGAGATTCCATCTCACACCAGACAGAATGGCTA
AGATCAAATATTCAGATGACAGCAGATGCTGGCAAGGATGTGGAGAAAGC
AGAAAACTCCTCCATTGTTGTTGGAATTGCAAGTTTTAAATCATCTCTGG
AAATGAGAAAATTGGAAATTGTACTACCATAGGCTCACACAATACCTGTC
CTGGGCATATATCCAGAAGCTGTTCCAACTAGTAAGACACATGCTCCACT
ATGTTCAGAGCAGCCTTATTTATAGTAGCCAGAAGCTGGAAAGAATCCAG
ATGCCTGTCAACAGAAAATGTTTACAAAATTGTGGTACATTTACACAATG
GAGTACTACTACTAATAGTACAGCTATTGAAAAGAATGAGTTTATGAAAT
TTATAGGCAAATGGTTGGACCTGGAGAGCATCATCCTGAGTGAGGTAACT
CAATCACAAAAGAATGCTAATGATATGTACTCACTAATAAGTGGATATTA
GCCCTGAAACCTAGAATAACCCCAAGGTATAAGACACAATTTGCCAAATA
CATGAAACTCAAGAAGAACGAANACCAAAGTGTGGACACTTGCCCCTTCT
TAGAA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no543_l08.b1 MSMg01no543_l08.b1 CHROMAT_FILE:
MSMg01no543_l08.b1 PHD_FILE: MSMg01no543_l08.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 21:24:09 2005
         (670 letters)



>mm_chrY_2432580_2433654
          Length = 1075

 Score =  420 bits (217), Expect = e-121
 Identities = 512/625 (81%), Gaps = 46/625 (7%)
 Strand = Plus / Plus

                                                                       
Query: 67  gttcaaaaaggagaaaaatgcaatccaag-ttcaggatcttgatcccttatccatgcatc 125
           |||||| ||| |||||||| |||| | || |||||||||||||||||  |||| ||||||
Sbjct: 267 gttcaagaagaagaaaaattcaatgc-agtttcaggatcttgatccc-catccctgcatc 324

                                                                       
Query: 126 ttaaacccatagg--ggctagccagaatgtaaggtcagaagtctaaacttcacctatact 183
           |||| ||||||||  ||  || ||||| || |||||||||||||||||||||||||||||
Sbjct: 325 ttaatcccatagggtgg--agtcagaaggttaggtcagaagtctaaacttcacctatact 382

                                                                       
Query: 184 acaactaactctgaagatatctagcaatctccagttcctttctggtacttacccacacca 243
           ||||| |||| ||||||| |||||| |||||| ||| || |||||||||||  |||||||
Sbjct: 383 acaaccaactgtgaagatttctagccatctcctgtttctgtctggtacttagtcacacca 442

                                                                       
Query: 244 agtctgcattaaggaata-tg---gtctagtgtgagatagtgccagcagttaattgcaaa 299
           ||||||| |||||| ||| ||   ||||||||||||||||||||||||| | ||||||||
Sbjct: 443 agtctgccttaaggcatactgcaagtctagtgtgagatagtgccagcagatgattgcaaa 502

                                                                       
Query: 300 atcccactatgtgttgagttgta--tatatactgagacatctgtaatatagacacacatg 357
           | ||||||||||||||| |||||  || | | |||||||||| ||||||||||||||| |
Sbjct: 503 aacccactatgtgttgacttgtacgtaaa-a-tgagacatctataatatagacacacacg 560

                                                                       
Query: 358 --catattcacaaatactcacagaaagaggcaagaagtagaggagctgaaacttagaaat 415
             ||||  |||| ||||||||||||||||| ||||||| ||| ||||||  ||||| || 
Sbjct: 561 tacata--cacacatactcacagaaagaggtaagaagtggagaagctgagtcttaggaac 618

                                                                       
Query: 416 cctcaaggaagagaatga----aaatcttgtaaggcacagaggtaagagaaaaactgtgt 471
           ||||||||||||||  ||    ||||||||||||||||||||||          ||||||
Sbjct: 619 cctcaaggaagaga--gagtagaaatcttgtaaggcacagaggt----------ctgtgt 666

                                                                       
Query: 472 ctttctgcacaaaatcaggacattctgtcttccatcactgaa-tgggaaggc-tcactat 529
           || ||||||||||||| ||  |||||| ||||||| | || | ||||| ||| |||||||
Sbjct: 667 ctatctgcacaaaatcgggttattctggcttccatta-tggagtgggagggcctcactat 725

                                                                       
Query: 530 ctcttatcgct-atctgataaggtatagacagttgatgaaggatgaatagtaagttttca 588
           | || ||  || |||||| || |||| |||||||| ||  ||| | | ||| ||||||||
Sbjct: 726 ccctcatt-cttatctgagaaagtatggacagttgttgggggagggagagtcagttttca 784

                                                                       
Query: 589 tcaaaggtattgactttgaaggttatagattgttcatgctctactggaagc--cagatg- 645
           |||||||||| | ||||||| || |||| |||| ||||||||| ||| |||  ||  || 
Sbjct: 785 tcaaaggtatggcctttgaaagtgataggttgtccatgctctagtggtagctcca--tgt 842

                                    
Query: 646 cctaagagtttatgggaaacacaaa 670
           || ||||||||||||| | ||||||
Sbjct: 843 cc-aagagtttatgggcagcacaaa 866


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: 13
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: 670
Length of database: 1075
Length adjustment: 10
Effective length of query: 660
Effective length of database: 1065
Effective search space:   702900
Effective search space used:   702900
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)