BAC Information

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BAC

Clone NameMSMg01-349M20
ChromosomeY (Build37)
Map Location 2,495,806 - 2,496,141
singlet/doubletsinglet
Overlap genenone
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, LOC676356, LOC667217
Downstream geneLOC100039613, LOC100041537, LOC667227, LOC667236, EG631479, LOC667244, LOC100039652
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-349M20.T7 (MSMg01no349_m20.b1)MSMg01-349M20.TJ (MSMg01no349_m20.g1)
ACCAG461570AG461571
length759774
length of high quality
(start - end)		565 (32 - 596)559 (69 - 627)
definitionCHROMAT_FILE: MSMg01no349_m20.b1 PHD_FILE: MSMg01no349_m20.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:41:32 2005CHROMAT_FILE: MSMg01no349_m20.g1 PHD_FILE: MSMg01no349_m20.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:41:32 2005
singlet/doublet---singlet
BLAST hitno hit dataplural
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTCACTCCTAGT
CTCCACCATTCTCGGGTGAAATAGTCGGGTGATGGTCAAGCAAGGAATCA
GGAGCTGTCATGCCATATCAGGTGCTGAAACGTCACGCTGCAGGTTATAA
AAGCAGCGCCATTTTCCCAGTTCCGGATCTTCCTGAGAAGTAAGCAATAA
AGCTCTTGCCGTGGAAGATTCTAGTTTGCTGCATCTTTCTTGCCGGCCGA
GCGGGAAGCAATAGTGAATAGCGTTTACCTCCCTGCTGTTGCTCTCCTAG
TACTGACCGGAAACTGAGGTGCCATTTCCAGCAGACTGTGCTAGGACATA
GTCATAGAACACATCTTCCTTCGAAAGCAGCTTCTAGGCTTCATTGGAAA
AAACTTAAATCTGTGAATATTGGGAACAGAGTCTGTACATAGCTCAGTTG
ACAGAGTGACTGCATAACATTTAGGATGCCTAGGACTCAGTGATTAGTGC
TGTCTTTACTTTATTGCCTTTGGTGGATCTACTTATTATCTTGTAATACA
CTTGGGATCATAGAAAGGGATATCATGGTGACCTAAGGTCAAGACTGTCA
ATGATGTTGGTTAGAGTCTTCTCTTGTATCCTCAGGTTAAAGAGACCTCC
TACCAGAGTTACTCACATTACTGAGAAACTCAAGGTTCTATTTCATTTCT
TTTAAGGCCTCTTAATTCAAAGAGTCATTGCCATTACTAGGTGTAACCAT
CACCCCCTN

XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXACCACAGATCACAAACATCCTATTCAGATTTC
TCTCTCTTTATCTATTTTTTTCTTGTTGTAGTGGTGGTGATTTTTTAAGA
GAGCCTTATAAGAATTAATTTACTCTTAGATGAATTTGGACCTTTTGAGA
AAGGTTGCGTTCCTACACCATTTTTCGCTCATGAGAAAATGGGGAGGTGG
TACATGGCTTAGAGTATAAGATCATTGGCCCCTGTGCACAGGTTCCAGGA
TTCAATTACCAGGGCCCATCTTGTTTGTCACAGCCACAGGTAAGTGCTGT
TTCAGGGGATCTGATACTATCTAACTTCTGATCTCTACACGGTCCAGTTT
AGTGCACAGGCAGCAGACACACCCCTTCAGGTAAAACATTCATAAAATAG
AAATAATGAAAATTCTACAGTTTACCAATTGCCATATAAAAGTTGATTTC
CAAATGATCACACATACTATTATGAGAGGACCTCAAAATGTGGATGTAGG
TCAAAAATTTTGATATATTTGATACTTATTTTTTCTTTCTTTTCTGTTTT
AAACCACCTAGGACCCCACATCCCAATGACCTGTAGGGGAGTAAGCCAGA
GTTCTTCCATAGTCTTTGCTTCAGTTCCTGTCTCCACTTACCAGCTCTGA
TTAAGGTGTTGTCCAGACTTCCCTAGATAACACAGTTTAAAACCTGAAAG
TTGAGAAGAGAAGGAATCCTTACN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no349_m20.g1 MSMg01no349_m20.g1 CHROMAT_FILE:
MSMg01no349_m20.g1 PHD_FILE: MSMg01no349_m20.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:41:32 2005
         (559 letters)



>mm_chrY_2495570_2496527
          Length = 958

 Score =  333 bits (172), Expect = 3e-95
 Identities = 304/360 (84%), Gaps = 27/360 (7%)
 Strand = Plus / Plus

                                                                       
Query: 37  tctttatctatttttttcttgttgtagtggtggtgattttttaagagagccttataagaa 96
           ||||| ||||||||| | ||||||| |||||||||| |||||| ||||||||| |||| |
Sbjct: 237 tctttttctatttttat-ttgttgtggtggtggtgactttttaggagagccttgtaagca 295

                                                                       
Query: 97  ttaatttactcttagatgaatttggaccttttgagaaaggttgc-gttcctacaccattt 155
           |||||||| ||||||||||||||||||||||||||||||||| | |||||||||||||||
Sbjct: 296 ttaatttattcttagatgaatttggaccttttgagaaaggtt-ctgttcctacaccattt 354

                                                                       
Query: 156 ttcgctcatgag-aaa-atggggaggtggtacatggcttagagtataagatcattggccc 213
           || ||| ||||| ||| ||  ||||||               |||||    || |||| |
Sbjct: 355 tttgcttatgagcaaacat--ggaggt---------------gtata----ca-tggctc 392

                                                                       
Query: 214 ctgtgcacaggttccaggattcaattaccagggcccatcttgtttgtcacagccacaggt 273
           || |||  ||| ||| ||||||||||||||||| ||||| ||| ||||||||||||||||
Sbjct: 393 ctatgctgaggatccgggattcaattaccagggtccatcctgtgtgtcacagccacaggt 452

                                                                       
Query: 274 aagtgctgtttcaggggatctgatactatctaacttctgatctctacacggtccagttta 333
           |||| ||||||||||||||||||||||||||||||||||| ||| ||| |||||||||||
Sbjct: 453 aagtcctgtttcaggggatctgatactatctaacttctgacctccacatggtccagttta 512

                                                                       
Query: 334 gtgcacaggcagcagacacaccccttcaggtaaaacattcataaaatagaaataatgaaa 393
           ||||||||||| |||||| || |||||||||||||  ||||||||| |||||||||||||
Sbjct: 513 gtgcacaggcaacagacatacaccttcaggtaaaatgttcataaaacagaaataatgaaa 572


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: 8
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: 559
Length of database: 958
Length adjustment: 10
Effective length of query: 549
Effective length of database: 948
Effective search space:   520452
Effective search space used:   520452
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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