BAC Information

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BAC

Clone NameMSMg01-384O06
ChromosomeY (Build37)
Map Location 2,861,327 - 2,861,890
singlet/doubletsinglet
Overlap genenone
Upstream geneUbe1y1-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, LOC100039652
Downstream genenone
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-384O06.T7 (MSMg01no384_o06.b1)MSMg01-384O06.TJ (MSMg01no384_o06.g1)
ACCAG488220AG488221
length725716
length of high quality
(start - end)		543 (37 - 579)562 (68 - 629)
definitionCHROMAT_FILE: MSMg01no384_o06.b1 PHD_FILE: MSMg01no384_o06.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:27:17 2005CHROMAT_FILE: MSMg01no384_o06.g1 PHD_FILE: MSMg01no384_o06.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:27:18 2005
singlet/doublet---singlet
BLAST hitno hit dataplural
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTCACAC
GATGTCATGTGACTATACTCAAGGAAGTGGCATAAGGTTCCAGGATTGGC
CTCCTCCTCTTGATTTCTGTGAACTTTGAGCAGAGGGAGCAATTCTCCTT
GATCAGAGGTAAAATATCCCATGGGTTCCTGAATAGAAGGGATTTTTATG
AGAGCCCATTGCATCAAAGGTGTACATTTTATGACCTTGATCATCACAGG
AAGGAAAATACTATAGGTTTGGAAAAGAGAAAGTCTCTCAAACCTGTTGG
ACAGTAGGGGAGTTGTCCTGTTCACCTTCTGTAGAGGAGTTTGTTCCAGG
CACTCCAGGCCTCCACATCTTCAGAGAACTCTAAAAAAATTCTTATCTCT
GAGGACTCTATGCGGATTTGACAGCATTCAGAGGTTTCTTCTGACAAGTC
GGCTCAAAGTCCCTGGATTTGTTCCCTATTAAACTTACAAGGAAGCACAC
AGGTGTGGTTGTAGAGTACAGTTACCTTTCTGATGACCAGCTTAAAGAGA
GCCTTGGATCCAGGCAGAGGTTTTCATAAATTGGCCATGGGACTTGACTC
TGGAGTCTCTGAGATTTGTTTTGCTTGTTTGCTTTTGGTGGTCAAAAGTA
TATTCCCTTAACAATAAAGTCTGAAGGATAAGCTCTTATTTGAGTGGTAG
AACTGAGTCCTTCGCGGATCAAGAC

GTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXCTGGTGGGCAGCAGCAGTACAGAAAAGGATCTA
GTATGTTTCCACCACTAACTGACCCCCATTTAACTCACAACTCACATCCC
CGGGCCCCAAGAATACTTTTAGGGTCTCCAATTCCCTAGCCTTCCTGGTT
TCTGCTAGGTGATCATCTGTTCAATCTCCTGCCCATAGGGAAAAAGTTCT
CTGTTTTTCTTGGGTAAAGTGTATTGTGAACCCAGAAGCATTAACAGCAG
GAGTCCAATGAGGGTCACCTGCTCTCCTTTCTCCTTTAGTAACACCTCCA
TCCCTCCACCATCATCCAACTGGGACCCCCAGCTGAACCAGGATTGAACA
TCTTTCAACAGTTCACTGACTAACTCCACAGAGACTTTTCCCTACCATGC
TTCCTCAAGAAGTTTACTTCCTCAGGAAATCAGCTTCCTGGCCACCACAA
AGCATACTGAGTAACAGAGTTTGGACAGCAGGAAAACAATCTTAGCCAAG
CCCATTGCTGATTGGCCTGTTTACACATTCCTACAAAGGGTGAGAGAGGA
TTTATCAGTCATCTGTCATCACAGTAGCAAAAAGGAGGTAGTATTTTAGC
TTCCACTACTACTAAAAGTTTTTCCATTTTTCAAGTTTGCAATACTAACT
TGAAAGTAAGAAAAAA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no384_o06.g1 MSMg01no384_o06.g1 CHROMAT_FILE:
MSMg01no384_o06.g1 PHD_FILE: MSMg01no384_o06.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 23:27:18 2005
         (562 letters)



>mm_chrY_2861127_2862090
          Length = 964

 Score =  859 bits (444), Expect = 0.0
 Identities = 537/568 (94%), Gaps = 10/568 (1%)
 Strand = Plus / Minus

                                                                       
Query: 1   ctggtgggcagcagcagtacagaaaaggatctagtatgtttccaccactaactgaccccc 60
           |||| |||||||||||||||||||||||||||||| | ||||||||||||||||||| ||
Sbjct: 764 ctggcgggcagcagcagtacagaaaaggatctagtctttttccaccactaactgacctcc 705

                                                                       
Query: 61  a-tttaactcacaactcacatccccgggccccaagaatacttttagggtctccaattccc 119
           | ||| ||||||||||||||||||| |||| |||||||||||||||||||||||||||||
Sbjct: 704 agttt-actcacaactcacatccccaggcctcaagaatacttttagggtctccaattccc 646

                                                                       
Query: 120 tagccttcctggtttctgctaggtgatcatctgttcaatctcctgcccatag-ggaaaaa 178
           ||||||||||||||||||||||||||| |||||||||||||||||||||||| |||||||
Sbjct: 645 tagccttcctggtttctgctaggtgataatctgttcaatctcctgcccatagcggaaaaa 586

                                                                       
Query: 179 gttctctgtttttcttgggtaaagtgtattgtgaacccagaagcattaa-cagcaggagt 237
           ||||| |||||||||||||||||||| |||||| ||||||||||||||| || |||||||
Sbjct: 585 gttctatgtttttcttgggtaaagtggattgtggacccagaagcattaacca-caggagt 527

                                                                       
Query: 238 ccaatgagggtcacctgctctcctttctcctttagtaacacctccatccctccaccatca 297
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 526 ccaatgagggtcacctgctctcctttctcctttagtaacacctccatccctccaccatca 467

                                                                       
Query: 298 tccaactgggacccccagctgaaccaggattgaa-catctttcaacagttcactgactaa 356
           ||| ||||||||||||||||||||||||||| || |||||||||||||||||||||||||
Sbjct: 466 tcccactgggacccccagctgaaccaggatt-aaccatctttcaacagttcactgactaa 408

                                                                       
Query: 357 ctccacagagacttttccctaccatgcttcctcaagaagtttacttcctcaggaaa-tca 415
           |||||||||||||| | ||||||||||||||||||||| || ||||||||| |||| |||
Sbjct: 407 ctccacagagacttctgcctaccatgcttcctcaagaacttcacttcctca-gaaactca 349

                                                                       
Query: 416 gcttcctggccaccacaaagcatactgagtaacagagtttggacagcaggaaaacaatct 475
           ||||| ||||||||||||||||||||||||||||| ||||||||||||||||||||||||
Sbjct: 348 gcttcttggccaccacaaagcatactgagtaacagggtttggacagcaggaaaacaatct 289

                                                                       
Query: 476 tagccaagcccattgctgattggcc-tgtttacacattcctacaaagggtgagagaggat 534
           ||||||||||||||||||| ||||| ||||||| |||| |||||||||||||||||||||
Sbjct: 288 tagccaagcccattgctgaatggccctgtttacccatttctacaaagggtgagagaggat 229

                                       
Query: 535 ttatcagtcatctgtcatcacagtagca 562
           ||||| ||||||||||||||||||||||
Sbjct: 228 ttatcggtcatctgtcatcacagtagca 201


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: 20
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: 562
Length of database: 964
Length adjustment: 10
Effective length of query: 552
Effective length of database: 954
Effective search space:   526608
Effective search space used:   526608
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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