BAC Information

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BAC

Clone NameMSMg01-446G09
ChromosomeY (Build37)
Map Location 2,861,456 - 2,861,875
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 nameMSMg01-446G09.T7 (MSMg01no446_g09.b1)MSMg01-446G09.TJ (MSMg01no446_g09.g1)
ACCAG535104AG535105
length736727
length of high quality
(start - end)
419 (66 - 484)504 (71 - 574)
definitionCHROMAT_FILE: MSMg01no446_g09.b1 PHD_FILE: MSMg01no446_g09.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 19:14:54 2005CHROMAT_FILE: MSMg01no446_g09.g1 PHD_FILE: MSMg01no446_g09.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 19:14:54 2005
singlet/doubletsinglet---
BLAST hitpluralno hit data
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTC
CTGGGGTGCCGCAACAGTACAGAAAAGGATCTAGTCTGTTTCCACCAGTA
ACTGACCGCCAGTTTACTCACAACTCACATCCCCAGGCCCCAAGAATACT
TTTAGGGTCTCCAATTCCCTAGCCTTCCTGGTTTCAGCTAGGTGATAATT
TGTTCAATCTCCTGCCCATAGCGAAAAAGTTCTCTGTTTTTCTTGGGTAA
AGTGGATTGTGAACCCAGAAGCATTAACCACAGGAGTCCAATGAGGGTCA
CCTGCTCTCCTTTCTCCTTTAGTAACACCTCCATCCCTCCACCATCATCC
CGCTGGGACCCCAAGCTGAACCAGGATTAACCATCTTTCAACAGTTCACT
GACTCCCTCCACAGAGACTTCTGCCTACCATGCTTCCTCCAGAACTTTAC
TTCCTCAGGAACTCAGCTTCCTGGCCACCACAAAGCATACTGAGCAACAG
GGTTTGCACAGCAGGAATACACTTTTACCCCAATTCATTGCTGATTGTTT
CTTGTTTACCTTTTCCTATCTTTAGTGTTTGATGATTTATCATCCCTCTT
GTCCTCACAGCAATTCTTGGTTGGCCCTTTTTTCACCTACCCCCTCTTAT
TCTGTATTTCTTTCCACTCTTCTTCGTTCGGTTATACACCGTCCTATCCA
CTTCCTTATTATGTATTCGCTTCTTGCCACAATTTG
AATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXAAGGCCCATATCTAAACATAAAAAAAAAAT
ACAATAGACAGCAAACGAGTAGGAAACATTAAACTAAATGAAACAATCTC
ATTAAAATCAGGGACTAGACAAGGCTGCCCACTTTCTTCATACCTATTGA
ATATAGTAGTTGAAGTCCTAACCAGAGCAATTAGACAACAAAAGGAAAAC
AAATGAATACAAATTGGAAAGGAAGAAGTCAAAATATCACTATTTCCAGA
ATATATGATAGCATGTATCAGTGACCCAAAAATGCACCAGAGAAATCGTA
ACCATATATATGACTTCAGTGCAGTAGGTGAATATAAAATTAACTCAAAC
ATATCAGTGGCCTTTCTCTACTCAAAGGAAAAAGAGGATGAGAAAGAAAT
TTGGGAAAACTCACCCTTCACAATACTCACAAATAATATAAAATAGCTTG
GTGTGACTCTAACTTAGAAAGTGAAAGATATATATGATAAAAACTTCATG
TCTCTGAAGAAAGAAATGAAACAAGATCTCAGAACATGGAAAGAACTCCC
ATGCTCATGGATTGGAAGGATTAATACAGTAAAAATGGCTGTTCTGCCAA
AAGTAGTTTATAGATTCAATACAATCCCCATCAAAATTCCAACTCAACTT
CTTTACTGAGTTAAGAAAGGGCAATTN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no446_g09.b1 MSMg01no446_g09.b1 CHROMAT_FILE:
MSMg01no446_g09.b1 PHD_FILE: MSMg01no446_g09.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 19:14:54 2005
         (419 letters)



>mm_chrY_2861256_2862075
          Length = 820

 Score =  681 bits (352), Expect = 0.0
 Identities = 403/420 (95%), Gaps = 1/420 (0%)
 Strand = Plus / Minus

                                                                       
Query: 1   agtacagaaaaggatctagtctgtttccaccagtaactgaccgccagtttactcacaact 60
           |||||||||||||||||||||| ||||||||| ||||||||| |||||||||||||||||
Sbjct: 620 agtacagaaaaggatctagtctttttccaccactaactgacctccagtttactcacaact 561

                                                                       
Query: 61  cacatccccaggccccaagaatacttttagggtctccaattccctagccttcctggtttc 120
           |||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 560 cacatccccaggcctcaagaatacttttagggtctccaattccctagccttcctggtttc 501

                                                                       
Query: 121 agctaggtgataatttgttcaatctcctgcccatagc-gaaaaagttctctgtttttctt 179
            ||||||||||||| |||||||||||||||||||||| ||||||||||| ||||||||||
Sbjct: 500 tgctaggtgataatctgttcaatctcctgcccatagcggaaaaagttctatgtttttctt 441

                                                                       
Query: 180 gggtaaagtggattgtgaacccagaagcattaaccacaggagtccaatgagggtcacctg 239
           ||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||
Sbjct: 440 gggtaaagtggattgtggacccagaagcattaaccacaggagtccaatgagggtcacctg 381

                                                                       
Query: 240 ctctcctttctcctttagtaacacctccatccctccaccatcatcccgctgggaccccaa 299
           ||||||||||||||||||||||||||||||||||||||||||||||| |||||||||| |
Sbjct: 380 ctctcctttctcctttagtaacacctccatccctccaccatcatcccactgggaccccca 321

                                                                       
Query: 300 gctgaaccaggattaaccatctttcaacagttcactgactccctccacagagacttctgc 359
           ||||||||||||||||||||||||||||||||||||||||  ||||||||||||||||||
Sbjct: 320 gctgaaccaggattaaccatctttcaacagttcactgactaactccacagagacttctgc 261

                                                                       
Query: 360 ctaccatgcttcctccagaactttacttcctcaggaactcagcttcctggccaccacaaa 419
           ||||||||||||||| ||||||| |||||||||| ||||||||||| |||||||||||||
Sbjct: 260 ctaccatgcttcctcaagaacttcacttcctcagaaactcagcttcttggccaccacaaa 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: 16
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: 419
Length of database: 820
Length adjustment: 9
Effective length of query: 410
Effective length of database: 811
Effective search space:   332510
Effective search space used:   332510
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)