BAC Information

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BAC

Clone NameMSMg01-491J08
ChromosomeY (Build37)
Map Location 2,890,685 - 2,891,187
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 nameMSMg01-491J08.T7 (MSMg01no491_j08.b1)MSMg01-491J08.TJ (MSMg01no491_j08.g1)
ACCAG569543AG569544
length755750
length of high quality
(start - end)
627 (33 - 659)505 (58 - 562)
definitionCHROMAT_FILE: MSMg01no491_j08.b1 PHD_FILE: MSMg01no491_j08.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:15:32 2005CHROMAT_FILE: MSMg01no491_j08.g1 PHD_FILE: MSMg01no491_j08.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:15:32 2005
singlet/doublet---singlet
BLAST hitno hit dataplural
sequence
CGCTATACGACTCACTATAGGTTCAGGATCCGCGGAATTCACTCATTTGC
TTACGGTGTGTTCATCATTGAATATACAGACTCCTGAAAAGAGTCATACA
AAATATGCTTCATTATATACTAGACAATTAGTGTCATTTTGTTTGGCAAT
ACAACATGTATGATTATGCCTCAGAATCATGAGCAACTGGGCCATATGGG
AAATATAATTAGTATATTTCTGCTGACTGAAGATCAGATGGGTTGAGTGT
TATCATGTGTGCTGTTCATGAGAGGAAGCAACATAGATGGTGAGTATAGA
TCAGAGAGGAACATCTCTTGGAGGACACTATGTAAGGAACCCTAGGAAGA
GCACCATCACTGCTTTTAGCTAGTACACATATTTTTAGAATCCCCACTTT
CTAGGGTGGAAAAGAAAACTGTATTACTCTAATTTACTAAGTATGGTCAT
TTGATACATCAGTGATCATCATCAAGGTGAACAGGTGTTGACAGAAGTTT
GGGGACTCAGAAGAAGCCTGTTCTGGGAAAACCCATTGCCTTCAAAGAAC
GGAGATTTCTGACCAGCAACACTGGATAAACAGTCTACATTGGCAGCAGT
AGCCCCATTGTGTCCAAATTAGTGGTTTTCAATCCACTAATCCATCCATA
AGCAGCCTCCAAACACTGACACCATTGCATACACTGGCAAGATTTTGCTG
GAAGGACCCAGATTTAGCTGTCTCTTGTGAGGCTTTGCCATGGCCTAACA
AACAC
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTT
TCCTAATCACTATTCTCCGTTTGCAGTTGTAAATGCTCGTGAGAGCAACG
AACTCCCTTTTTCAGATGGAAAAGGGTTACTGACAGACATGTCAGGAGAA
ACCGGCTGCCAACCTTTGGGACATCCGAGGAGTTCTGAGGGAGTTCTAGG
GATACCTGGAGATCTCCTATCAGTGTGCCAAGTGAGAGTGTGCTCACTCG
GCTGTCTGTTTCTGTTACTGGGTGCCAAGTGAGTGTGTGCTTTCTTGGCC
ATCTTATTGGGTTCTGGTCTTGGTTATTGTAATCTTTTTTGTGTATATGT
TTTTTTTTTTCCCTGTATGTGACTCTGATGATGGGACCGACTATTATCAT
GCCCCTTGGACTGACCCTTGATCACTCGACTGAAATTAAGACTAACACTC
ACATTCTCTCTGTGGATGTCTGAAATCGATTTTAGAGAACTTTCTGATCT
ACAGAATGGCCAGCTTTGATGATAGTTGGCCACTAGAGGGCACTCTTTGT
TTGGTTCTGTTTTCATCTCCTAAAGTTGTTTTACAGAGGGGACCAGGGTC
TCAGCCAGATTACGTGCCATACTTTCTCATCTTGAAAAATTTAGCACAGG
ATCCCCCCTCTTCCATCCTGTTTAAAGCCTTGGTGTAAAATTAATAATCC
AGGGCTCCCAGTCCTGGCCCTCTGCCTCCCAAAGGTGAAAATAAAGTTAA

quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no491_j08.g1 MSMg01no491_j08.g1 CHROMAT_FILE:
MSMg01no491_j08.g1 PHD_FILE: MSMg01no491_j08.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 20:15:32 2005
         (505 letters)



>mm_chrY_2890484_2891388
          Length = 905

 Score =  667 bits (345), Expect = 0.0
 Identities = 465/505 (92%), Gaps = 3/505 (0%)
 Strand = Plus / Plus

                                                                       
Query: 2   actattctccgtttgcagttgtaaatgctcgtgagagcaacgaactccctttttcagatg 61
           ||||||||| |||| |||||||| |||||||||||||||||||| ||||| |  ||||||
Sbjct: 202 actattctcggtttacagttgtacatgctcgtgagagcaacgaaatccctctcccagatg 261

                                                                       
Query: 62  gaaaagggttactgacagacatgtcaggagaaaccggctgccaacctttgggacatccga 121
           ||| |||||||||||||||||||| |||||||||||||||||| ||| |||||||||| |
Sbjct: 262 gaagagggttactgacagacatgtgaggagaaaccggctgccagcctgtgggacatccca 321

                                                                       
Query: 122 ggagttctgagggagttctagggatacctggagatctcctatcagtgtgccaagtgagag 181
           |||||||||||||||||| |||||||||||||||||||||||||| |||||||| |||||
Sbjct: 322 ggagttctgagggagttccagggatacctggagatctcctatcagggtgccaagagagag 381

                                                                       
Query: 182 tgtgctcactcggctgtctgtttctgttactgggtgccaagtgagtgtgtgctttcttgg 241
           ||||||||||||| |||||||||||||||||||||||||||||||||| |||| |||  |
Sbjct: 382 tgtgctcactcggttgtctgtttctgttactgggtgccaagtgagtgtatgctctctcag 441

                                                                       
Query: 242 ccatcttattgggttctggtcttggttattgtaatcttttt-tgtgtatatgtttttttt 300
           |||||||||||||  |||||||||||||||||||||||||| || |||||| || |||||
Sbjct: 442 ccatcttattggggcctggtcttggttattgtaatctttttctgggtatatattgttttt 501

                                                                       
Query: 301 tttccctgtatgtgactctgatgatgggaccgactattatcatgccccttggactgaccc 360
           || |||||||||| ||| ||||||||||||||||||||| ||||||||||||||||||||
Sbjct: 502 tt-ccctgtatgtaactatgatgatgggaccgactattagcatgccccttggactgaccc 560

                                                                       
Query: 361 ttgatcactcgactgaaattaagactaacactcacattctctctgtggatgtctgaaatc 420
            ||| |||| |||||||||||| ||||| |||||||||||||||||||||||||||||| 
Sbjct: 561 atgagcactggactgaaattaaaactaaaactcacattctctctgtggatgtctgaaata 620

                                                                       
Query: 421 gattttagagaactttctgatctacagaatggccagctttgatgatagttggccactaga 480
           ||||||||||||||||||| |||||||||||||||||||||||| |||||||||||||||
Sbjct: 621 gattttagagaactttctgctctacagaatggccagctttgatgttagttggccactaga 680

                                    
Query: 481 gggcactctttgtttggttctgttt 505
           |||||||||| ||||||| ||||||
Sbjct: 681 gggcactctt-gtttggtcctgttt 704


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: 505
Length of database: 905
Length adjustment: 10
Effective length of query: 495
Effective length of database: 895
Effective search space:   443025
Effective search space used:   443025
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)