BAC Information

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BAC

Clone NameMSMg01-501B06
ChromosomeY (Build37)
Map Location 2,890,700 - 2,891,296
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 nameMSMg01-501B06.T7 (MSMg01no501_b06.b1)MSMg01-501B06.TJ (MSMg01no501_b06.g1)
ACCAG576763AG576764
length680715
length of high quality
(start - end)		623 (21 - 643)593 (56 - 648)
definitionCHROMAT_FILE: MSMg01no501_b06.b1 PHD_FILE: MSMg01no501_b06.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:27:51 2005CHROMAT_FILE: MSMg01no501_b06.g1 PHD_FILE: MSMg01no501_b06.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:27:51 2005
singlet/doubletsinglet---
BLAST hitpluralno hit data
sequence
GACTCACTATATTCAGAGGATCCGCGGAATTCACTATTCTTTTCTTGCAG
TTGTAAATGCTCGTGAGAGCAACGATCTCCCTCTCCCAGATGGAAGAGTG
TTACTGACAGACATGTGAGGAGAAACCAGCTGACACCCTGTGGGACATCC
CAGGAGATCTTAGGGAGTTCCAGGGATACCTGGAGATCTCCATCAGGGTG
CCAAGTGAGAGTGTGCTCACTCAGCTCTTTGTTTATGTTACTGGGTACCA
AGTGACTGTCTGCTCTCTCGGCCATCTTATTGGGGCCTGGTCTTGGTTAT
TGTAATCTTTTTGTGTGTAAATATTGTTGTTTTCACTGTATGTAACTCTG
ATGATGGGATCAACTATTAGCATGCCCCTTGGACTGACCCTTGTGCACAG
GACTGAAATTAAGACTAAGACTCACATTCTCTCTGTGGATGTCTGAAATA
GATTTTAGAGAACTTTCTACTCTACGGAATGGCCAGCTTTGATTTTAGTT
GGCCACGAGAGGGCACCCTTGGTTTGGTCCTGTTTTCAGCTCTTAAAGTT
GTTTTACAGAGGGGACCAGGGTCTCAGCCAGATTGAGTGCCCGGCATTCT
CATCTAGAANAAAATAACACAGGATCACCTTCTCTCATCCTGTTTAAAGC
CTTGGGTTCAAAAGAATAATCCAGTCTCCT

XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXTTTGTATATTGTGAATATTAGCCCTCGATCAGATGTAGGGTTAGT
AAAGTTCTATTCTCCATTAGTAGGTTGCCATTTTGTCCTATTGACAGTGT
CCTTTGCCTTACAGAACCTTTTCAGTTTCAGGAGGTCCCATTTGTTAATT
GACCAAGATATGCTTTCAGACAGGAACATGGGATGACTGTCCTAAAAGAG
GCTATGCCATCAAATGACTGAGACAGATGCAGATATTTACAGCCAACCAT
TGGTCTAAACCCAGGAACCCCAATGGAAGAGTTTGAGCAGAGACTGAAGG
AACTGAAGGGAATTGCAACCCTATAGGAAGAACAACACCATGAAAAAACT
AGATTTCCCAGAATTCTCAGGTACTAAGCCACCAACCAAAAAGCATACAT
GTACTAGTCCATAACCCCTACTATACATATGTAGCAGAGGATTGCATTGT
CTGCCCTCAGTGCGATGAGGGTGTGTGCTTTTACTGTGGAAGCTTTATGT
CCCCAGAAAAGGGGAATTCTAGAGAGGTGGGTGGGAGAGTAAACTTTTAG
AGAGAGGAGGGAAGTGTGGTAGGGGTCTCATGGACGGAGTATGCTGAAGG
GGATCACNTTTTGAATATTAATAAATTAAATAATTAGTAAAATGGATAGT
TTGACATAGTTTGAN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no501_b06.b1 MSMg01no501_b06.b1 CHROMAT_FILE:
MSMg01no501_b06.b1 PHD_FILE: MSMg01no501_b06.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 20:27:51 2005
         (623 letters)



>mm_chrY_2890473_2891496
          Length = 1024

 Score =  756 bits (391), Expect = 0.0
 Identities = 547/599 (91%), Gaps = 5/599 (0%)
 Strand = Plus / Plus

                                                                       
Query: 28  cagttgtaaatgctcgtgagagcaacgatctccctctcccagatggaagagtgttactga 87
           |||||||| |||||||||||||||||||  ||||||||||||||||||||| ||||||||
Sbjct: 228 cagttgtacatgctcgtgagagcaacgaaatccctctcccagatggaagagggttactga 287

                                                                       
Query: 88  cagacatgtgaggagaaaccagctgacaccctgtgggacatcccaggagatcttagggag 147
           |||||||||||||||||||| |||| || |||||||||||||||||||| ||| ||||||
Sbjct: 288 cagacatgtgaggagaaaccggctgccagcctgtgggacatcccaggagttctgagggag 347

                                                                       
Query: 148 ttccagggatacctggagatctcc-atcagggtgccaagtgagagtgtgctcactcagct 206
           |||||||||||||||||||||||| |||||||||||||| |||||||||||||||| | |
Sbjct: 348 ttccagggatacctggagatctcctatcagggtgccaagagagagtgtgctcactcggtt 407

                                                                       
Query: 207 ctttgtttatgttactgggtaccaagtgactgtctgctctctcggccatcttattggggc 266
            | ||||| ||||||||||| |||||||| ||| ||||||||| ||||||||||||||||
Sbjct: 408 gtctgtttctgttactgggtgccaagtgagtgtatgctctctcagccatcttattggggc 467

                                                                       
Query: 267 ctggtcttggttattgtaatctttttgtgtgtaaatattgttgttttcactgtatgtaac 326
           |||||||||||||||||||||||||| || ||| |||||||| ||||| |||||||||||
Sbjct: 468 ctggtcttggttattgtaatctttttctgggtatatattgtttttttccctgtatgtaac 527

                                                                       
Query: 327 tctgatgatgggatcaactattagcatgccccttggactgacccttgtgcacaggactga 386
           | ||||||||||| | |||||||||||||||||||||||||||| || |||| |||||||
Sbjct: 528 tatgatgatgggaccgactattagcatgccccttggactgacccatgagcactggactga 587

                                                                       
Query: 387 aattaagactaagactcacattctctctgtggatgtctgaaatagattttagagaacttt 446
           |||||| ||||| |||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 588 aattaaaactaaaactcacattctctctgtggatgtctgaaatagattttagagaacttt 647

                                                                       
Query: 447 ctactctacggaatggccagctttgattttagttggccacgagagggcacccttggtttg 506
           || |||||| ||||||||||||||||| |||||||||||| ||||||||| |||| ||||
Sbjct: 648 ctgctctacagaatggccagctttgatgttagttggccactagagggcactcttg-tttg 706

                                                                       
Query: 507 gtcctgttttcagctcttaaagttgttttacagaggggaccagggtctcagccagattga 566
           |||||||||||||||||||||||||||||||||| ||||||| |||||||||||||||||
Sbjct: 707 gtcctgttttcagctcttaaagttgttttacagaagggaccaaggtctcagccagattga 766

                                                                      
Query: 567 gtgcccggcattctcatctagaanaaaataa-cacaggatcacct-tctctcatcctgt 623
           ||||||  |||||| ||||| || ||||| | ||||||||| ||  |||| ||||||||
Sbjct: 767 gtgccctacattctgatctaaaa-aaaattagcacaggatcccccctctcccatcctgt 824


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: 14
Number of extensions: 3
Number of successful extensions: 3
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 623
Length of database: 1024
Length adjustment: 10
Effective length of query: 613
Effective length of database: 1014
Effective search space:   621582
Effective search space used:   621582
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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