BAC Information

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BAC

Clone NameMSMg01-111G13
ChromosomeY (Build37)
Map Location 2,890,682 - 2,891,419
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 nameMSMg01-111G13.T7 (MSMg01no111_g13.b1)MSMg01-111G13.TJ (MSMg01no111_g13.g1)
ACCAG324085AG324086
length1,1731,206
length of high quality
(start - end)		693 (88 - 780)743 (78 - 820)
definitionCHROMAT_FILE: MSMg01no111_g13.b1 PHD_FILE: MSMg01no111_g13.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 18:15:41 2005CHROMAT_FILE: MSMg01no111_g13.g1 PHD_FILE: MSMg01no111_g13.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 18:15:42 2005
singlet/doublet---singlet
BLAST hitno hit dataplural
sequence
CCGATTTTNNNNNAGCATTGGGCCTATAXXXXXXXXXXXXXXXXXXXXXX
CGCGGAATTCTTTCTTTAGCTCTGACCTTTAAATTTTATGGAGTTATTTG
ATTTTCTGGAGTCAACCTTCTGATTTCTTTATATATATTTGATATTAGTC
CCCTATCTGCCTTAGGATAGTGAAAGATCCTTTCACAACCTGTTGGTGGC
CTTTTTGTCTTATTGAAGGTGTCTTTTGCCTTACAAAAATGTGCAGCTTT
ATGAGGTCCAATTTGTCAATTCTAAATCTTGCAATACAAGCCATTTGTCT
TCTATTCAGGAATTTTTCCCCTGTTCCCATATCTTTGAGGCTTTTCCACA
TTTTCTCCTCTACAAGTTTCAGTGTCTCTGATTTTATGTGGAGCTCCTTG
ATTTTTTTACATTTGACCTTAGTACAAGGATATAAGAATGGATTGATTCA
CATTCTTCTACATGATAACCACCAATTGTGCCAGCACCATTTGTTGAAAA
TGCAGTCTTTTTTTCAACTGGATGGTTTTAGCTCCCTTGTAGATGATGAA
TTGACAATAGGTGTGTTGGTTCATTTCTGGGTCTTCAGTTCTATTTCATT
GGTCTACTTGTCTGTCACTATATCAGTACCATGCAGTTTTTATCACAATT
GCTCTGTAGTACAGCTTTGGGTCAGGCATGGTGATTGCACCAGAGGTTCT
TTTATCCAGGAGAAGAGTTTTTGCTATCCTAGGTTTTGTTTATTCCCAAT
GTATTTGCAGATTGCCCTTTTCTAATTCATTGAAGAATTGAGTTGGAATT
TTAATGGTGATTTTATTGAATCTGTAGATTTCTTTTGNCAAGATGGCCAT
TTTTACAATGTTGATACTGCCAATCCATAATAATGGACGATCTTTCCATC
TTCTGAGATATTCTTTAATTTCTTTCTTTAGAGACTTGAAGTTCTTATCA
TAAAGATCTTTTTCCTTCCTTAATTAGAGTCACAACAAAGAATTTTATAT
AATTTGCGACTATTGAAAAGGGTAATGCCTTCCCCTATTTCATTCTCAAC
CCGTTTTATTCTTTGTGAAAAAGAAAGGCCATTGAACAGTGAGTGGGTAA
TTTTTTTATCCAGCCTATTTAACCAACGTTGTTTTTTCTAGTTTTAGGGG
TTTCCTTGGGTTAAAAGGTTTAA

NCCGTTTTTTNTNNAAACATGTGAGGCTGGGGCGCCXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXCTTTACATATTCTCGGTTTGCAT
TTGTACATGCTCGTGAGAGCATCGAACTCCCTCTCTCAGATGGAAGAGAG
TTACTGACAGACATGTGAGGAGAAACCGGCTAGCACCTTGTGGGACATCC
CAGGAGTACTGAGGGAGTTCCAGGGATACCTGGAGATCTTCTATTAGGGT
GCCAAGTGAGAGTGTGCTCACTTGGCTGTCTGTTTCTGTTACTGGGTGCC
AAGTGAGTGTGTGCTCTCTCGGCCATCTTATTGGGGCCTGGTCTTGGTTA
TTGTAATCTTTTTGTGTGTATATATTGGTTTTTCCCCTGTATGTAACTCT
GATGATGGGACCGACTATTAGCATGCCCCTTGGACTGACCCGTGTGCACA
GGACTGAAATTAAGACTAAGACTCACATTCTCTTGGTGGATGTCTGAAAT
AGATTTTAGAGAACTTTCTGCTCTACGGAATGGCCAGCTGTGATGTTAGT
TGGCCACTAGAGGGCACCCTTGGTTTGGTTCTGTTTACAGCTCTTAAAGT
TGTTTTACAGAGGGGAGCAGGGTCTCAGCCAGATTGAGTGCCCAACATTC
TCATCTAGAAAAAAATTAGCACAGGACCCCCCCTCTCCCATCCTGTTTAA
AGCCTTGGGTTCAAAAGAATAATCCAGGCTAATCAGTTCTGGCCCTCTGC
CATCCAGAGGGGAAAAAAATAGATAAAACTGGCACCGGTTGAACAGCAAC
CCTCGGTTTCTCCCAAGATGTATCCAGAGTTAGAAGAACCTCCAAAATGG
CACAGCACCCCACCCGCATATTCCCAACTTGTCCCCCCCAAGAACTCTCA
ACAGGGTGCCACTAGATATTTGGGGAGGGACCACTTTGCTAAGCCCCAGG
TCAGGCAAGCTCGAAACCACAAACTCAACCATTTACCCGCCTTTTAGCAA
CTTATGAACCCTCATCCCGCGGAAACCCCAAAACAATTGCAGGCCCCTTT
CGGAAAGGGGCCTTTTTTCTTCCTCCGGAACTCCAAAACCTGGGAAAGCC
AAATCTCCCCCCTCCCTTCCGTGAAAAACCCCCCCCAAGCCTTTGGCTAA
TTTCAAAGGGAAAACTCCCCAAAATTTCCTCTCTTCCGGCCCACCTTGGG
GGAGGA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no111_g13.g1 MSMg01no111_g13.g1 CHROMAT_FILE:
MSMg01no111_g13.g1 PHD_FILE: MSMg01no111_g13.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 18:15:42 2005
         (743 letters)



>mm_chrY_2890481_2891622
          Length = 1142

 Score =  973 bits (503), Expect = 0.0
 Identities = 684/749 (91%), Gaps = 19/749 (2%)
 Strand = Plus / Plus

                                                                       
Query: 2   tttacatattctcggtttgcatttgtacatgctcgtgagagcatcgaactccctctctca 61
           ||||| |||||||||||| || ||||||||||||||||||||| |||| |||||||| ||
Sbjct: 202 tttac-tattctcggtttacagttgtacatgctcgtgagagcaacgaaatccctctccca 260

                                                                       
Query: 62  gatggaagagagttactgacagacatgtgaggagaaaccggctagc-a-ccttgtgggac 119
           |||||||||| |||||||||||||||||||||||||||||||| || | ||| |||||||
Sbjct: 261 gatggaagagggttactgacagacatgtgaggagaaaccggct-gccagcct-gtgggac 318

                                                                       
Query: 120 atcccaggagtactgagggagttccagggatacctggagatcttctattagggtgccaag 179
           ||||||||||| ||||||||||||||||||||||||||||||| |||| |||||||||||
Sbjct: 319 atcccaggagttctgagggagttccagggatacctggagatctcctatcagggtgccaag 378

                                                                       
Query: 180 tgagagtgtgctcacttggctgtctgtttctgttactgggtgccaagtgagtgtgtgctc 239
            ||||||||||||||| || |||||||||||||||||||||||||||||||||| |||||
Sbjct: 379 agagagtgtgctcactcggttgtctgtttctgttactgggtgccaagtgagtgtatgctc 438

                                                                       
Query: 240 tctcggccatcttattggggcctggtcttggttattgtaatctttttgtgtgtatatatt 299
           |||| |||||||||||||||||||||||||||||||||||||||||| || |||||||||
Sbjct: 439 tctcagccatcttattggggcctggtcttggttattgtaatctttttctgggtatatatt 498

                                                                       
Query: 300 ggtttttcccctgtatgtaactctgatgatgggaccgactattagcatgccccttggact 359
           | ||||| |||||||||||||| |||||||||||||||||||||||||||||||||||||
Sbjct: 499 gtttttttccctgtatgtaactatgatgatgggaccgactattagcatgccccttggact 558

                                                                       
Query: 360 gacccgtgtgcacaggactgaaattaagactaagactcacattctct-tggtggatgtct 418
           ||||| || |||| ||||||||||||| ||||| ||||||||||||| || |||||||||
Sbjct: 559 gacccatgagcactggactgaaattaaaactaaaactcacattctctctg-tggatgtct 617

                                                                       
Query: 419 gaaatagattttagagaactttctgctctacggaatggccagctgtgatgttagttggcc 478
           ||||||||||||||||||||||||||||||| |||||||||||| |||||||||||||||
Sbjct: 618 gaaatagattttagagaactttctgctctacagaatggccagctttgatgttagttggcc 677

                                                                       
Query: 479 actagagggcacccttggtttggttctgtttacagctcttaaagttgttttacagagggg 538
           |||||||||||| |||| |||||| |||||| |||||||||||||||||||||||| |||
Sbjct: 678 actagagggcactcttg-tttggtcctgttttcagctcttaaagttgttttacagaaggg 736

                                                                       
Query: 539 agcagggtctcagccagattgagtgcccaacattctcatctagaaaaaaattagcacagg 598
           | || ||||||||||||||||||||||| ||||||| ||||| |||||||||||||||||
Sbjct: 737 accaaggtctcagccagattgagtgccctacattctgatcta-aaaaaaattagcacagg 795

                                                                       
Query: 599 accccccctctcccatcctgtttaaagccttgggttcaaaagaataatccaggctaatca 658
           | |||||||||||||||||||| ||||||||||||||||||||||||||||||||   ||
Sbjct: 796 atcccccctctcccatcctgttgaaagccttgggttcaaaagaataatccaggctcccca 855

                                                                       
Query: 659 gttctggccctctgccatccagaggggaaaaaaataga-----taaaactggcaccggtt 713
           || |||||||||||||| |||||    ||||||| | |     ||||||||||||| |||
Sbjct: 856 gtcctggccctctgccacccaga----aaaaaaaaacaaaagttaaaactggcacctgtt 911

                                        
Query: 714 gaacagcaaccctcggtttctcccaagat 742
           |||| ||| |||||||||||||| |||||
Sbjct: 912 gaactgcagccctcggtttctcc-aagat 939


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: 27
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: 743
Length of database: 1142
Length adjustment: 10
Effective length of query: 733
Effective length of database: 1132
Effective search space:   829756
Effective search space used:   829756
X1: 9 (17.8 bits)
X2: 517 (999.5 bits)
X3: 517 (999.5 bits)
S1: 9 (18.3 bits)
S2: 9 (18.1 bits)


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