BAC Information

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BAC

Clone NameMSMg01-514H13
ChromosomeY (Build37)
Map Location 2,791,601 - 2,792,260
singlet/doubletsinglet
Overlap genenone
Upstream geneLOC100039450, LOC547210, Ube1y1-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 nameMSMg01-514H13.T7 (MSMg01no514_h13.b1)MSMg01-514H13.TJ (MSMg01no514_h13.g1)
ACCAG586948AG586949
length750750
length of high quality
(start - end)		712 (39 - 750)602 (71 - 672)
definitionCHROMAT_FILE: MSMg01no514_h13.b1 PHD_FILE: MSMg01no514_h13.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:45:23 2005CHROMAT_FILE: MSMg01no514_h13.g1 PHD_FILE: MSMg01no514_h13.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:45:23 2005
singlet/doubletsinglet---
BLAST hitpluralno hit data
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTCTT
TGTTCAGTTCTGAGCCTTTAATTTTCAAAATTAAAGTTTACAGACAGATA
AATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATGAT
AGATATATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAC
ATAGATAATCTTTTCTAGAAAATTAATTGTATTTCAAAGTAGGTTTTTAT
TCTGTTCTACCAAATAGAAGGTCTAATTTTTTTTCTATAATGTCTCAGTT
AAGACTTAGTGTAAAACAATTCAATTAAAATATACAAATTGCCTGTATAT
GTAACTGATTCTTTTCCATACTGTTAAACATAATAAACCATAAAGTACAT
TTCTAAATCTTTGTGGAAAACTTCTGAATTTCCACAACAAATGTAAATCA
AAATTTAAAATCTTAATAACATTTTCTTAAAGTAGAAAATACTTTTCTGT
TACTCGCACCAAGCAAGTGAAAGATCTGTGTGACAAGAACTTCAAGTCTC
TGAAGAAAGAAATTGAAAATCTCAGAAGATGGAAAGACCTCCCATGCTCA
TAGATTGGCACGATTAATTCAGTAAAAATGGTCATCTTGCCAAAAGCAAT
CTATACATTCAGTGAAATCTCAATCAAAATTCAAACTCCATTATTCATAA
AGATAGAAAGAACAATTTACAAAATCATCTGGAATAAAAAAAATCCAGGN


AXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXCTAATTTAGACATAGTGTACCTGATGACTC
CTTGAGCCACTGAGAGTGATTTAAGCTCCACTTCAAGCATGGGGGGAATG
TGTGAGTCTTCTTGGTGCTGAAGGAATAATTCTGAGGTTTCTGTGTCAGA
AACAGGACTTGGAGGACCCATTGACAGAGTGATAATGTTTATGTATCCAC
AAACAATCTATAAAGGATGCCATCTTTTAGAGGCAGAAAGGTTCACACCA
TGTTGGGGAAAGTAGAAATGCCAAAGACTCTTGTATTTGTACAAGATCAA
GGGTCGATTTGGAGAGGAGAGAAGGCCTGAATATTTCATTATCGAGGCTT
CCTGGGAACCTAGAACACACATATCATGCAGGCCATGCAACAGCTTAATC
AATCTCCAGTATGCTAGGAGGCACTTCCTAGCTAGTTCTCCTGATAAATC
TGCTGACTACTTCTGAAAATGGCAAGGCTTTCTCGTTTCTGCTGGCCAAC
TTAATGTCTATGTCCTGGGTTTATGAACTTGTTGGCTACTCTTAAGCTCT
GAGACTTAAGGCACCCGGGTCCTGATCCTTGGACAGAGTAATTAGGTCAG
AGGATCAGAATAAGAAGCACTTGGTGCACCTTAGATCAAGGGAGTCGATT
TGTCATGGACTAGACCAGATCTAGTANGTAGGTCTAGGTCCTCAATGATC
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no514_h13.b1 MSMg01no514_h13.b1 CHROMAT_FILE:
MSMg01no514_h13.b1 PHD_FILE: MSMg01no514_h13.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 20:45:23 2005
         (712 letters)



>mm_chrY_2791347_2792461
          Length = 1115

 Score =  994 bits (514), Expect = 0.0
 Identities = 633/690 (91%), Gaps = 37/690 (5%)
 Strand = Plus / Plus

                                                                       
Query: 29  ttta-attttcaaaattaaagtttacagacagataaatagatagatagatagatagatag 87
           |||| |||||||||||||||||||||||||        ||||||||||||||||||||||
Sbjct: 255 tttagattttcaaaattaaagtttacagac--------agatagatagatagatagatag 306

                                                                       
Query: 88  atagatagatagatagatagatgatagatatatagatagatagatagatagatagataga 147
           |||||| |||||||||||||||                ||||||||||||||||||||||
Sbjct: 307 atagat-gatagatagatagat----------------gatagatagatagatagataga 349

                                                                       
Query: 148 tagatagatagatacatagataatc--ttttctagaaaattaattgtatttcaaagtagg 205
           |||||| |||||||   || |||||  |||| |||||||||||||| |||||||||||||
Sbjct: 350 tagatacatagata---ag-taatcttttttttagaaaattaattgcatttcaaagtagg 405

                                                                       
Query: 206 tttttattctgttctaccaaatagaaggtctaattttttttc-tataatgtctcagttaa 264
            ||||||||||||||||||||||||||||||||||||||||| |||| || |||||||||
Sbjct: 406 gttttattctgttctaccaaatagaaggtctaattttttttcttatattgactcagttaa 465

                                                                       
Query: 265 gacttagtgtaaaac--aattcaattaaaatatacaaattgcctg-tatatgtaactgat 321
           |||||||||||||||  |||||| ||||||||||||||||||||| | ||||||||||||
Sbjct: 466 gacttagtgtaaaacataattcagttaaaatatacaaattgcctgat-tatgtaactgat 524

                                                                       
Query: 322 tcttttccatactgttaaacataataaaccataaagtacatttctaaatctttgtggaaa 381
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 525 tcttttccatactgttaaacataataaaccataaagtacatttctaaatctttgtggaaa 584

                                                                       
Query: 382 acttctgaatttccacaacaaatgtaaatcaaaatttaaaatcttaataacattttctta 441
           ||||||| |||||||||||||||||||||||||||||||||||| | |||||||| ||||
Sbjct: 585 acttctgtatttccacaacaaatgtaaatcaaaatttaaaatctcattaacatttactta 644

                                                                       
Query: 442 aagtagaaaatacttttctgttactcgcaccaagcaagtgaaagatctgtgtgacaagaa 501
           ||||||||||||| |||||||||||| |||||||| |||||||||||||| |||||||||
Sbjct: 645 aagtagaaaatacctttctgttactcacaccaagccagtgaaagatctgtatgacaagaa 704

                                                                       
Query: 502 cttcaagtctctgaagaaagaaattgaaaatctcagaagatggaaagacctcccatgctc 561
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 705 cttcaagtctctgaagaaagaaattgaaaatctcagaagatggaaagacctcccatgctc 764

                                                                       
Query: 562 atagattggcacgattaattcagtaaaaatggtcatcttgccaaaagcaatctatacatt 621
           |||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||
Sbjct: 765 atagattggcacgattaattcagtaaaaatggtcatcttgccaaaagcaatctatagatt 824

                                                                       
Query: 622 cagtgaaatctcaatcaaaattcaaactccattattcataaagatagaaagaacaattta 681
           |||||||||  |||||||||||||||||| |||| |||||||||||||||||||||||||
Sbjct: 825 cagtgaaatgacaatcaaaattcaaactcaattaatcataaagatagaaagaacaattta 884

                                         
Query: 682 caaaatcatctggaataaaaaaaatccagg 711
           ||||||||||||||||||||||||||||||
Sbjct: 885 caaaatcatctggaataaaaaaaatccagg 914


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: 76
Number of extensions: 20
Number of successful extensions: 20
Number of sequences better than 10.0: 1
Number of HSP's gapped: 13
Number of HSP's successfully gapped: 1
Length of query: 712
Length of database: 1115
Length adjustment: 10
Effective length of query: 702
Effective length of database: 1105
Effective search space:   775710
Effective search space used:   775710
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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