BAC Information

Click to search

BAC

Clone NameMSMg01-232C13
ChromosomeY (Build37)
Map Location 1,655,345 - 1,655,996
singlet/doubletsinglet
Overlap genenone
Upstream geneUsp9y, LOC100039278, EG667079, LOC667089, Rhoay-ps1, Zfy2, Ube1y1-ps2, LOC667137, LOC100039373, LOC100039381, LOC667143
Downstream geneLOC100039401, LOC100039430, Vmn2r-ps137, LOC100039450, 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
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-232C13.T7 (MSMg01no232_c13.b1)MSMg01-232C13.TJ (MSMg01no232_c13.g1)
ACCAG398755AG398756
length735740
length of high quality
(start - end)		690 (46 - 735)664 (77 - 740)
definitionCHROMAT_FILE: MSMg01no232_c13.b1 PHD_FILE: MSMg01no232_c13.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:48:35 2005CHROMAT_FILE: MSMg01no232_c13.g1 PHD_FILE: MSMg01no232_c13.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:48:35 2005
singlet/doublet---singlet
BLAST hitno hit dataplural
sequence
CTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGG
AATTCTTCTCTAAAGTCAGCTATATTCTTTGAAGCTAGGTTTGAACACTT
TATGATCACACCATGCAAATGGATTTCACACTCAAGCCATGGTTCTAATT
AGGGAGTTTCTTTCTAGCTAATCTTCTCATGAATAATTCAAAACTGTTGT
TCCCCCTCAAACCACAGCACAAGTTATTTCCTAAACCATTGTAAATTCCT
GTATATGAGAGGGATTGTATGGGGGAATCTTTCTACTAACAACTAATGTA
GCCTGCCATGCATAAGTATAACAAATATTCTAAACATACTTTCCTAAAGT
TGTCCTGAGATTTCTAACTCTATGTAGTATATAGCAATGGCTGTCACAAT
CTCTCTTATAATACTAGAGGTAACTCTGGTTGTTACAGGTAACATTCTTA
CTGAATTCCAAGCCCAGGATCCGCTCAAGGACTACCTAGAATATTGGTGA
AGGACAGGGAACAAAGTTGGATATTGCTTAGATATTTGCCAAGTCATTAC
TTGGAGGCACTTATAATAAAACAACATTGAAAGAAGTCACAAAGTTTCAA
TCACTTACTAATGTAAGGACAAGTTTGATGCATTTTTTCCAGGATGGTTC
CTGAAGACTTAGTTTCCATGAACTTTTTGACTAGGGACTGTGTCTAAATA
TTTAGAACTGTCACGGGAGTCACTACTGGGGTTTG

CGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXTCTGCTGATCTGCACAGGAAAGCA
CAGAAATCTAGGACTATACAGAAATATCCAGTTCCAGAGGGAAAAAAAAA
AAAGAAACAGGGAGGAATTGGAAAGTACAAATAAGAATTTGAATGTACAG
ATTGTAAATCCTGTCTCTGGGAGTAATAATCAAGATACTTTGAAAGGAAC
AATCAAGCCATGTTTAAAAGACTGGACACACCATTTGGCATATGTTATAT
AAATCAGTAAAAATAATTAAAAATGTCTCATTAAAATTCACAACAGTCCC
CTTAAGTTTTTTCTTCTGGTTTTCTTCTTTAAATATCTTATTGAATCTGA
AGTGATGGCTCAGCATTTCTGAACACTGGCAGCTCATGCACAGCATACAC
TTGGACTTGCCACATTTCCATAGGCTGTTTACAACTTCTTCTATTTTAGT
AACCACAGGGAATCCACACTCCCCCTTCCCATGAGACAATGTATCCATAC
CTATACAGAGAATTCAAAACAAACAAAATCTCTTCAATCTGTCTCACCAA
TCATACATTAGGTCCAATGCTTGGGTGCTTTCTATTTCAGGCTCACAATG
ATCAATGGTATATACTTTCTAGGTTGTATAACTGCACTTCATTTCTCTAC
CAGGAACCTTTCCTCAGATTCTGTCCTCATCAAGAATCCN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no232_c13.g1 MSMg01no232_c13.g1 CHROMAT_FILE:
MSMg01no232_c13.g1 PHD_FILE: MSMg01no232_c13.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 20:48:35 2005
         (664 letters)



>mm_chrY_1655145_1656202
          Length = 1058

 Score =  464 bits (240), Expect = e-135
 Identities = 562/674 (83%), Gaps = 38/674 (5%)
 Strand = Plus / Plus

                                                                       
Query: 1   tctgctgatctgcacaggaaagcacag-aaatctaggactatacagaaatatccagttcc 59
           |||||||| ||||||||||| ||| || ||| |||||||||| |||||| || |||| ||
Sbjct: 201 tctgctgaactgcacaggaaggcatagaaaaactaggactatccagaaaaatgcagtccc 260

                                                                       
Query: 60  agagggaaa-aaaaa-a-aaagaaacagg-gaggaattggaaag-tacaaataagaattt 114
           |||   ||| ||||| | ||| ||| ||| |||||||||| |||  | |||||||    |
Sbjct: 261 aga---aaagaaaaacagaaa-aaa-aggagaggaattggtaagcaaaaaataag----t 311

                                                                       
Query: 115 gaatgtacagattgtaaatcctgtctctgggagtaataatcaagata-ctttgaaaggaa 173
           |||||| | |||||||||||||||||||| || |||||||||||| | |||| |||||||
Sbjct: 312 gaatgt-ctgattgtaaatcctgtctctgagaataataatcaagacaccttt-aaaggaa 369

                                                                       
Query: 174 caatcaagccatgtttaaaag-actggacacaccatttggcatatgttatataaatcagt 232
           |||| || |||||  |||||| ||| ||||||| || ||||| |||||||||||||||||
Sbjct: 370 caatgaaaccatgagtaaaagaactagacacacaatatggcaaatgttatataaatcagt 429

                                                                       
Query: 233 aaaaataattaaaaatgtctcattaaaattcacaacagtccccttaagttttttcttctg 292
           | ||| |||||||||||| ||||||||| | | || | |||||||| ||||| |||| ||
Sbjct: 430 agaaacaattaaaaatgtgtcattaaaaatgaaaatattccccttatgttttctcttgtg 489

                                                                       
Query: 293 gtttt-cttctttaaatatcttattgaatctgaagtgatggctcag-catttctgaacac 350
           ||||| ||| ||||||| |||||||||||||| || ||| | |||| | |||||| ||||
Sbjct: 490 gttttcctt-tttaaatgtcttattgaatctggagggattgatcagac-tttctggacac 547

                                                                       
Query: 351 tggcagctcatgcacagcatacacttggacttgccacat-ttccataggctgtttacaac 409
            | |||| ||| ||||||||||||||||||||||||| | |||||| |||| ||||||||
Sbjct: 548 cgccagcacatacacagcatacacttggacttgccac-tcttccattggctctttacaac 606

                                                                       
Query: 410 ttcttctattttagtaaccacagggaat-ccacactcccccttcccatgagacaatgtat 468
           | | |||| || ||| ||||||||| || |||||||||| ||||||||| ||||||||||
Sbjct: 607 tccgtctacttcagtgaccacaggg-atgccacactccctcttcccatgggacaatgtat 665

                                                                       
Query: 469 ccatacctatacagagaattcaaaacaaacaaaatctcttcaatctgtctcaccaatcat 528
            |||||||||||||||||||||||||||||||||| |||||||  ||||||| |||| ||
Sbjct: 666 tcatacctatacagagaattcaaaacaaacaaaatgtcttcaaagtgtctcagcaattat 725

                                                                       
Query: 529 acattaggtccaatg-cttgggtgctttctat-ttcaggctcacaatgatcaatggtata 586
            |||||||||||||| ||  | |||| || |  |||||||||||   ||| |||||| ||
Sbjct: 726 gcattaggtccaatgtctcag-tgctctc-agcttcaggctcac---gattaatggttta 780

                                                                       
Query: 587 tacttt-ctaggttgtataactgcacttca-tttctctaccaggaacctttcctcagatt 644
           || ||| |||  ||||||||||||||| || ||| |||||| |||| ||| |||||||| 
Sbjct: 781 ta-tttgctaccttgtataactgcactacagttt-tctacctggaaacttgcctcagatc 838

                         
Query: 645 ctgtcctcatcaag 658
           ||||||||| ||||
Sbjct: 839 ctgtcctcagcaag 852


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: 9
Number of extensions: 1
Number of successful extensions: 1
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 664
Length of database: 1058
Length adjustment: 10
Effective length of query: 654
Effective length of database: 1048
Effective search space:   685392
Effective search space used:   685392
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)


| Home | SequenceCutter | Blast | Download |