BAC Information

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BAC

Clone NameMSMg01-424J06
ChromosomeY (Build37)
Map Location 2,870,358 - 2,870,890
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 nameMSMg01-424J06.T7 (MSMg01no424_j06.b1)MSMg01-424J06.TJ (MSMg01no424_j06.g1)
ACCAG518465AG518466
length742743
length of high quality
(start - end)		538 (47 - 584)581 (80 - 660)
definitionCHROMAT_FILE: MSMg01no424_j06.b1 PHD_FILE: MSMg01no424_j06.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:45:34 2005CHROMAT_FILE: MSMg01no424_j06.g1 PHD_FILE: MSMg01no424_j06.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:45:34 2005
singlet/doubletsinglet---
BLAST hitpluralno hit data
sequence
CTCAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCG
GAATTCTTGTTTGCTTTTCTCTTGCTTCTCCAATTACAGCACCAAGATTC
TGCATTTCCTTTTGTTTTGGAAGATTCTCAAGGAATCCTAAATCCAGATT
TTAGGGCAGTTATTTAAAATTCTTGCTGGTGATACTGACAATGGTTTCCT
CATTTTTTAAAAAATTAGGTATTTTTTCATTTACATTTCCAATACTATCT
CAAAAGTCCCCACATACCCACCTCAACCACACCCCCACCACCACCACCAC
ATCTTGTCCCTGGCATACCCCTGAATTAAGGCATATAAAGTTTGCAAGAC
TGATGGGGCTCTCTTTCCAATGATAACCAACTAGTCCATCTTCTGATACA
ACTGCAGCTAGAAACATGAGCTCTGATATGCTGCTAGAAAAATGAGCTCT
GGGGGGTTTCTTTAGTTCATATTGTTGTTCCACTTATGGGATTGCAGACC
CCTTTAGCTCCTTGGGTACCTTCTCTACCTCCTCCATTTCGGTCCCTGTG
ATTCATCCAATAGATGACTGTGAGCATCCACTTCTGTGTTTGCTAGGNCA
TGGCAAAGCCTCACAAGAGACAGCTAAATCTGGGTCCTTCCAGCAAAATC
CTGCCAGTGTATACAATGGTGTCAGTGTTTGGAGGCTGCTTATGGATGGA
TTAATGGATTGAAAACACTAATTTGGACCCATGGGGGTTACT

NCCCGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXAGATACTTTTAATATGAATGC
TAGGATGACTGTACTTATGAAGAAATAATGAGCAGGTGAAACAGTCAGAT
GCAGATGTATGCAAACAACCAATGGAGAGAATCAACAGAACCATTGGTTT
AATTTGAGAAAGACTGAAGGAGGCTGACAGGACCAGTTGTCTCAAATGCT
ATGGACCTAGAATTCTCCCAAATGCTAGACAACCAAACAGGCAGCATATA
TGAACTATCAGAAGGTCTCTAAAACATACACAGAAAAAAATCTGCTTGAT
CTCTATTCAATCAGAAATGATGCACCAAATTCTCAACAAACTAGAGACAT
CAAGGTGTTTAGAGATCCGGTAGGATGGGGACTTTCCCTTGGAGACAGGG
AATGGGCAGTAGATATGGGATGTGGAACAGTAGGAAGGTGGACAATGAAT
GAACTAATTAATAAAAAATAATAGTGCCACATAATCAGGTCCCCTATACT
CTAATTCTGCAATCGGAATCCAAGAAAACTCACATGAACCCATAATAACA
TACTCAAAAAAATTATATATATATAACTGAAATGTCATGATTTTCAACTT
TATTTTACTAAGAAATTCTCTGGAACCAAGATTTTCTTTGGTTGAACTCA
TTTATATGCATTTGCTCTTCTAGTGTACCGAAAATATAGGTTA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no424_j06.b1 MSMg01no424_j06.b1 CHROMAT_FILE:
MSMg01no424_j06.b1 PHD_FILE: MSMg01no424_j06.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:45:34 2005
         (538 letters)



>mm_chrY_2870154_2871091
          Length = 938

 Score =  893 bits (462), Expect = 0.0
 Identities = 516/536 (96%), Gaps = 5/536 (0%)
 Strand = Plus / Plus

                                                                       
Query: 5   gaattcttgtttgcttttctcttgcttctccaattacagcaccaagattctgcatttcct 64
           |||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||
Sbjct: 205 gaattcttgtttgcttttctcttgtttctccaattacagcaccaagattctgcatttcct 264

                                                                       
Query: 65  tttgttttggaagattctcaaggaatcctaaatccagattttagggcagttatttaaaat 124
           ||||||||||||||||||| | |||||||||||||||| |||||||||||||||||||||
Sbjct: 265 tttgttttggaagattctcgatgaatcctaaatccagactttagggcagttatttaaaat 324

                                                                       
Query: 125 tcttgctggtgatactgacaatggtttcctcatttttt--aaaaaattaggtattttttc 182
           ||||||||||| | ||||||||||||||||||||||||  |||   ||||||||||||||
Sbjct: 325 tcttgctggtggttctgacaatggtttcctcattttttttaaa---ttaggtattttttc 381

                                                                       
Query: 183 atttacatttccaatactatctcaaaagtccccacatacccacctcaaccacacccccac 242
           ||||||||||||||||||||| ||||||||||| ||||||||||||||||||||||| ||
Sbjct: 382 atttacatttccaatactatcccaaaagtccccccatacccacctcaaccacacccctac 441

                                                                       
Query: 243 caccaccaccacatcttgtccctggcatacccctgaattaaggcatataaagtttgcaag 302
           ||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||
Sbjct: 442 caccaccaccacatcttgtccctggcatacccctgaaataaggcatataaagtttgcaag 501

                                                                       
Query: 303 actgatggggctctctttccaatgataaccaactagtccatcttctgatacaactgcagc 362
           |||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||
Sbjct: 502 actgatggggctctctttccaatgatgaccaactagtccatcttctgatacaactgcagc 561

                                                                       
Query: 363 tagaaacatgagctctgatatgctgctagaaaaatgagctctggggggtttctttagttc 422
           ||||||||||||||||||||||| |||||||||||||| ||||| |||||||||||||||
Sbjct: 562 tagaaacatgagctctgatatgcagctagaaaaatgagttctggagggtttctttagttc 621

                                                                       
Query: 423 atattgttgttccacttatgggattgcagacccctttagctccttgggtaccttctctac 482
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 622 atattgttgttccacttatgggattgcagacccctttagctccttgggtaccttctctac 681

                                                                   
Query: 483 ctcctccatttcggtccctgtgattcatccaatagatgactgtgagcatccacttc 538
           ||||||||||||||||||||||||||||||||||| ||||||||||||||||||||
Sbjct: 682 ctcctccatttcggtccctgtgattcatccaatagctgactgtgagcatccacttc 737


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: 22
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: 538
Length of database: 938
Length adjustment: 10
Effective length of query: 528
Effective length of database: 928
Effective search space:   489984
Effective search space used:   489984
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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