BAC Information

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BAC

Clone NameMSMg01-424G02
ChromosomeY (Build37)
Map Location 1,807,344 - 1,807,744
singlet/doubletsinglet
Overlap genenone
Upstream geneLOC100039278, EG667079, LOC667089, Rhoay-ps1, Zfy2, Ube1y1-ps2, LOC667137, LOC100039373, LOC100039381, LOC667143, LOC100039401, LOC100039430, Vmn2r-ps137
Downstream 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
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-424G02.T7 (MSMg01no424_g02.b1)MSMg01-424G02.TJ (MSMg01no424_g02.g1)
ACCAG518313AG518314
length742776
length of high quality
(start - end)
569 (46 - 614)418 (80 - 497)
definitionCHROMAT_FILE: MSMg01no424_g02.b1 PHD_FILE: MSMg01no424_g02.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:45:19 2005CHROMAT_FILE: MSMg01no424_g02.g1 PHD_FILE: MSMg01no424_g02.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:45:19 2005
singlet/doublet---singlet
BLAST hitno hit dataplural
sequence
CTAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGG
AATTCACTCCTAGCCACTCCCATTCTCGGGGTGAAATATTCAGGTGATGG
GCAAGCAATGAATCAGGAGCTGTCATGCCATATCAGGTGCTGAAATGTCA
TGCTGCAGGTTATAAAAGCAGCGCCATTTTCCCGGTTCGGGAACTTCCTG
ATAAGCAAGCAATAAAGCTCTTGCTGTGGAAGATTCTAGTTTGTTGTATC
TTTCTTGCCGGTCGAGCGGGACGCAATAGTGAATAGCTTTTACCTCCCTG
CTGTTGCTCTCCTAGTACTGACCAGAAACTGAGGTGCCATTTCCAGCAGA
CTGTGCTAGGACATAGTCATAGAACACATCTTCCTTCGAAAGCAGCTTCT
AGGTTTCATTGGAAAAAACTTAAATCTGTGAATATTGGGAACAGAGTCTG
TACATAGCTCAGTTGACAGAGTGACTGCCTAGCATTTAGGATGCCTAGGA
CTCAGTGATTAGTGCTGTCTTTACTTTATTGCCTTTAGTGGGTCTACTTA
TTATATTGTAATACACTTGGGATCATAGAAAGGGATATCATGATGACCTA
AGACCAAGACTGTCAATGATGTTGGTTAGAGTCTTCTCTTGTATCCTCAG
GCTAAAGAGACCTGATACCAGAGTGACTCACATTACTGAGAAACTCAAGT
TTCCATTTCATTTCTTTTTAAGGCCTCTTAATTCAAAGAGCC
TAGTCGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXGTTGAGTTGTTCTTGAGTTCA
CTGATGCAATGGCTTCATCAAATAATTCTGAAGCTGGGTCAGGAGAAACA
ATAAAGAAGGACAGTGGTGTGCTGTGTCCCTGGGAAGATATTTGTGAATG
CAGGCACTTAGCTCAGACCTTACACGTACAAGAGAGTCATGGTGACCCTT
CTGGCCCTTTTATTTTTTTTTTTCTCTTCTTCTTGATCATTGGGTGTAAT
AGTCATAGCACAACCTAAATTGACATATAATTTCAAGGAGATGATCCTCA
TCAGAGACAAATTAACTCAGGGCTGAAGAAATAAATGTTGATCTGAGTAT
ATTCTTCTGAGCTCTAGAGAATTACTTGTTAATTACACTATTTTTATTTC
CTTGTTTTTTTGTTTCTTTGTTTCTTTGTTTGTTTGGTTGCCTGCTTGGT
TATTTTATTTGAGTTTCTGTATGTTTAGATTTGGCTGTCAGGAAACTCAC
TGTGGAGACCAGACTAGTCCTTTATCTCCCTAAGGCCTTGCCTCACTCTT
GCCTCTTTGAAGACCTATGGAATTATAAGTTAATTGGTCCCCCCCCCACT
TTTCCTTATTAAACCTTCCCCTACCTTTGAATTTGTGTTGGCTTTCTTGG
AAATTTTTTTTTGGTTTGAAATCTTTCCCCCTTTGTGGTTGTGGTCTTTA
ATACTGTTTTTGGTCTCTCCCCCCTC
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no424_g02.g1 MSMg01no424_g02.g1 CHROMAT_FILE:
MSMg01no424_g02.g1 PHD_FILE: MSMg01no424_g02.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:45:19 2005
         (418 letters)



>mm_chrY_1807145_1807958
          Length = 814

 Score =  228 bits (118), Expect = 4e-64
 Identities = 338/430 (78%), Gaps = 54/430 (12%)
 Strand = Plus / Plus

                                                                       
Query: 1   gttgagttgttcttgagttcact---gatgcaatggcttcatcaaataattctgaagctg 57
           |||||| | ||||||||||   |   ||||||||||||||| |||||||| |||| ||||
Sbjct: 200 gttgaggtcttcttgagtt---tggagatgcaatggcttcaccaaataatcctgaggctg 256

                                                                       
Query: 58  ggtcaggagaaacaataaagaaggacagtggtgtgctgtgtccctgggaagatatttgtg 117
           |||||||||| |||||| |||||| |||||||||||||||||||| || |||||||||||
Sbjct: 257 ggtcaggagacacaatagagaaggccagtggtgtgctgtgtccctaggcagatatttgtg 316

                                                                       
Query: 118 aatgcaggcacttagc---tcagaccttacacgtacaa--gagagtcatggtgacccttc 172
           |||| || ||| ||||   ||||| |||| | ||| ||  ||| ||  |||||||  || 
Sbjct: 317 aatgtagccacctagctcatcagagcttataggtagaattgag-gt-gtggtgacaatt- 373

                                                                       
Query: 173 tggcccttttattttttttt----ttctcttcttcttgatcatt---gggtgtaatagtc 225
           ||   |||   |||||||||    |||| |||| |||| |||||   ||| |  | || |
Sbjct: 374 tg--actt---tttttttttcaaattctgttctgcttgctcattacaggg-g--acaggc 425

                                                                       
Query: 226 atagcacaa--cctaaattgacatat---aatttcaaggagatgatcctcatcagagaca 280
           ||| | |||  || | |||||| | |   |  |||||||||| | |||||| ||||| ||
Sbjct: 426 ata-c-caactcccatattgacct-tgcca--ttcaaggagaggttcctcagcagaggca 480

                                                                       
Query: 281 aattaactcagggctgaagaaataaatgttgatctgagtatattcttctgagctctagag 340
           ||||| |||||||||||||||||   |||  |||||||||| || |||||||||||||||
Sbjct: 481 aattagctcagggctgaagaaat--gtgt--atctgagtatgttattctgagctctagag 536

                                                                       
Query: 341 aattacttgttaatta-cactatttttatttccttgttt----ttttgtttctttgtttc 395
           |||||||||||||||| | || |||  ||||||||||||    |   |||||||||||||
Sbjct: 537 aattacttgttaattatc-ctgttt--atttccttgtttcagat---gtttctttgtttc 590

                     
Query: 396 tttgtttgtt 405
           ||||||||||
Sbjct: 591 tttgtttgtt 600


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: 11
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: 418
Length of database: 814
Length adjustment: 9
Effective length of query: 409
Effective length of database: 805
Effective search space:   329245
Effective search space used:   329245
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)