BAC Information

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BAC

Clone NameMSMg01-109L21
ChromosomeY (Build37)
Map Location 2,889,680 - 2,889,874
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 nameMSMg01-109L21.T7 (MSMg01no109_l21.b1)MSMg01-109L21.TJ (MSMg01no109_l21.g1)
ACCAG322850AG322851
length720729
length of high quality
(start - end)
261 (79 - 339)214 (75 - 288)
definitionCHROMAT_FILE: MSMg01no109_l21.b1 PHD_FILE: MSMg01no109_l21.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 18:13:04 2005CHROMAT_FILE: MSMg01no109_l21.g1 PHD_FILE: MSMg01no109_l21.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 18:13:04 2005
singlet/doublet---singlet
BLAST hitno hit dataunique
sequence
TTCATAATTTGCGGCGCTAAACGATCACTATTTTCAGAGAAGCCGCGGAA
TTCAATGTTATTTTCTGTGATTAGCAGCAGCCCCCCTCCAAGGTTTGCTT
AATCTTAGAAGCAATAGGCAAGAGTCTCATGCCCTTGCAATGGTTCCTCT
TCTAGTCTATGATATAGTACCCCTCCACCCTAGGCCATTGTAAATTCCTG
TGCATGGTTGAAACTCAACTATCTATAGTTCTAAGTATCTATTCTGCTTG
ATCCTTATAACATAACATTCCTTATTTCGAGATAATGGTAAATTCTTGCA
TATGGTAGTTTGTCCTGATATTTCTAACTCTATGTAGCAGTTAGAAATGC
CTGATTTCTTTCTTTGTCTCTCTTACTATACTAGAGGTTAATCTGAATGT
ACCCAAATAGCCAGCATCCTTACTGAATTCAAAGACCATGGCTTGCTCAA
GGACTGCCTAGGAGAGGAATTTATATGTGTGGAATCTAATTTATCAATAT
GTCTATACCAATTCTCTTATAGGCAATTACAATAAATCCATATTATTAAA
ATGTACTCACATCCATTTACCGAATAATAGAAGGAAATTGTATCTTTCCT
TTATAATGTTTTCTTGTTTACAAGATATTAAATTTCCATGAATTTTTCGC
CTCATCACCTGTTTTAGCTTCTTTGGTCTGATAGACGGAACACATCTCTG
GTGTATTGCACAAATTATGA
AACGATGCTGTGTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXCAAAAAACGTGTAATATTTACTTTAA
ACAATTCATACATTTACACCTCACAGCACTTCTTCATAACTGTACTACCA
TTGCTGAGATCCTTCTTCTTCGTAAATGGTCCTTCTCTTATTTTTATAAT
GGATCTCCTTTTCTTTGTGTGTATATCTGTCAACATCTCATGCAGGTGGT
TGTATTGTACTAGTTGCTATATTTTTGAGATCACAAGGTCTAAATGGACC
ACAATCTGGTCTTGAACTACACATATTATAGCATCTGACCCTGAATTGCT
CTTTTTCCTGATTCTATTTCTCCACTTAACCTTTCACAAACACTACTATT
GAAGTAATCTATCATAATGGTAAAAAATGATAATATTACACCGCACTTTT
CATCTGTTTCTACTTGATGTGATATCTTCTCTTCTTTGTCAAATGAAGGT
TTTTGTTCTCTATTTACCATATCAATGTATTTATATTATTCTAATTTTAT
TACACGGGTATTATTTATTATTGAATTGTATTTCTCAACAATTACTGTAT
TAATTGAATCTTTTAATCACCTTTTATATTTTTATTATTTTTTTATTTGA
ATTCCCGCATTATATCTTTATGACAAAAAATAATTTCCTATTTTATACAT
CTTTTTCATTATTTTTAATAATATCATCA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no109_l21.g1 MSMg01no109_l21.g1 CHROMAT_FILE:
MSMg01no109_l21.g1 PHD_FILE: MSMg01no109_l21.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 18:13:04 2005
         (214 letters)



>mm_chrY_2889479_2890092
          Length = 614

 Score =  292 bits (151), Expect = 1e-83
 Identities = 184/195 (94%)
 Strand = Plus / Minus

                                                                       
Query: 2   aaaaaacgtgtaatatttactttaaacaattcatacatttacacctcacagcacttcttc 61
           ||||||| ||||||||||||||||||||||||||||||||||||| ||||||||||||||
Sbjct: 396 aaaaaacttgtaatatttactttaaacaattcatacatttacaccccacagcacttcttc 337

                                                                       
Query: 62  ataactgtactaccattgctgagatccttcttcttcgtaaatggtccttctcttattttt 121
           |||||||||||||| |||||||||||||||||||||  ||||||||| ||||||||||||
Sbjct: 336 ataactgtactacccttgctgagatccttcttcttcccaaatggtccctctcttattttt 277

                                                                       
Query: 122 ataatggatctccttttctttgtgtgtatatctgtcaacatctcatgcaggtggttgtat 181
           ||||||| ||||||||||||||||||||||| ||  ||||||||||||||||||||||||
Sbjct: 276 ataatggttctccttttctttgtgtgtatatatggaaacatctcatgcaggtggttgtat 217

                          
Query: 182 tgtactagttgctat 196
           |||||| ||||||||
Sbjct: 216 tgtactcgttgctat 202


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: 7
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: 214
Length of database: 614
Length adjustment: 9
Effective length of query: 205
Effective length of database: 605
Effective search space:   124025
Effective search space used:   124025
X1: 7 (13.9 bits)
X2: 517 (999.5 bits)
X3: 517 (999.5 bits)
S1: 7 (14.4 bits)
S2: 7 (14.3 bits)