BAC Information

Click to search

BAC

Clone NameMSMg01-320C16
ChromosomeY (Build37)
Map Location 1,917,548 - 1,917,777
singlet/doubletsinglet
Overlap genenone
Upstream geneLOC100039278, EG667079, LOC667089, Rhoay-ps1, Zfy2, Ube1y1-ps2, LOC667137, LOC100039373, LOC100039381, LOC667143, LOC100039401, LOC100039430, Vmn2r-ps137, LOC100039450, LOC547210, Ube1y1-ps1
Downstream geneSry, 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 nameMSMg01-320C16.T7 (MSMg01no320_c16.b1)MSMg01-320C16.TJ (MSMg01no320_c16.g1)
ACCAG439476AG439477
length708712
length of high quality
(start - end)
228 (121 - 348)279 (75 - 353)
definitionCHROMAT_FILE: MSMg01no320_c16.b1 PHD_FILE: MSMg01no320_c16.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:02:38 2005CHROMAT_FILE: MSMg01no320_c16.g1 PHD_FILE: MSMg01no320_c16.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 22:02:38 2005
singlet/doubletsinglet---
BLAST hitpluralno hit data
sequence
TTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGA
ATTCCTTTCCGCCTATTAGCCTATTCTTATCTTACTCTTTGGCCAATAGG
ATCTCCCAGGTATTCCCAGGCAAAGGTCAAGGACTCTTACTAGATGCCTG
GCTGCATGTTAAATTTCTTTAGCCACCACCGGAGACATATATATATATAT
ATGTGTATATATATATATAATATGTAGGTATGTATATAATCATTCAGGTT
GAGCATTCTAATGACTGGGATGCAGTAGTTCATTTCTGAGCAGGCAAAAA
CACAGTGCCATCGGGTCAGGGCTGGCTGTCATTTCCTTACAGCATCACCT
TGCTAATCATCCGCCCCCCCCCAATACTCATCTTTGAAAAACATACCAAA
CTTAATACTGTGAAAACACAAACTGTGTCTCTTTAGTATGCAAAACACTC
CTTTGTTGATCAAATGCATCTTTCTGTTTATCAGGGTTTCTCTCTAGCAC
ACAAAACTACATCATGAGTATGTAAAGTCTTGTGAGTGTGTGTGTGTGTG
TGTGTGTGTGCGTGCGCGTGTGTGTGCATGATATTTAAACTTTTTTCTAC
AACGCGCCCCGCCCATTTGTTTTTTTACCTACCCTATTATCCCCCTATAT
TTTTTGCGAAAAACGCCTTTATGCCCACTGAATTCTTTCCCGCCCACCTT
TCTATCTN
CGATTAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXTTGAAGCACCTCTGGTTCTTGAAAAG
GATGGTGGTCTCTTCTTCCTACCACTTTCAAGTGATGATGGTCTCCTGGC
TTGTTTTACTTTAATTCTTTTTCCATCCAAAATCTGAAAAAGACAACAGA
ACCAAATTTAACTTACATACATTACCTTTTACTGAGTCAAACATGAGGTT
TAGAATGTCTTTCTTAATGGAAATATATACCAGTTTGTTTTATCAGAAAG
GAAAAAAATTGAGACATAAACAAGAGAATTGTAGTATTTTACAATCTGCA
CATTAAATCNNTTCCCANACCANGNCTGTTGAGAGCCCAAAGAATAAAAT
CATTTCCGTGCTGGAAAAACAAAAATTGAAAGTAGATTGTCCAATTCAAA
ATAATCAATCTTAAAAACTACATACAAGTAACATTATACACACTGAGCAA
GCTGTATTGGTATGTATTTAGGAGTATATATGTACTGTATATGTACTGTA
TATGTATGTGATAAACTAATGAAAAAAAAACCGGAAAAAGTGGAAAGAGA
AAAAAAAAGATGACAAATTATACTATTACCCTCCTCAAATAAAGGAAACA
ATTTTTAAAAGTTACTTGAAAAAAATGGAGAAAAATTACCTTTAAAGTAA
TCATAAAAATAT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no320_c16.b1 MSMg01no320_c16.b1 CHROMAT_FILE:
MSMg01no320_c16.b1 PHD_FILE: MSMg01no320_c16.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 22:02:38 2005
         (228 letters)



>mm_chrY_1917230_1917857
          Length = 628

 Score =  433 bits (224), Expect = e-126
 Identities = 228/230 (99%), Gaps = 2/230 (0%)
 Strand = Plus / Minus

                                                                       
Query: 1   caaaggtcaaggactcttactagatgcctggctgcatgttaaatttctttagccaccacc 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 548 caaaggtcaaggactcttactagatgcctggctgcatgttaaatttctttagccaccacc 489

                                                                       
Query: 61  ggagac--atatatatatatatatgtgtatatatatatataatatgtaggtatgtatata 118
           ||||||  ||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 488 ggagacatatatatatatatatatgtgtatatatatatataatatgtaggtatgtatata 429

                                                                       
Query: 119 atcattcaggttgagcattctaatgactgggatgcagtagttcatttctgagcaggcaaa 178
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 428 atcattcaggttgagcattctaatgactgggatgcagtagttcatttctgagcaggcaaa 369

                                                             
Query: 179 aacacagtgccatcgggtcagggctggctgtcatttccttacagcatcac 228
           ||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 368 aacacagtgccatcgggtcagggctggctgtcatttccttacagcatcac 319


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: 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: 228
Length of database: 628
Length adjustment: 9
Effective length of query: 219
Effective length of database: 619
Effective search space:   135561
Effective search space used:   135561
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)