BAC Information

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BAC

Clone NameMSMg01-154C20
ChromosomeY (Build37)
Map Location 2,793,757 - 2,794,224
singlet/doubletsinglet
Overlap genenone
Upstream 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
Downstream genenone
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-154C20.T7 (MSMg01no154_c20.b1)MSMg01-154C20.TJ (MSMg01no154_c20.g1)
ACCAG355546AG355547
length699701
length of high quality
(start - end)		581 (71 - 651)469 (70 - 538)
definitionCHROMAT_FILE: MSMg01no154_c20.b1 PHD_FILE: MSMg01no154_c20.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 19:18:44 2005CHROMAT_FILE: MSMg01no154_c20.g1 PHD_FILE: MSMg01no154_c20.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 19:18:44 2005
singlet/doublet---singlet
BLAST hitno hit dataplural
sequence
CATXXXXXXXXXXXXXXXXXXXXXXXCTATTTTCAGAAATCCGCGGAATT
CTTAAGATGTCCCGACTGGTGTTGTGTGTATCTGGCTGTAGTTAGCCGAC
TGTGCGCCATAGCTACCCCGGTGCTGCTCGGACCAAAAGGGGCTTGTGCC
CCTACTCAGACCGGGTTTTTGCTTCTCTGACTAATGCCGTGTCAAGTCCC
GCAAGATTGGATTGGAGCAGATGCTTAGTTCCACTCACCAGAGGGCTTAA
GTTCGCTTGGCGGGTGTTGTGGGTAGCTAGTGGTAGTCAGAAGTCTGTGC
GCCCTCTCCAGCACCTTCAAATTCTGGCTATGACTCCTGCCCTCCACTCT
TCTCAGTTATGGCATTTCACCTCTTCTTCTCCCAGCCTGATGGATCTCCT
TTGTACTACTTCCTCTCTCTTTTAAGCTCTGGAACCTTAAAAGTCCTACC
TCTGTCTGCCCTGGCCAGCCATTACCTGGTTGAATCTTCATTTACCAATC
AAAACCAACTCAGAGCAGAATCCCTCAGTGTTGTACATGCAGAANATTAT
AATAAAAGCAGCATTAGGTCAAACCAACTACAATTCAGTTCATAATTTTT
ATAAAGTCCACTGACTTTATTAATCTAAAATTTGTTATAAATAGCGACTG
ATTTATTTTTTTGGCAAAAAAGGAACCAAATTAGTTACTTTATATCCAG

CGATGATAGGGGAGGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXATTAAAAACAAACTAAAGACCAGTCTTCATT
TTCCTTTACCTGGTTTTGAAAGACCAGATTTCCAAAATTTGTATATATAG
GCGCCAAAGTGCTTCCAAATCCAGAGGCTCCTCTCAACCTCAGAAGAGCT
GGTACTTCAGACATAATTCAGGGAAGGCTGTGTTTTTGTATGTATTGTTT
TGGTATAGGAAGGTAAGCTCTAACTCTATATTTCAGTATTATCTCAAAGC
ACATGTGCAGTGTGGATTGTCCTTGAAAATGATGTACTCAGCCTTACAAA
TTTACTGGGGCCTAAGGAAACATGTCTTCTATATTTTTTATATATAAATT
TTATTTTTTATTTATTAATTTTTTCATTGTTGAAGATTGAATACAGAGCT
TCTTTGGGTAGCATTAAAATATAAGTCCAGTCAGGCGAAAAGTATTTCAT
TAATATTTGCAAAAAAAAAAAAATTTTATATATCTTCTTGTATTACCAAC
CAAGAACAGAATCTCCAGTAACTAATGATACTTAGAATGCCCATTCTGAA
GAAGTAATTGGAGATACCCTGCTATATGTTCCCACATATTATTTCCTTCT
TAGTGCACGTTTTTCATTGAAAGCATTACTGGTTTTATTTCCAGGTAATC
T
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no154_c20.g1 MSMg01no154_c20.g1 CHROMAT_FILE:
MSMg01no154_c20.g1 PHD_FILE: MSMg01no154_c20.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 19:18:44 2005
         (469 letters)



>mm_chrY_2793715_2794583
          Length = 869

 Score =  733 bits (379), Expect = 0.0
 Identities = 447/471 (94%), Gaps = 5/471 (1%)
 Strand = Plus / Minus

                                                                       
Query: 1   attaaaaacaaactaaagaccagtcttcattttcctttacctggttttgaaagaccagat 60
           |||||||||||||| |||||||||||||||||||||||||||||||||||||| ||||||
Sbjct: 510 attaaaaacaaactgaagaccagtcttcattttcctttacctggttttgaaaggccagat 451

                                                                       
Query: 61  ttccaaaatttgtatatataggcgccaaagtgcttccaaatccagaggctcctctcaacc 120
           |||||||||||| ||||||||||||||||||||||| |||||||||||||||||||||||
Sbjct: 450 ttccaaaatttgcatatataggcgccaaagtgcttctaaatccagaggctcctctcaacc 391

                                                                       
Query: 121 tcagaagagctggtacttcagacataattcagggaaggctgtgtttttgtatgtattgtt 180
           |||||||||||||||||||||||||||||||||||||||||||||| ||||||| |||||
Sbjct: 390 tcagaagagctggtacttcagacataattcagggaaggctgtgtttatgtatgtgttgtt 331

                                                                       
Query: 181 ttggtataggaaggtaagctctaactctatatttcagtattatctcaaagcacatgtgca 240
           ||||||||||||||||||| |||||||||||| ||||||||||||||||| |||||| ||
Sbjct: 330 ttggtataggaaggtaagcactaactctatatctcagtattatctcaaagtacatgtaca 271

                                                                       
Query: 241 gtgtggattgtccttgaaaatgatgtactcagccttacaaatttactggggcctaaggaa 300
           || |||| || |||||||||||| ||||||||||||||||||||||||||||||||||||
Sbjct: 270 gtttggactggccttgaaaatgaagtactcagccttacaaatttactggggcctaaggaa 211

                                                                       
Query: 301 acatgtcttctatattttttatatataaattttattttttatttattaattttttcattg 360
           |||| ||||||||||||||||||| |||||||||||||||||||||| ||||||||||||
Sbjct: 210 acatctcttctatattttttatatttaaattttattttttatttatttattttttcattg 151

                                                                       
Query: 361 ttgaagattgaatacagagcttctttgggtagcattaaaatataagtccagtcaggcgaa 420
           ||||||||||||| ||||||||||||| ||||||||||||||||||||||||||||||||
Sbjct: 150 ttgaagattgaatccagagcttctttgtgtagcattaaaatataagtccagtcaggcgaa 91

                                                              
Query: 421 aagtatttcattaatatttgcaaaaaaaaaaaaatt-t-tatatatcttct 469
           |||||||||||||||||||||   |||||||||||| | ||||||||||||
Sbjct: 90  aagtatttcattaatatttgc---aaaaaaaaaattgtatatatatcttct 43


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: 21
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: 469
Length of database: 869
Length adjustment: 10
Effective length of query: 459
Effective length of database: 859
Effective search space:   394281
Effective search space used:   394281
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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