BAC Information

Click to search

BAC

Clone NameMSMg01-494J03
ChromosomeY (Build37)
Map Location 2,890,685 - 2,891,333
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 nameMSMg01-494J03.T7 (MSMg01no494_j03.b1)MSMg01-494J03.TJ (MSMg01no494_j03.g1)
ACCAG571819AG571820
length722722
length of high quality
(start - end)
638 (40 - 677)646 (68 - 713)
definitionCHROMAT_FILE: MSMg01no494_j03.b1 PHD_FILE: MSMg01no494_j03.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:19:26 2005CHROMAT_FILE: MSMg01no494_j03.g1 PHD_FILE: MSMg01no494_j03.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 20:19:26 2005
singlet/doublet---singlet
BLAST hitno hit dataplural
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTCT
TTCTTATCAGAGAGGGTAATTATTGAAGACCTTTTGGACTGGACGTGAAG
TTTGGGGCCTGGGGCAGGCAGAGATGATCTCAGGCCTGTCAGGCTTACAA
GACAGATATTGGACCCTCATGTATACAGAGGGTGCATTTGATATATAATG
GACACAAATTAGTGGTCTAAGTATTGATGTTTAGGAGTAGAAGATTAAAG
CAGAATTAGAGTCTGCTTAATGTCCCCAACCTCTTTAGGGTTAAGGAAGT
GGCCTAGCCTACCTTAAGCAGGAGAGGTAGGACTGCTTCACAACTTAGAA
GATTCCCATCTTCACATACACCTTGGTAAGCCTGGCAGCAATACAAGTAT
TATGCACCAGGCATGACTGTAAGTCTCTAAGCACTCTTGAAGCTTATCAT
CAGTTATATGGGTGTTTGCATGAAGGATGGTACGAAGGATAGATGACCTA
AGTTTCAGGCTCTGTTAATGCAGGGCAGAATTAAGTGAAGTATAATTTCT
TAGAGACCATCGTTGGAGGGAAATGATCTAAAGCTCATGATTGGAGTGTT
TTATTTGAGGCTCATATGTATGTAAGGATGCTCTTAGGATACCTGAATTT
TGGTACCCTTGGGAAAAATGAAAATTCTGAGATTCCAATAGTAAACTACA
GTCATAATTATAACTGACCTTG
TXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXACTATTCTCCGTGTGCAGTTGTAAATGCTCGTG
AGAGCAACGAACTCCCTTTTTCAGATGGAAAAGGGTTACTGACAGACATG
TCAGGAGAAACCGGCTGCCACCCTTTGGGACATCCCAGGAGTTCTGAGGG
AGTTCCAGGGATACCTGGAGATCTCCTATCAGTGTGCCAAGTGAGAGTGT
GCTCACTCGGCTGTCTGTTTCTGTTACTGGGTGCCAAGTGAGTGTGTGAT
CTCTCAGCCATCTTATTGGGGCCTGGTCTTGGTTATTGTAATCTTTTTTG
TGTATATATTTTTTTCCCTGTATGTGACTCTGATGATGGGACCGACTATT
AACATGCCCCTTGGACTGACCCTTGATCACTCGACTGAAATTAAGACTAA
CACTCACATTCTCTCTGTGTATGTCTGAAATAGATTTTAGAGAACTTTCT
GATCTACAGAATGGCCATCTTTGATGATAGTTGGCCACTAGAGGGCACTC
TTTGTTTGGTTCTGTTTTCAGCTCTTAAAGTTGTTTTACAGAGGGGACCA
GGTTCTCAGCCAGATTACGTGCCCTACATTCTCATCTAGAAAAATTTAGC
ACAGGATCCCCCCTCTCCCATCCTGTTTAAAGCCTTGGGTTAAAAAGAAT
AATCCAGGCTCCCCAGTCCTGG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no494_j03.g1 MSMg01no494_j03.g1 CHROMAT_FILE:
MSMg01no494_j03.g1 PHD_FILE: MSMg01no494_j03.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 20:19:26 2005
         (646 letters)



>mm_chrY_2890485_2891534
          Length = 1050

 Score =  913 bits (472), Expect = 0.0
 Identities = 606/652 (92%), Gaps = 9/652 (1%)
 Strand = Plus / Plus

                                                                       
Query: 1   actattctccgtgtgcagttgtaaatgctcgtgagagcaacgaactccctttttcagatg 60
           ||||||||| || | |||||||| |||||||||||||||||||| ||||| |  ||||||
Sbjct: 201 actattctcggtttacagttgtacatgctcgtgagagcaacgaaatccctctcccagatg 260

                                                                       
Query: 61  gaaaagggttactgacagacatgtcaggagaaaccggctgccaccctttgggacatccca 120
           ||| |||||||||||||||||||| |||||||||||||||||| ||| ||||||||||||
Sbjct: 261 gaagagggttactgacagacatgtgaggagaaaccggctgccagcctgtgggacatccca 320

                                                                       
Query: 121 ggagttctgagggagttccagggatacctggagatctcctatcagtgtgccaagtgagag 180
           ||||||||||||||||||||||||||||||||||||||||||||| |||||||| |||||
Sbjct: 321 ggagttctgagggagttccagggatacctggagatctcctatcagggtgccaagagagag 380

                                                                       
Query: 181 tgtgctcactcggctgtctgtttctgttactgggtgccaagtgagtgtgtgatctctcag 240
           ||||||||||||| |||||||||||||||||||||||||||||||||| || ||||||||
Sbjct: 381 tgtgctcactcggttgtctgtttctgttactgggtgccaagtgagtgtatgctctctcag 440

                                                                       
Query: 241 ccatcttattggggcctggtcttggttattgtaatcttttt-tgtgtatatatt---ttt 296
           ||||||||||||||||||||||||||||||||||||||||| || |||||||||   |||
Sbjct: 441 ccatcttattggggcctggtcttggttattgtaatctttttctgggtatatattgttttt 500

                                                                       
Query: 297 ttccctgtatgtgactctgatgatgggaccgactattaacatgccccttggactgaccct 356
           |||||||||||| ||| ||||||||||||||||||||| |||||||||||||||||||| 
Sbjct: 501 ttccctgtatgtaactatgatgatgggaccgactattagcatgccccttggactgaccca 560

                                                                       
Query: 357 tgatcactcgactgaaattaagactaacactcacattctctctgtgtatgtctgaaatag 416
           ||| |||| |||||||||||| ||||| |||||||||||||||||| |||||||||||||
Sbjct: 561 tgagcactggactgaaattaaaactaaaactcacattctctctgtggatgtctgaaatag 620

                                                                       
Query: 417 attttagagaactttctgatctacagaatggccatctttgatgatagttggccactagag 476
           |||||||||||||||||| ||||||||||||||| |||||||| ||||||||||||||||
Sbjct: 621 attttagagaactttctgctctacagaatggccagctttgatgttagttggccactagag 680

                                                                       
Query: 477 ggcactctttgtttggttctgttttcagctcttaaagttgttttacagaggggacca-gg 535
           ||||||||| ||||||| ||||||||||||||||||||||||||||||| ||||||| ||
Sbjct: 681 ggcactctt-gtttggtcctgttttcagctcttaaagttgttttacagaagggaccaagg 739

                                                                       
Query: 536 ttctcagccagatt-acgtgccctacattctcatctagaaaaatttagcacaggatcccc 594
           | |||||||||||| | |||||||||||||| ||||| ||||| ||||||||||||||||
Sbjct: 740 t-ctcagccagattga-gtgccctacattctgatctaaaaaaaattagcacaggatcccc 797

                                                               
Query: 595 cctctcccatcctgtttaaagccttgggttaaaaagaataatccaggctccc 646
           |||||||||||||||| ||||||||||||| |||||||||||||||||||||
Sbjct: 798 cctctcccatcctgttgaaagccttgggttcaaaagaataatccaggctccc 849


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: 25
Number of extensions: 3
Number of successful extensions: 3
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 646
Length of database: 1050
Length adjustment: 10
Effective length of query: 636
Effective length of database: 1040
Effective search space:   661440
Effective search space used:   661440
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)