BAC Information

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BAC

Clone NameMSMg01-404O24
ChromosomeY (Build37)
Map Location 2,890,685 - 2,891,173
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 nameMSMg01-404O24.T7 (MSMg01no404_o24.b1)MSMg01-404O24.TJ (MSMg01no404_o24.g1)
ACCAG503486AG503487
length761763
length of high quality
(start - end)		510 (36 - 545)491 (62 - 552)
definitionCHROMAT_FILE: MSMg01no404_o24.b1 PHD_FILE: MSMg01no404_o24.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:19:46 2005CHROMAT_FILE: MSMg01no404_o24.g1 PHD_FILE: MSMg01no404_o24.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:19:46 2005
singlet/doublet---singlet
BLAST hitno hit dataplural
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAATTCTCCCA
AATGTTCGACCACCAAACAGGAAGCATATACCAACTATTAGATTATCCCC
AAAATATACACTGAAAAAAAATTTGATCTCTGTTCAATCAGAGATGATGC
ACTGAGGTCTCAAGAGGCTAGAGGCCCCTGGGTGTTTAGAGATGAGGTGG
CTTGGGGACATGCTCTTGGATACAGTGGATGGTCAGTAGATATGGGATGT
GTAATAATAAGAAGGTGGACAGGGTTGAGTGAATGAATGAATGAATTAAA
ATAGAATAATGCCAAGTAATCACATCCCCTATACTCCAAATCTGGAATCC
GAATGAAGGAAACTCACATTCTCTTTAATAGTTGTGTAGTACTCCATTGT
GTAAATGTAACACATTTTCTGTATCCATTCCTCTGTTGAGGGGCATCTGG
GTTCTTTCCAGCTTCTGGCTATTATAAATAGGGCTGCTATGAACATAGTG
GAGCATATGTCCTTTTTACCGGTTGGGACATCTTCTGGATATATGCCCAG
AAGAGGTATTGCTGGATCTTCTGGTGGGAATATGTCTAATTTTCTGAGGA
ATCGCCAGACTGATTTCCAGAGTGGGTGTACCAGCTTTGCAATCCCACCA
ACAATGGAGGAGTGTTCCTCCTTTCTCTCATTCTTCCCCCGATTCGCCTG
CCCCCTGAAATATTCCTCTTAAACCTTTTTGATGGGGGGGAAGGGGGGAA
CTCCCACTGTG

GXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXACTATTCTCCGTTTGCAGTTGTAAATGCTCGTGAGAACA
ACGAACTCCCTTTTTCAGATGGAAAAGGGTTACTGACAGACATGTCAGGA
GAAACCGGCTGCCACCCTTTGGGACATCCCTGGAGTTCTGAGGGAGTTCT
AGGGATACCTGGAGATCTCCTATCAGTGTGCCAAGTGAGAGTGTGCTCAC
TCGGCTGTCTGTTTCTGTTACTGGGTGCCAAGTGAGTGTGTGCTTTCTTG
GCCATCTTATTGGGGCCTGGTCTTGGTTATTGTAATCTTTTTTGTGTATA
TGTTTTTTTTTCCCTGTATGTGACTCTGATGATGGGACCGACTATTATCA
TGCCCCTTGGACTGACCCTTGATCACTCGACTGAAATTAAGACTAACACT
CACATTCTCTCTGTGGATGTCTGAAATCGATTTTAGAGAACTTTCTGATC
TACAGAATGGCCAGCTTTGATGATAGTTGGCCACTAGAGGGCACTCTTTG
TTTGGTTCTGTTTTCAGCTCTTAAAGTTGTTTTACAGAGGGGACCAGGGT
CTCAGCCAGATTACGTGCCATACATTCTCATCTAGAAAAATTTAGCACAG
GATCCCCCCTCTCCCTCCTGGTTAAAGCCTTGGGGTTAAAAGAATAATCC
AGGGTCCCCAGTCCTTGGCCCTCTGCCCCCCCAAGTGGAAAAAAAATGTA
AAACTGGCGCGGG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no404_o24.g1 MSMg01no404_o24.g1 CHROMAT_FILE:
MSMg01no404_o24.g1 PHD_FILE: MSMg01no404_o24.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:19:46 2005
         (491 letters)



>mm_chrY_2890485_2891375
          Length = 891

 Score =  667 bits (345), Expect = 0.0
 Identities = 453/489 (92%), Gaps = 2/489 (0%)
 Strand = Plus / Plus

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

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

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

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

                                                                       
Query: 241 ccatcttattggggcctggtcttggttattgtaatcttttt-tgtgtatatgtt-ttttt 298
           ||||||||||||||||||||||||||||||||||||||||| || |||||| || |||||
Sbjct: 441 ccatcttattggggcctggtcttggttattgtaatctttttctgggtatatattgttttt 500

                                                                       
Query: 299 ttccctgtatgtgactctgatgatgggaccgactattatcatgccccttggactgaccct 358
           |||||||||||| ||| ||||||||||||||||||||| |||||||||||||||||||| 
Sbjct: 501 ttccctgtatgtaactatgatgatgggaccgactattagcatgccccttggactgaccca 560

                                                                       
Query: 359 tgatcactcgactgaaattaagactaacactcacattctctctgtggatgtctgaaatcg 418
           ||| |||| |||||||||||| ||||| |||||||||||||||||||||||||||||| |
Sbjct: 561 tgagcactggactgaaattaaaactaaaactcacattctctctgtggatgtctgaaatag 620

                                                                       
Query: 419 attttagagaactttctgatctacagaatggccagctttgatgatagttggccactagag 478
           |||||||||||||||||| |||||||||||||||||||||||| ||||||||||||||||
Sbjct: 621 attttagagaactttctgctctacagaatggccagctttgatgttagttggccactagag 680

                    
Query: 479 ggcactctt 487
           |||||||||
Sbjct: 681 ggcactctt 689


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: 19
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: 491
Length of database: 891
Length adjustment: 10
Effective length of query: 481
Effective length of database: 881
Effective search space:   423761
Effective search space used:   423761
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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