BAC Information

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BAC

Clone NameMSMg01-535J05
ChromosomeY (Build37)
Map Location 2,890,685 - 2,891,352
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 nameMSMg01-535J05.T7 (MSMg01no535_j05.b1)MSMg01-535J05.TJ (MSMg01no535_j05.g1)
ACCAG602992AG602993
length774763
length of high quality
(start - end)		602 (47 - 648)666 (74 - 739)
definitionCHROMAT_FILE: MSMg01no535_j05.b1 PHD_FILE: MSMg01no535_j05.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 21:13:26 2005CHROMAT_FILE: MSMg01no535_j05.g1 PHD_FILE: MSMg01no535_j05.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 21:13:26 2005
singlet/doublet---singlet
BLAST hitno hit dataplural
sequence
CCTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCG
GAATTCCTGTCTCGAAAAAATCCAAAAATCAGACCATACACACAAATAAG
AAAACAAACAAACAAACAAACAAAAACAAAAAACAAAACACACACACAAC
ACACACAAAACAGAAATACAACAACATAAGGCAATATTCCCTTTCCGTTT
TGTCTTGTGGTTTTCTTTTTTAAATGTGTTATTGCATCTCAGAGATGCCT
CCTCCTTTATAAATACTGACATCACAAACACATCATAGATATGAACTTGC
ATCATCGCCACAGGTGTTTTACAACTCCTACTTCAGTGGCACAAGGGACT
CCACACACATACTCCTTCCATAGAGTAAATGTATCCAATATCATACAGAT
TATTCAAAACAATGGAAATAACTTCAAATTATCTCAACACTTATGCCCAG
TGATCGGGTGTCTCAGCTTGAGGCTCCCAATGATCAATTGTTTATAAGTA
CTAGCTTGTAAAACTGTAAATGAGTTGTCTATCTGGAACCCTTTATAAGA
TCCTGTCCTCAGCAAGGATCCTGTTCAAAGCCATTAGCCACTTTTTTTTT
AATGTGCACATTTAATGGGATAAAGTAATGAGACTTTTCCTAATTGTAGA
AACGACCTCGTCTCTTTATTTTCCCACACATTTTTATTACATATGTTCTT
CTTTTACCTTTCAAATGCTATCCCAAAAGTCCCCCATACCTCCTGCCCCC
TGCTCACCTACCCACTCACTCCCN

NCGATGCTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXACTATTCTCCGTGTGCAGTTGTAAATG
CTCGTGAGAGCAACGAACTCCCTTTTTCAGATGGAAAAGGGTTACTGACA
GACATGTCAGCGAGAAACCGGCTGCCACCCTTTGGGACATCCCAGGAGTT
CTGAGGGAGTTCCAGGGATACCTGGAGATCTCCTATCAGTGTGCCAAGTG
AGAGTGTGCTCACTCGGCTGTCTGTTTCTGTTACTGGGTGCCAAGTGAGT
GTGTGATCTCTCAGCCATCTTATTGGGGCCTGGTCTTGGTTATTGTAATC
TTTTTTGTGTATATATTTTTTTCCCTGTATGTGACTCTGATGATGGGACC
GACTATTAACATGCCCCTTGGACTGACCCTTGATCACTCGACTGAAATTA
AGACTAACACTCACATTCTCTCTGTGTATGTCTGAAATAGATTTTAGAGA
ACTTTCTGATCTACAGAATGGCCATCTTTGATGATAGTTGGCCACTAGAG
GGCACTCTTTGTTTGGTTCTGTTTTCAGCTCTTAAAGTTGTTTTACAGAG
GGGACCAGGTTCTCAGCCAGATTACGTGCCCTACATTCTCATCTAGAAAA
ATTTAGCACAGGATCCCCCCTCTCCCATCCTGTTTAAAGCCTTGGGTTAA
AAAGAATAATCCAGGCTCCCCAGTCCTGGCCCTCTGCCACCCAGAGGTGA
AAAAAAAGTTAAA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no535_j05.g1 MSMg01no535_j05.g1 CHROMAT_FILE:
MSMg01no535_j05.g1 PHD_FILE: MSMg01no535_j05.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 21:13:26 2005
         (666 letters)



>mm_chrY_2890485_2891553
          Length = 1069

 Score =  944 bits (488), Expect = 0.0
 Identities = 625/672 (93%), Gaps = 10/672 (1%)
 Strand = Plus / Plus

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

                                                                       
Query: 61  gaaaagggttactgacagacatgtcagcgagaaaccggctgccaccctttgggacatccc 120
           ||| |||||||||||||||||||| || |||||||||||||||| ||| |||||||||||
Sbjct: 261 gaagagggttactgacagacatgtgag-gagaaaccggctgccagcctgtgggacatccc 319

                                                                       
Query: 121 aggagttctgagggagttccagggatacctggagatctcctatcagtgtgccaagtgaga 180
           |||||||||||||||||||||||||||||||||||||||||||||| |||||||| ||||
Sbjct: 320 aggagttctgagggagttccagggatacctggagatctcctatcagggtgccaagagaga 379

                                                                       
Query: 181 gtgtgctcactcggctgtctgtttctgttactgggtgccaagtgagtgtgtgatctctca 240
           |||||||||||||| |||||||||||||||||||||||||||||||||| || |||||||
Sbjct: 380 gtgtgctcactcggttgtctgtttctgttactgggtgccaagtgagtgtatgctctctca 439

                                                                       
Query: 241 gccatcttattggggcctggtcttggttattgtaatcttttt-tgtgtatatatt---tt 296
           |||||||||||||||||||||||||||||||||||||||||| || |||||||||   ||
Sbjct: 440 gccatcttattggggcctggtcttggttattgtaatctttttctgggtatatattgtttt 499

                                                                       
Query: 297 tttccctgtatgtgactctgatgatgggaccgactattaacatgccccttggactgaccc 356
           ||||||||||||| ||| ||||||||||||||||||||| ||||||||||||||||||||
Sbjct: 500 tttccctgtatgtaactatgatgatgggaccgactattagcatgccccttggactgaccc 559

                                                                       
Query: 357 ttgatcactcgactgaaattaagactaacactcacattctctctgtgtatgtctgaaata 416
            ||| |||| |||||||||||| ||||| |||||||||||||||||| ||||||||||||
Sbjct: 560 atgagcactggactgaaattaaaactaaaactcacattctctctgtggatgtctgaaata 619

                                                                       
Query: 417 gattttagagaactttctgatctacagaatggccatctttgatgatagttggccactaga 476
           ||||||||||||||||||| ||||||||||||||| |||||||| |||||||||||||||
Sbjct: 620 gattttagagaactttctgctctacagaatggccagctttgatgttagttggccactaga 679

                                                                       
Query: 477 gggcactctttgtttggttctgttttcagctcttaaagttgttttacagaggggacca-g 535
           |||||||||| ||||||| ||||||||||||||||||||||||||||||| ||||||| |
Sbjct: 680 gggcactctt-gtttggtcctgttttcagctcttaaagttgttttacagaagggaccaag 738

                                                                       
Query: 536 gttctcagccagatt-acgtgccctacattctcatctagaaaaatttagcacaggatccc 594
           || |||||||||||| | |||||||||||||| ||||| ||||| |||||||||||||||
Sbjct: 739 gt-ctcagccagattga-gtgccctacattctgatctaaaaaaaattagcacaggatccc 796

                                                                       
Query: 595 ccctctcccatcctgtttaaagccttgggttaaaaagaataatccaggctccccagtcct 654
           ||||||||||||||||| ||||||||||||| ||||||||||||||||||||||||||||
Sbjct: 797 ccctctcccatcctgttgaaagccttgggttcaaaagaataatccaggctccccagtcct 856

                       
Query: 655 ggccctctgcca 666
           ||||||||||||
Sbjct: 857 ggccctctgcca 868


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: 666
Length of database: 1069
Length adjustment: 10
Effective length of query: 656
Effective length of database: 1059
Effective search space:   694704
Effective search space used:   694704
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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