BAC Information

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BAC

Clone NameMSMg01-290B02
ChromosomeY (Build37)
Map Location 2,783,957 - 2,784,451
singlet/doubletsinglet
Overlap genenone
Upstream geneVmn2r-ps137, LOC100039450, 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 nameMSMg01-290B02.T7 (MSMg01no290_b02.b1)MSMg01-290B02.TJ (MSMg01no290_b02.g1)
ACCAG419449AG419450
length731733
length of high quality
(start - end)
464 (46 - 509)218 (150 - 367)
definitionCHROMAT_FILE: MSMg01no290_b02.b1 PHD_FILE: MSMg01no290_b02.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:24:31 2005CHROMAT_FILE: MSMg01no290_b02.g1 PHD_FILE: MSMg01no290_b02.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:24:31 2005
singlet/doubletsinglet---
BLAST hitpluralno hit data
sequence
TCATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGG
AATTCACTCAATTGTTCATGGTGTGTTCATCATTGAATATACAGACTCCT
GAAATAAGTCATACAAAATATGCTCCATTATATACTAGACAATTAGTGTC
ATTCTGTTTGGCAATACAACATGCATGATTATGCCTCATAATCATGAGCA
ACTTGGCCATATGGGAAATATAATTAGTGTATTTCTGCTGACTGAAGATC
AGATGGGTTGAGTGTTATCATGTGTGCTGTTGATGAGAGGAAGCAGCATA
GATGGTGAGTATAGATCAGAGAGGAACATCCAAGGAGGACACTATGTAAG
GAACCCTAGGAAGAGTATCATCACTGCTTTTAGCTAGTATACATATTTTT
AGAATCCCCACTTTCTAGGGTGGAAAAGAAAACTGTATTACTCTAATTTA
CTAAGTATGGTCATTTGATACATCAGTGATCATCACCAAGGTGAACAGGT
GTTGACAGAAGTTTGGGGACTCACAAGAAGCCTGTTCTGGGAAAACCCAT
TGCCTTCAAAGTACGGAGATTTCTGACCAGCAACACAGGATGAACAGTCT
ACATTGGCTGCAGTAGCCCCATTGTGTCCAAATTAGTGCTTTTCACACCA
TGTAATTTGACTCCTTTGAGTGTTCAAACGACCCTTTCACAACTGTCACA
TATCATATATCTTGTTTAAAAGATATATACN
CGATGACXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXCTGAAAAAAAATAAAAAACAGACA
CACAGACACACAGACACACACACAGACACACACACACGCACGCACTAACG
AACAAACAATACATAGGTACCAGGAACCACAATGGGACCACATCAATTTC
AAATAGAGCATCCTATCCTGGCCTGATACCACCTTTCTAACAACCATAAA
CCCAGATGAAAAGGACCCTAACTGGATCTTGTGACAAGCTCTGCTGCTGC
TCCTCCAGCCTGTGTCTGGCTCCTCCTATTGGCCCCACCGAGGCCCACTG
GCCCAGCCCTGCTTGCACTAACTGGGCTTGGCCCAGGAACTGAACCTCCT
CCCTCCATCCCACCTCTGGTGAGAAACTCTTTAGTCTCATTAAAGGGCTT
CTGGGGCTCTCAATGTAACAAATTCTGAAGATGTGACCTCATGTTGGCTT
TATTTGACAGCTGGGCCAGAGGTTTAATTTTCCTAGTTCTAAGATTAGAA
CTATTTACTAGAAGGAGTAGGGTATGTGAGACCCTGTCTTATAGCATTTA
TCCCTGGAAGGAAGAGCCCCTGAACATTTCCCAACCTTTTTTTTTTCCCT
TGATCTCTAAATAAACATCAGAAGGAAGCTCTTTGTATTCTATTGCCAGC
AAAAGGCTTTTTGTTTCTGTGCCTTACAGCCAG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no290_b02.b1 MSMg01no290_b02.b1 CHROMAT_FILE:
MSMg01no290_b02.b1 PHD_FILE: MSMg01no290_b02.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:24:31 2005
         (464 letters)



>mm_chrY_2783790_2784653
          Length = 864

 Score =  619 bits (320), Expect = 0.0
 Identities = 435/496 (87%), Gaps = 39/496 (7%)
 Strand = Plus / Plus

                                                                       
Query: 5   gaattcactcaattgttcatggtgtgttcatcattgaatatacagactcctgaaata-ag 63
           ||||||| ||| ||| | ||||||||||||||||||||||||||||||||||||| | ||
Sbjct: 168 gaattcattcatttgctgatggtgtgttcatcattgaatatacagactcctgaaa-agag 226

                                                                       
Query: 64  tcatacaaaatatgctccattatatactagacaattagtgtcattctgtttggcaata-- 121
           |||||||||||||||| |||||||||||||||||||||||||||| ||||||||||||  
Sbjct: 227 tcatacaaaatatgcttcattatatactagacaattagtgtcattttgtttggcaatatg 286

                                                                       
Query: 122 --------caa---------c------------------atgcatgattatgcctcataa 146
                   |||         |                  ||| |||||||||||||| ||
Sbjct: 287 attattgccaaattgtatggcaatatgattaatatataaatgtatgattatgcctcagaa 346

                                                                       
Query: 147 tcatgagcaacttggccatatgggaaatataattagtgtatttctgctgactgaagatca 206
           |||||||||||| ||||||||| |||||| ||||| | ||||||||||||||||||||||
Sbjct: 347 tcatgagcaactgggccatatgcgaaatacaattactatatttctgctgactgaagatca 406

                                                                       
Query: 207 gatgggttgagtgttatcatgtgtgctgttgatgagaggaagcagcatagatggtgagta 266
           |||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||
Sbjct: 407 gatgggttgagtgttatcatgtgtgctgttcatgagaggaagcagcatagatggtgagta 466

                                                                       
Query: 267 tagatcagagaggaacatccaaggaggacactatgtaaggaaccctaggaagagtatcat 326
            |||||||||||||||||||||||||||||| |||||||||||||||||||||| | |||
Sbjct: 467 gagatcagagaggaacatccaaggaggacacaatgtaaggaaccctaggaagagcaccat 526

                                                                       
Query: 327 cactgcttttagctagtatacatatttttagaatccccactttctagggtggaaaagaaa 386
           |||||||||||||||||| |||||||||||||||||||||||||||  ||||||||||||
Sbjct: 527 cactgcttttagctagtagacatatttttagaatccccactttctattgtggaaaagaaa 586

                                                                       
Query: 387 actgtattactctaatttactaagtatggtcatttgatacatcagtgatcatcaccaagg 446
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 587 actgtattactctaatttactaagtatggtcatttgatacatcagtgatcatcaccaagg 646

                           
Query: 447 tgaacaggtgttgaca 462
           ||||||| ||||||||
Sbjct: 647 tgaacagatgttgaca 662


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: 16
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: 464
Length of database: 864
Length adjustment: 10
Effective length of query: 454
Effective length of database: 854
Effective search space:   387716
Effective search space used:   387716
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)