BAC Information

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BAC

Clone NameMSMg01-390H19
ChromosomeY (Build37)
Map Location 2,494,188 - 2,494,684
singlet/doubletsinglet
Overlap genenone
Upstream geneUbe1y1-ps2, LOC667137, LOC100039373, LOC100039381, LOC667143, LOC100039401, LOC100039430, Vmn2r-ps137, LOC100039450, LOC547210, Ube1y1-ps1, Sry, LOC100042840, LOC100042849, LOC620228, LOC667181, Rbmy1a1, LOC667189, LOC100042874, LOC667194, LOC100042881, LOC667201, LOC100039546, Rhoay-ps2, LOC100039568, LOC100041505, LOC100039581, LOC676356, LOC667217
Downstream geneLOC100039613, LOC100041537, LOC667227, LOC667236, EG631479, LOC667244, LOC100039652
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-390H19.T7 (MSMg01no390_h19.b1)MSMg01-390H19.TJ (MSMg01no390_h19.g1)
ACCAG492486AG492487
length764760
length of high quality
(start - end)
505 (56 - 560)494 (82 - 575)
definitionCHROMAT_FILE: MSMg01no390_h19.b1 PHD_FILE: MSMg01no390_h19.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:34:25 2005CHROMAT_FILE: MSMg01no390_h19.g1 PHD_FILE: MSMg01no390_h19.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:34:25 2005
singlet/doublet---singlet
BLAST hitno hit dataplural
sequence
NNNNAATCATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTTTCGAGGAT
CCGCGGAATTCCTAATATTATCAGGGTTACAACCAAGACTAGCCATCATA
AGTATACCTCTTGTCAATAAGACATACAATCATATCTCCTTTTATTATAT
TAATTTCCAAAGGAAAGCAATAGTTATGCCTAGCATAGTATCCAATATCC
AATATATAACTACAAATAAAGTATATGAATTTCCAGGGCATAATCATGCC
TAACATGAGATAAAATTCCATATACAACTACAATCATATTTTATCTTTTA
GAATAGATTACAATTTCTTAATTGTAACACCATATAAAATCAAAGTCAAA
GCATTGTTTACTTTCAAAGTACACTGACATGAATATACATTCTCATCCAA
AATAAGAGGAAAGGAAACATAAAAAGGAAATACTGGAACAAATCAAGATC
AAATCTAGCCAGACAAACCCCAAATCCTAAATTTATGTACATTGTGGCTT
AAAAAGATCTTCCTATCTAGTTTCATGACTGCAATATATTTCTCTGTCTT
GGGCTGGTTCCATTCTTTGTTTGTAGCTTTCTTTGAGAGATATCCCCCAG
CTGTGGACCTTCTTACATCCTGAGTGCTATATCACTATATAGGCTTCCCT
TTTCTACCTTCCCCAAAAGCCTCTCTAGGCATCTATTCCCGGGAAATCCG
CTGCACCCTGGAGGGCCCCCTTTGGGTTTCCCTAACCCCCCAAGAAAACA
TCCTTGGATTCTTT
NNNCCCCGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXAAACAAGTTTGGACCCTAT
GAAATTAATGGATTGTCCAAATGCTCCCGGACTGAGAATCTTGGGGGAGC
TCTAGGGTTTTTCTTAATCTGCAATGTCATTTAGACATTAGAGCAAGCAG
AGATGATTTGCTCCTTCTCTTAGGCAATCAGATTTTTCCTGGAAGATAAC
CGTTGTGAGCCTTGAGAGGGTTTGCTGGAGGAGAAGGGATATTGACAGTG
CTCTACCCAACCTGCATGGCACACAGCTAGACCTTATTCCCTCTGATGCA
TAGAATTGTCTGATGGTATTAGATGGGATCCTTGCTGAGGAGAGCATCTG
AGGAAAGGTTCCTGGTAGAGAAATGGAGTGCAGTTATACAACCTAGAAAG
TATATACCATTGATCTTCCTGAGCCTGAAACAGAAAGCAAGCAAGCATTG
GACCTAATGTATGATTGGTGAGACAGATTGAAGAGATTTTGTTTGTTTTG
AATTCTCTGTATAGGTATGGATACATTGTCTCATGGAAAGGCGGAGTGTG
GATTCCCTTTTGGTTACTAAAATAGAACAAGTGGTAACAGCCCATGGAAA
TGTGGCAAGTCCAAGGGTTGTTGTGCATGAACTGCCCACGGTTCAAAAAG
CTTGACCCCCCCTCTCCATTCCTAACAAATTCTAGGGAAGAAACCCGCCC
ATAAAACCCT
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no390_h19.g1 MSMg01no390_h19.g1 CHROMAT_FILE:
MSMg01no390_h19.g1 PHD_FILE: MSMg01no390_h19.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 23:34:25 2005
         (494 letters)



>mm_chrY_2493988_2494884
          Length = 897

 Score =  426 bits (220), Expect = e-123
 Identities = 432/506 (85%), Gaps = 21/506 (4%)
 Strand = Plus / Minus

                                                                       
Query: 1   aaacaagtttggaccctatgaaattaatggattgtccaaatgctcccggactgagaatct 60
           ||||| ||||||| ||||||||| ||||  |||| |||| |||||| |||||||||||||
Sbjct: 697 aaacatgtttggatcctatgaaagtaatacattgcccaactgctcctggactgagaatct 638

                                                                       
Query: 61  tgggggagct-ctagggtttttcttaatctgcaatgtcatttagacattagagcaagcag 119
           |||| ||| | ||||||  ||||||||||||||||| |||||||| ||| |||||||  |
Sbjct: 637 tgggagag-tgctagggactttcttaatctgcaatggcatttagatattggagcaagtgg 579

                                                                       
Query: 120 agatgatttgctccttctcttaggcaatcagatttttcctggaagataaccgttgtgagc 179
           ||||| |||||||||||| ||||||| |||||||| ||||||| || || | ||||||||
Sbjct: 578 agatgctttgctccttcttttaggcactcagatttgtcctggaggacaaactttgtgagc 519

                                                                       
Query: 180 -cttgagagggtttgctggaggag--aaggg-atattgacagtgctctacccaacctgca 235
             ||||||||||||||||||||||  ||||| || |||||| ||||||||||||||||||
Sbjct: 518 atttgagagggtttgctggaggagaaaagggaat-ttgacaatgctctacccaacctgca 460

                                                                       
Query: 236 tggcacacagctagaccttattccctctg-atgcatagaattgtctgatggtattag-at 293
           |||||||||||||||| || ||||||||| | |||||||||| ||||||||  || | ||
Sbjct: 459 tggcacacagctagactttgttccctctgga-gcatagaattttctgatggggtt-gcat 402

                                                                       
Query: 294 gggatccttgctgaggagagcatctgaggaaaggttcc-tggtagagaaa-tggagtgca 351
           | ||||||||||||||| || |||||||| ||| |||| || |||| ||| || ||||||
Sbjct: 401 gagatccttgctgaggacaggatctgaggcaagtttccatg-taga-aaactgtagtgca 344

                                                                       
Query: 352 gttatacaacctagaaagtatataccattgatcttcctgagcctgaaacagaaagca--- 408
           ||||||||| |||| ||||||| |||||||||| || |||||||||| | || ||||   
Sbjct: 343 gttatacaagctagcaagtataaaccattgatcatcatgagcctgaagctgagagcaccg 284

                                                                       
Query: 409 agcaagcattggacctaatgtatgattggtgagacagattgaagagattttgtttgtttt 468
           ||   ||||||||||||||| || |||| |||||||  ||||||| ||||||||||||||
Sbjct: 283 ag---gcattggacctaatgcataattgctgagacactttgaagacattttgtttgtttt 227

                                     
Query: 469 gaattctctgtataggtatggataca 494
           ||||||||| |||||||||| |||||
Sbjct: 226 gaattctctctataggtatgaataca 201


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: 7
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: 494
Length of database: 897
Length adjustment: 10
Effective length of query: 484
Effective length of database: 887
Effective search space:   429308
Effective search space used:   429308
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)