BAC Information

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BAC

Clone NameMSMg01-231D14
ChromosomeY (Build37)
Map Location 1,716,212 - 1,716,453
singlet/doubletsinglet
Overlap genenone
Upstream geneUsp9y, LOC100039278, EG667079, LOC667089, Rhoay-ps1, Zfy2, Ube1y1-ps2, LOC667137, LOC100039373, LOC100039381, LOC667143, LOC100039401
Downstream geneLOC100039430, 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, LOC100039613, LOC100041537, LOC667227, LOC667236, EG631479, LOC667244
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-231D14.T7 (MSMg01no231_d14.b1)MSMg01-231D14.TJ (MSMg01no231_d14.g1)
ACCAG398110AG398111
length709716
length of high quality
(start - end)
247 (46 - 292)286 (77 - 362)
definitionCHROMAT_FILE: MSMg01no231_d14.b1 PHD_FILE: MSMg01no231_d14.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:47:27 2005CHROMAT_FILE: MSMg01no231_d14.g1 PHD_FILE: MSMg01no231_d14.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:47:28 2005
singlet/doubletsinglet---
BLAST hitpluralno hit data
sequence
TCATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGG
AATTCCACTGTACTGGAGCATCAAGTACAATGGGAAGAGAGAGTAGGGGC
TGGTCCTGGGAAAGAGAAAGGGGCCAATCAGTCATTTTATCCTTCCTCTC
AGGTATCAGTTTATTTTGGTTCAAGAAACAAATATACTTTCTTTCAATGA
ATTTTATAAGTGAACAGGAAATATTTCCATCTCTCAGAACTGCCTGTGGA
AATTTTATTGTGGTTATAGGAGTTTTTTTGGGTCTATTTTCCGAAGAACA
ATTAAAGCCAGGTATGTTTAAATGTACCTGTATTAGCACCAACAGGGAAT
GCTGAGCCGCAATATTCTATCACTTCCTACAGAATACATAACATACTAAG
GGCCTACCTCGGCACTAACACGAAGTGAAATAAAATCATAGAAATGTACC
TTCGATAATTGTATCTAGCGCATTGGGAAGTTTATAAGATAATGAATCAG
AAAATTCAGTTATCTTTATGATAAAAATAATTATAAATGTTAAGAAGGTT
AAACAATTACTACAAGAAGGGGGAGGGAGAGACCTGGGTGAGATACCACA
CACGGAGGGGAAGAGATGAACTTGATCAAGTACTGTGTGGGGTTGTGACA
CAGGAGTGCATTGATGAAGATCAGCATAAAGAATGGAAACAGGCAACTTT
GTGAGGGAA
CGATGACXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXAGAAGAAAGACCAGTGGTGTGGGT
AGCAGCAAAGTTCTTGAGTCTCAAAGACAACAGATACCATGGCTGAATAT
TCCAACTACAACAACTAGGTAACATTAGTTCTACACTTAGCATGCCGTTT
CTAGAAAAAAAAATTAAAGAATTAAGCAATGTTTCCTCTGAACCTGACAT
GTTACTATCACAAATGAAAGAAGGATCCATGATCACATGAATATGAAAGG
GGCATGAAGCAGCACAATTGTTCAAATTATTGGCAGCTAGTCAGCATTAA
CACAAGAAGGGATTTTTTTATTATCCCCCGCCCCGAAGACATGTCCAAAT
GACCGCGTTCATTTACAAGCTCCTTACCCATACCTTGTATATCCATTGAT
TGATTAACTCATTGATTAAAGCCCTCAGGTTCCAATCACTTTTCAGAGTG
CATATTGTACTACCTATGAACATTGTACTGTGGACCAAAGCCTTCATCTA
AGACCCATGACTGACATTTCAAAACAATTTAACCACAGAATTCTTTATTT
GAAACAAAGTGATAAGATCCATCTATCTCTTCAAGGATATCTCTGTTTTG
TTCAAAAAGGAGAAAAATGCAATCCAAGTTCAGGATCTTGATCCCTTATC
CATGCATCTTANACCC
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no231_d14.b1 MSMg01no231_d14.b1 CHROMAT_FILE:
MSMg01no231_d14.b1 PHD_FILE: MSMg01no231_d14.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 20:47:27 2005
         (247 letters)



>mm_chrY_1716057_1716707
          Length = 651

 Score =  165 bits (85), Expect = 3e-45
 Identities = 206/251 (82%), Gaps = 22/251 (8%)
 Strand = Plus / Minus

                                                                       
Query: 8   ttccactgtactggagcatcaagtacaatgggaagagagagtaggggctg-gtcctggga 66
           ||||| ||||||||| ||||||| ||||| |||| |||||| ||| |||| | ||||| |
Sbjct: 397 ttcca-tgtactggaacatcaagaacaataggaacagagagaaggagctgag-cctggaa 340

                                                                       
Query: 67  aagaga-aaggggccaatcag-tcattttatccttcctctcaggtatcagttta-----t 119
           || ||| | ||||| |||||| || ||||||||| |||||||| || |||||||     |
Sbjct: 339 aacagagagggggctaatcagttc-ttttatcctgcctctcagatagcagtttagttttt 281

                                                                       
Query: 120 tttggtt-caagaaacaaatatactttctttcaatgaattttataagtgaacaggaaata 178
           |||  || |||||||||||||||||||||||||||||||||| | |||||||||||||||
Sbjct: 280 ttt--ttccaagaaacaaatatactttctttcaatgaattttgttagtgaacaggaaata 223

                                                                       
Query: 179 tttccatctctcagaac-tgcctgtgga-aattttat--tgtggttataggagttttttt 234
           ||| ||||| ||||| | |  | ||| | ||||||||  |||  |||||| || ||||||
Sbjct: 222 ttttcatctatcaga-cataacagtg-acaattttatattgt--ttatagaagatttttt 167

                      
Query: 235 gggtctatttt 245
           ||| |||||||
Sbjct: 166 gggactatttt 156


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: 1
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: 247
Length of database: 651
Length adjustment: 9
Effective length of query: 238
Effective length of database: 642
Effective search space:   152796
Effective search space used:   152796
X1: 7 (13.9 bits)
X2: 517 (999.5 bits)
X3: 517 (999.5 bits)
S1: 7 (14.4 bits)
S2: 7 (14.3 bits)