BAC Information

Click to search

BAC

Clone NameMSMg01-418G19
Chromosome9 (Build37)
Map Location 111,977,896 - 112,159,228
singlet/doubletdoublet
Overlap geneArpp21, LOC100039341, LOC620760
Upstream geneLOC100039275, Lrrfip2, Mlh1, Epm2aip1, Lba1, Dclk3, LOC620615, Stac, 4930545L08Rik
Downstream geneLOC100043800, EG622110, LOC100039391, LOC100043801
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-418G19.T7 (MSMg01no418_g19.b1)MSMg01-418G19.TJ (MSMg01no418_g19.g1)
ACCAG513764AG513765
length756775
length of high quality
(start - end)
520 (45 - 564)415 (77 - 491)
definitionCHROMAT_FILE: MSMg01no418_g19.b1 PHD_FILE: MSMg01no418_g19.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:37:37 2005CHROMAT_FILE: MSMg01no418_g19.g1 PHD_FILE: MSMg01no418_g19.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:37:37 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(112,158,715 - 112,159,228)(111,977,896 - 111,978,310)
sequence
NTTTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTTTCAGAGGATCCGC
GGAATTCGTGTCTTCTCTCACAGAAGTGCCTCCGTGACTCAGATGCCGCC
TGCACTCTTACGCACCACCCTTTGTCCTGTTCAGCCAAGTAGAAATTCTC
CAGGTACATGAACTTAGTTGTTCTCTTTATCTAGGACATAGGGCAAAAGT
CCTAGAGAAGGCTCTTCCACATGGGACTTGGAATGGTTTAGTCATGCTCA
TGCGTGTGGAGTGTGACTCACACCTGTCTACACTAAGTCCTTGACCCCGG
GTGACACTGAACTACAGTCTTTGCTATATGTACAGGGACTCACATGCATG
AGTTAAAAAATAAAACTCTGCTTGCTGTGATATCTGGGTCCAGAGAAGAT
ATGTGTTACATCTTCACCTAAAGACTTCTGCAGCAAGAGTAAATGCATAG
CTCTCTTCCAATATGCATCTGACCCAAAGCTTCCCGATTCCCCTAACATC
AGTTTTCATGTGACAAGCTGTGGCCAACAGACTGTGAGCTAAGTGTCTTG
TATGTGCCAAGGCATCTTCAGCCAACTACAGCTGAGACCCTGATGAAACC
ATACCAGAGCCTCCTTACCTTAAAAGAGGAGAGCTTGGCTTTGTTCCCCA
TGCAATGGTTTGCTTAACAGTCTCCCCCCCCAAGAAATCGAATACCAGTG
TGCATTCTTTGATTAATTTTTCTTTCTCCCATACTTTCTAATTATTACCT
ATTTTG
GACGATGCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXCATTTTAAATGGAAGAGGCTGTCA
TATTATTGAAGTAATTCTCTGAACTTTCCTGGCCCAGAGTGCTATGCTGA
CAGCCAGAGATCTCCCACAATCCTGAGGGAGGAAGGCTGCCCGCAAGACT
CACCAACATTTTACTTCCTTAATGAGGGTAGGGCCTCAGAGGGAAAGAGA
GCTTTCGTGTGCCTCAGCTGGCCTGTTAATGGTGATGCTGTGCATTCACC
TGGCTGGTGGCAGAACACTGAGCCTTATAGAAGGCTTTCCCCAAAACACG
CTGGGGGGAAGGGGCCAGAGTCAAGAGAAAGATGGAGAAGGCTATGATAA
CTGGCCCCTTGGTACCTATTTCTACCGACTTAATTCTTTTCACCTGGAGG
CCACAGGCCAGAAGATCAGCACCACTGACCTGCATGTCTACAGGGTATTA
TGGTGACAGTCCTGGTCCACCACCTCAAGATAACTACCACAGCCTCAGAT
CCTATCTGTAGGTAGCTATCCATGACTACCACTGGGAAAGCTTTTTTTTA
TCGGCACATATATTGTCTTACAAAAATCCTGGGACCCACTTTCTAATTTG
AGGGCGAGACTTACTTTGGTTCTCCCCTTATCTCAAATCTTTTTACCCTC
CCTCCCTTCTTCTTTTAACATTTTTCTTCTTCCCCCTTGCTTCTTCCTGT
TTTGCCCCCCTTTTTTCCCTCCTCC
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no418_g19.b1 MSMg01no418_g19.b1 CHROMAT_FILE:
MSMg01no418_g19.b1 PHD_FILE: MSMg01no418_g19.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:37:37 2005
         (520 letters)



>mm_chr9_112158509_112159428
          Length = 920

 Score =  978 bits (506), Expect = 0.0
 Identities = 512/514 (99%)
 Strand = Plus / Minus

                                                                       
Query: 7   ggaattcgtgtcttctctcacagaagtgcctccgtgactcagatgccgcctgcactctta 66
           |||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||
Sbjct: 720 ggaattcgtgtcttctcttacagaagtgcctccgtgactcagatgccgcctgcactctta 661

                                                                       
Query: 67  cgcaccaccctttgtcctgttcagccaagtagaaattctccaggtacatgaacttagttg 126
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 660 cgcaccaccctttgtcctgttcagccaagtagaaattctccaggtacatgaacttagttg 601

                                                                       
Query: 127 ttctctttatctaggacatagggcaaaagtcctagagaaggctcttccacatgggacttg 186
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 600 ttctctttatctaggacatagggcaaaagtcctagagaaggctcttccacatgggacttg 541

                                                                       
Query: 187 gaatggtttagtcatgctcatgcgtgtggagtgtgactcacacctgtctacactaagtcc 246
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 540 gaatggtttagtcatgctcatgcgtgtggagtgtgactcacacctgtctacactaagtcc 481

                                                                       
Query: 247 ttgaccccgggtgacactgaactacagtctttgctatatgtacagggactcacatgcatg 306
           |||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||
Sbjct: 480 ttgaccccgggtgacactgaactacagtctttgctaaatgtacagggactcacatgcatg 421

                                                                       
Query: 307 agttaaaaaataaaactctgcttgctgtgatatctgggtccagagaagatatgtgttaca 366
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 420 agttaaaaaataaaactctgcttgctgtgatatctgggtccagagaagatatgtgttaca 361

                                                                       
Query: 367 tcttcacctaaagacttctgcagcaagagtaaatgcatagctctcttccaatatgcatct 426
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 360 tcttcacctaaagacttctgcagcaagagtaaatgcatagctctcttccaatatgcatct 301

                                                                       
Query: 427 gacccaaagcttcccgattcccctaacatcagttttcatgtgacaagctgtggccaacag 486
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 300 gacccaaagcttcccgattcccctaacatcagttttcatgtgacaagctgtggccaacag 241

                                             
Query: 487 actgtgagctaagtgtcttgtatgtgccaaggca 520
           ||||||||||||||||||||||||||||||||||
Sbjct: 240 actgtgagctaagtgtcttgtatgtgccaaggca 207


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: 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: 520
Length of database: 920
Length adjustment: 10
Effective length of query: 510
Effective length of database: 910
Effective search space:   464100
Effective search space used:   464100
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)
Query= MSMg01no418_g19.g1 MSMg01no418_g19.g1 CHROMAT_FILE:
MSMg01no418_g19.g1 PHD_FILE: MSMg01no418_g19.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:37:37 2005
         (415 letters)



>mm_chr9_111977696_111978510
          Length = 815

 Score =  748 bits (387), Expect = 0.0
 Identities = 408/415 (98%)
 Strand = Plus / Plus

                                                                       
Query: 1   cattttaaatggaagaggctgtcatattattgaagtaattctctgaactttcctggccca 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 201 cattttaaatggaagaggctgtcatattattgaagtaattctctgaactttcctggccca 260

                                                                       
Query: 61  gagtgctatgctgacagccagagatctcccacaatcctgagggaggaaggctgcccgcaa 120
           ||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||
Sbjct: 261 gagtgctatgctgacagccagagatctcccacaatccagagggaggaaggctgcccgcaa 320

                                                                       
Query: 121 gactcaccaacattttacttccttaatgagggtagggcctcagagggaaagagagctttc 180
           |||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||
Sbjct: 321 gactcaccaacattttactttcttaatgagggtagggcctcagagggaaagagagctttc 380

                                                                       
Query: 181 gtgtgcctcagctggcctgttaatggtgatgctgtgcattcacctggctggtggcagaac 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 381 gtgtgcctcagctggcctgttaatggtgatgctgtgcattcacctggctggtggcagaac 440

                                                                       
Query: 241 actgagccttatagaaggctttccccaaaacacgctggggggaaggggccagagtcaaga 300
           ||||||||  | |||||||||||||||||||||||||||||| |||||||||||||||||
Sbjct: 441 actgagccagacagaaggctttccccaaaacacgctggggggcaggggccagagtcaaga 500

                                                                       
Query: 301 gaaagatggagaaggctatgataactggccccttggtacctatttctaccgacttaattc 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 501 gaaagatggagaaggctatgataactggccccttggtacctatttctaccgacttaattc 560

                                                                  
Query: 361 ttttcacctggaggccacaggccagaagatcagcaccactgacctgcatgtctac 415
           ||||||||||||||||||||||||| |||||||||||||||||||||||||||||
Sbjct: 561 ttttcacctggaggccacaggccaggagatcagcaccactgacctgcatgtctac 615


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: 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: 415
Length of database: 815
Length adjustment: 9
Effective length of query: 406
Effective length of database: 806
Effective search space:   327236
Effective search space used:   327236
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)