BAC Information

Click to search

BAC

Clone NameMSMg01-096I06
Chromosome14 (Build37)
Map Location 94,114,975 - 94,269,652
singlet/doubletdoublet
Overlap genePcdh9
Upstream geneLOC668566
Downstream geneLOC100043356, LOC100043783
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-096I06.T7 (MSMg01no096_i06.b1)MSMg01-096I06.TJ (MSMg01no096_i06.g1)
ACCAG313174AG313175
length726738
length of high quality
(start - end)
224 (39 - 262)315 (69 - 383)
definitionCHROMAT_FILE: MSMg01no096_i06.b1 PHD_FILE: MSMg01no096_i06.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:52:53 2005CHROMAT_FILE: MSMg01no096_i06.g1 PHD_FILE: MSMg01no096_i06.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 17:52:53 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(94,269,434 - 94,269,652)(94,114,975 - 94,115,289)
sequence
XXXXXXXXXXXXXXXXXXXXXXXXXXXXTCCCAAATCCGCGGAATTCCAG
GGCTCTTCCTCTGCTGACAGTGAGAGAGATGACTATTGACAAAGCTGCTA
TGATCATTCATCGCTCCTTCACCGTGTAGAGCAAACCAATAGCTTTATCT
TAATGACGTAATCTGCTTAATTTTGTTCCCATTCTAAACCTAATTGTTTC
TGTTCCACCCAAATCACAAATGACAAATTACAAAATGAAAGGATAGGGCT
AAGTGTACAGCTTAGTAGTAAGTGACTTATTGAGTATATACAAGGCCTTA
CATTTTATCCCAACAGATCCAAATACAATTAAAAATATAAAATCTTATCA
AACAGTTGGAATATGCAGTAATAACTAAAATATAATCAATTTAAAATAGA
AATGCAACTGTAATACCTTTTCTTATTATACTACGTTTATCATGATTTAC
CTATCTTTATACATGAAGATAAATTTAATATTTTAACAGATAATTTTAGT
ATATAGCATTGACATACAAATATATAACACATTATTAGTTTTGACTGATT
AGCTATAAGTACAGAGCCTAAGAGAACTAAATCAACTAACGCCAATTCAT
ATTATAGGCAGCACAGTTCATCCAAAATCATAGAATGAAAATACAGAATA
TTTAAAATTGTCAGCTGATTACTAAATAAAATCCATGTTTACAATTACAA
GACATATGGCCATGCACCAATATTTC
GTGAGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXAGCGGGAGTCACAGAGAAGGAAAATGTTATCTAGT
TGACCTTAAATGTTTGTCACAAGCTTTCCTGCATTTTCTCCTGAATCCCT
GGCTGAAACGATGTGTAGTGCACAATACACTGTAAAATAATGAAAATCCT
TGCAGGTAAAAAAGAAAACATTATTTTCTTCACTAGAGAATTGCTCTTTG
TAGATGGATTTCACATCCTAATTTTTGTTTCAAGAGGTACCCCATGATCT
GACAGTGTTTATCCTACAGTAATCCTTATATGAATCTAAGCAATTTGTTC
TTCTTTCTGTTTAATCTCCCACAGTCTTTAGCAGTGGGGAGAGAAAAACA
AAACAACAAAACAAAGCACACACTACTATTACGAATCAAGAACACCGACC
AACGACTATAAGACTGAATGAAAGAAAAGAACAGAAAGACCAGACCTCCA
ATTTTACCAGAATCAAAGTTAATGACCCTATCCATACAATCCCCATCATG
CTGGTACTTCACACATTGGCATTGCTAAGAGATAATCCCTTTCAGGTTGT
CCTCTACTGTGTGTCTATACAACCCCCTGAAGATAATGCTACTGACAAGC
TAATGGAAATTAAAAAAAACACAGGCATAGCGAAAAGAAATCAGCTTATA
GTAAAGTTATCACAAGTTCACTCTTCCTATAGTCATCG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no096_i06.b1 MSMg01no096_i06.b1 CHROMAT_FILE:
MSMg01no096_i06.b1 PHD_FILE: MSMg01no096_i06.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 17:52:53 2005
         (224 letters)



>mm_chr14_94269231_94269854
          Length = 624

 Score =  416 bits (215), Expect = e-121
 Identities = 218/219 (99%)
 Strand = Plus / Minus

                                                                       
Query: 4   gaattccagggctcttcctctgctgacagtgagagagatgactattgacaaagctgctat 63
           ||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 422 gaattccagggctctgcctctgctgacagtgagagagatgactattgacaaagctgctat 363

                                                                       
Query: 64  gatcattcatcgctccttcaccgtgtagagcaaaccaatagctttatcttaatgacgtaa 123
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 362 gatcattcatcgctccttcaccgtgtagagcaaaccaatagctttatcttaatgacgtaa 303

                                                                       
Query: 124 tctgcttaattttgttcccattctaaacctaattgtttctgttccacccaaatcacaaat 183
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 302 tctgcttaattttgttcccattctaaacctaattgtttctgttccacccaaatcacaaat 243

                                                  
Query: 184 gacaaattacaaaatgaaaggatagggctaagtgtacag 222
           |||||||||||||||||||||||||||||||||||||||
Sbjct: 242 gacaaattacaaaatgaaaggatagggctaagtgtacag 204


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: 9
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: 224
Length of database: 624
Length adjustment: 9
Effective length of query: 215
Effective length of database: 615
Effective search space:   132225
Effective search space used:   132225
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)
Query= MSMg01no096_i06.g1 MSMg01no096_i06.g1 CHROMAT_FILE:
MSMg01no096_i06.g1 PHD_FILE: MSMg01no096_i06.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 17:52:53 2005
         (315 letters)



>mm_chr14_94114775_94115489
          Length = 715

 Score =  609 bits (315), Expect = e-179
 Identities = 315/315 (100%)
 Strand = Plus / Plus

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

                                                                       
Query: 61  ctgcattttctcctgaatccctggctgaaacgatgtgtagtgcacaatacactgtaaaat 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 261 ctgcattttctcctgaatccctggctgaaacgatgtgtagtgcacaatacactgtaaaat 320

                                                                       
Query: 121 aatgaaaatccttgcaggtaaaaaagaaaacattattttcttcactagagaattgctctt 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 321 aatgaaaatccttgcaggtaaaaaagaaaacattattttcttcactagagaattgctctt 380

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

                                                                       
Query: 241 ttatcctacagtaatccttatatgaatctaagcaatttgttcttctttctgtttaatctc 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 441 ttatcctacagtaatccttatatgaatctaagcaatttgttcttctttctgtttaatctc 500

                          
Query: 301 ccacagtctttagca 315
           |||||||||||||||
Sbjct: 501 ccacagtctttagca 515


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: 18
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: 315
Length of database: 715
Length adjustment: 9
Effective length of query: 306
Effective length of database: 706
Effective search space:   216036
Effective search space used:   216036
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)