BAC Information

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BAC

Clone NameMSMg01-218C09
Chromosome5 (Build37)
Map Location 13,157,569 - 13,277,405
singlet/doubletdoublet
Overlap genenone
Upstream geneLOC100041626, EG668059, Sema3d, LOC668015, LOC100042917, LOC668069, LOC433845, LOC625989, LOC670717
Downstream geneSema3a, LOC208055, LOC626053, Speer3, EG626067, LOC668085, LOC384149, LOC384148, Sema3e, LOC100042957
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-218C09.T7 (MSMg01no218_c09.b1)MSMg01-218C09.TJ (MSMg01no218_c09.g1)
ACCAG397425AG397426
length762763
length of high quality
(start - end)
320 (45 - 364)248 (71 - 318)
definitionCHROMAT_FILE: MSMg01no218_c09.b1 PHD_FILE: MSMg01no218_c09.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:46:04 2005CHROMAT_FILE: MSMg01no218_c09.g1 PHD_FILE: MSMg01no218_c09.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:46:05 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(13,277,090 - 13,277,405)(13,157,569 - 13,157,808)
sequence
AATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGA
ATTCCATGACTTAATACTGACAAAATAACTGTGGGGAACAATTATCTTCC
TCAACACTATTGGTATAAAGCATGTCAAATGTATTCAAGGGGACATTCAA
TTTGAAGAATGATAAAGCTTATTTTGATGATTTAATGTAAAGAGGAAATC
AGATTAGTCACATTTACAGGCATTATAAGCATTTGCTATTTTCTTTTAAG
TAGTGAAAAGCAGAAAAAGAGGATTCATTTGAATGTGACCATATTGGGAA
GGGGGGCAAAGAGATCCTGAGACAATCCATGTCTGTCTTCATGAATCCTG
GCATGAGAAAGTGTTTATAATTTCCAAAGCGATCCGCATAACTGTGCATT
GCAGCAAAGCATGGACACCTGCCCACCATGAATAGAAAATCTAGTCTTTC
CTACAAGATCAGTATCTCCTGCAACTTCATCTTTATAAAGGAGCTTTCAT
TTCATGAGTATCACTAGGCCAGACTAGCACCATAGTTCTAAGAACTGGCG
AAGTCCTCAATGCCTAGATGAGATTCTTTACGTCACATTCCACTTACTGT
ATAACCTCTGGATATGACAAAGACATGGATATTTATGCTTTGAGATATTA
AGAGAGAAAATACTATATTGTTAGCCAGGCTCTCATAAAGATTATGACCT
ATTGTAATTAACCTCCCAAATTACTGCATATTTACAAATGCTTCTCAATG
CTCTCCAATATT
GACXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXCACCCTAATGCTATTTTGATTAGTTGAATA
GAGTTAGATTGGATATTTTACCCTGAATTTATCACTTCTTGAACTGTCAT
GGTTTATTTGGGTCCCACATGCTTACACAAGTTTAAAGAAAACATATCAA
AGTACCTTTATTGTTTTATTATGTCTTAGGCTTCCCTATGCAAGAACTAT
CAACCATATATGCATATGTGCTTTCAATTTTGTATCTAGAGTTAGTTATA
ACTGAAGGCAATGAAGACAGCTTATTTGAAAAAAAAACCCAGATCTTTCC
AAGTATTTGTGCATTAAATCTANATCTTNACCCTAGAATATTACTTAACA
AGAGTGTGCTTCGCCCACAGAGCAACAAAACAAAGATGATAAGGTTGAGG
TCGTTATTCCTTGTCCTCTGCTGATTGCCACTACTGGTGGAGCCCAGCAT
GATAGTCAGAGGAAGTCCTTGAACATTTTGCTCTGTTTGAATGCTTAAAC
ATATTGAACGTGAGAATGCAATTTGGAGATATAAATGTCTGATACATTAG
GCAGCTGCAGACTGCTCACGCATAACATTTATCAACATATTTAATCTACA
ACTCATTTCTCATCTTGTGTATAGAGCATCGTGCCTATTATATAGCATTT
ACAACAAACTATACTTGCAGCACTTCACATTTTCCTTAAATAACCCAAAT
TTTTTATATCCCA
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no218_c09.b1 MSMg01no218_c09.b1 CHROMAT_FILE:
MSMg01no218_c09.b1 PHD_FILE: MSMg01no218_c09.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 20:46:04 2005
         (320 letters)



>mm_chr5_13276886_13277605
          Length = 720

 Score =  588 bits (304), Expect = e-172
 Identities = 313/316 (99%)
 Strand = Plus / Minus

                                                                       
Query: 5   gaattccatgacttaatactgacaaaataactgtggggaacaattatcttcctcaacact 64
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 520 gaattccatgacttaatactgacaaaataactgtggggaacaattatcttcctcaacact 461

                                                                       
Query: 65  attggtataaagcatgtcaaatgtattcaaggggacattcaatttgaagaatgataaagc 124
           ||||  ||||||||||||||||||||||||||||| ||||||||||||||||||||||||
Sbjct: 460 attgccataaagcatgtcaaatgtattcaaggggatattcaatttgaagaatgataaagc 401

                                                                       
Query: 125 ttattttgatgatttaatgtaaagaggaaatcagattagtcacatttacaggcattataa 184
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 400 ttattttgatgatttaatgtaaagaggaaatcagattagtcacatttacaggcattataa 341

                                                                       
Query: 185 gcatttgctattttcttttaagtagtgaaaagcagaaaaagaggattcatttgaatgtga 244
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 340 gcatttgctattttcttttaagtagtgaaaagcagaaaaagaggattcatttgaatgtga 281

                                                                       
Query: 245 ccatattgggaaggggggcaaagagatcctgagacaatccatgtctgtcttcatgaatcc 304
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 280 ccatattgggaaggggggcaaagagatcctgagacaatccatgtctgtcttcatgaatcc 221

                           
Query: 305 tggcatgagaaagtgt 320
           ||||||||||||||||
Sbjct: 220 tggcatgagaaagtgt 205


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: 15
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: 320
Length of database: 720
Length adjustment: 9
Effective length of query: 311
Effective length of database: 711
Effective search space:   221121
Effective search space used:   221121
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= MSMg01no218_c09.g1 MSMg01no218_c09.g1 CHROMAT_FILE:
MSMg01no218_c09.g1 PHD_FILE: MSMg01no218_c09.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 20:46:05 2005
         (248 letters)



>mm_chr5_13157369_13158016
          Length = 648

 Score =  418 bits (216), Expect = e-121
 Identities = 234/240 (97%)
 Strand = Plus / Plus

                                                                       
Query: 1   caccctaatgctattttgattagttgaatagagttagattggatattttaccctgaattt 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||   |||||||
Sbjct: 201 caccctaatgctattttgattagttgaatagagttagattggatattttaaagtgaattt 260

                                                                       
Query: 61  atcacttcttgaactgtcatggtttatttgggtcccacatgcttacacaagtttaaagaa 120
           ||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||
Sbjct: 261 atcacttcttgaactgtcatggtttattttggtcccacatgcttacacaagtttaaagaa 320

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

                                                                       
Query: 181 caaccatatatgcatatgtgctttcaattttgtatctagagttagttataactgaaggca 240
           ||||||||||||||||||||||||||||| || |||||||||||||||||||||||||||
Sbjct: 381 caaccatatatgcatatgtgctttcaattctgcatctagagttagttataactgaaggca 440


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: 11
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: 248
Length of database: 648
Length adjustment: 9
Effective length of query: 239
Effective length of database: 639
Effective search space:   152721
Effective search space used:   152721
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)