BAC Information

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BAC

Clone NameMSMg01-535A06
Chromosome14 (Build37)
Map Location 94,133,506 - 94,165,140
singlet/doubletdoublet
Overlap genePcdh9
Upstream geneLOC668566
Downstream geneLOC100043356
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-535A06.T7 (MSMg01no535_a06.b1)MSMg01-535A06.TJ (MSMg01no535_a06.g1)
ACCAG602565AG602566
length770773
length of high quality
(start - end)		727 (44 - 770)580 (73 - 652)
definitionCHROMAT_FILE: MSMg01no535_a06.b1 PHD_FILE: MSMg01no535_a06.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 21:12:43 2005CHROMAT_FILE: MSMg01no535_a06.g1 PHD_FILE: MSMg01no535_a06.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 21:12:43 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(94,164,661 - 94,165,140)(94,133,506 - 94,134,085)
sequence
AXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGGAA
TTCATCTAATCTTACCATATGGCTTCTGATATACTCTTCTGATGTTTTCT
TTGAGGTAATTTACTATATCATTTGTGTCAGGTTTTTTTTTTTTCTTTAA
GAGAATGGTTGGTCCACTGTGTATTTCCTTATAAACTTTTTTTTTCTTGC
TTTAAAAAAATTGTTTTATTTATTTACACTCCAAATGTTGTCCCTTTTCC
TGGTGCCCCCTCCAAGAGTTCTTCACTTCATCCACCATCCCCTTGGCCTC
TGAAAGCTTGCTCTTCACCCAATCCCCTAACCTACTTACTCCCTCCTCCA
TTCCCCCACCCTCAACTCAACCCCCCTGCATCAAATCTTTACAGGATTAA
AGACACCCTCTCCCATTGAGGCCAGACAAGGCAGTCCTCTGCTACATACC
TGCCAGGGCCCAGGTATCCACTTTGGTAGGTAGCTTAGTCTAAGATAAAT
ATGTTTTAATTATACTTCTATGTTTCCCTAAATAATCAATAAAATGTTAG
GACTACAATGGTTTTAAATACCATTCTCTTGGTTGTTCATATTATTCCAA
ATGTATTTAAATGTTCAGAGTTTTTGTTGCTGTTGTTGATTGTTGGTATG
TAGTCACCATGAATTCTATGAAATGTAAACAAATGTTAAACTTAAAAAAT
TTTGAGCAGAAACAGGATTGGCATTGAATTCAATGCACATAGATCAATAG
AGTTGGGCAGTGCTTTCCAA

ATGCXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXACTTCCTTGAATTTGTCTTTTGGGCAGA
ATCCAAAAGCAAAGGGACTAAAATAAGGAAATCAATTCCTGCAAAGGAGT
GTCTGCAAAGCCCAGCTAAATGAACTGATGTAATCTCAGTCCTGGACTCG
CAGGCAGTAACCGGGAGGGAATTCTCATTACTCTGAATCTGGAGGAGGGA
AGGGGAGATGGAGTGAAACACTCCAGCGGTTCCAGCTGGCGGAAGTCGAA
GATTACTGATAGGGCTTGGGCCGTAGGACTGCTCCCTTGATTCAGCTCGG
GTGATGTGTCTTACACTGCTTCGCTTGGCCCCGAGTGACAGGAAACCAAG
GTAGCACTATCAATCTTACTTGCCCCAAATAGATAGTGAAACACAGACAA
GAAATTGGAGAGATTAGATAGATTAAAATATGGAAAAACACAAACACATT
TAAGATTGTGCCCTCAATCCCAAATCCCTCAACACAGTACAGGAAATATT
CCAGTGTTTATCTGAATGAGCACAGGCATGCTACTGAGTCGTCTGACAAA
AGAAAAGCCTTCCTTGCAGTTCCTAAGAATGATCCGGCAGGAATTTGCAG
AGGATGGAGATTCCTTTCACAAAGTTAACCATCTTCGGTAATATAAAACG
CTAGCACATCTCCTGCCATTTCCCTGTATGGCCTGCCTACTGCTCATTGT
ATATTGTTAGCTCACATTTGCAG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no535_a06.b1 MSMg01no535_a06.b1 CHROMAT_FILE:
MSMg01no535_a06.b1 PHD_FILE: MSMg01no535_a06.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 21:12:43 2005
         (727 letters)



>mm_chr14_94164014_94165140
          Length = 1127

 Score =  928 bits (480), Expect = 0.0
 Identities = 480/480 (100%)
 Strand = Plus / Minus

                                                                        
Query: 247  cccttggcctctgaaagcttgctcttcacccaatcccctaacctacttactccctcctcc 306
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1127 cccttggcctctgaaagcttgctcttcacccaatcccctaacctacttactccctcctcc 1068

                                                                        
Query: 307  attcccccaccctcaactcaacccccctgcatcaaatctttacaggattaaagacaccct 366
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1067 attcccccaccctcaactcaacccccctgcatcaaatctttacaggattaaagacaccct 1008

                                                                        
Query: 367  ctcccattgaggccagacaaggcagtcctctgctacatacctgccagggcccaggtatcc 426
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1007 ctcccattgaggccagacaaggcagtcctctgctacatacctgccagggcccaggtatcc 948

                                                                        
Query: 427  actttggtaggtagcttagtctaagataaatatgttttaattatacttctatgtttccct 486
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 947  actttggtaggtagcttagtctaagataaatatgttttaattatacttctatgtttccct 888

                                                                        
Query: 487  aaataatcaataaaatgttaggactacaatggttttaaataccattctcttggttgttca 546
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 887  aaataatcaataaaatgttaggactacaatggttttaaataccattctcttggttgttca 828

                                                                        
Query: 547  tattattccaaatgtatttaaatgttcagagtttttgttgctgttgttgattgttggtat 606
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 827  tattattccaaatgtatttaaatgttcagagtttttgttgctgttgttgattgttggtat 768

                                                                        
Query: 607  gtagtcaccatgaattctatgaaatgtaaacaaatgttaaacttaaaaaattttgagcag 666
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 767  gtagtcaccatgaattctatgaaatgtaaacaaatgttaaacttaaaaaattttgagcag 708

                                                                        
Query: 667  aaacaggattggcattgaattcaatgcacatagatcaatagagttgggcagtgctttcca 726
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 707  aaacaggattggcattgaattcaatgcacatagatcaatagagttgggcagtgctttcca 648


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: 26
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: 727
Length of database: 1127
Length adjustment: 10
Effective length of query: 717
Effective length of database: 1117
Effective search space:   800889
Effective search space used:   800889
X1: 9 (17.8 bits)
X2: 517 (999.5 bits)
X3: 517 (999.5 bits)
S1: 9 (18.3 bits)
S2: 9 (18.1 bits)

Query= MSMg01no535_a06.g1 MSMg01no535_a06.g1 CHROMAT_FILE:
MSMg01no535_a06.g1 PHD_FILE: MSMg01no535_a06.g1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 21:12:43 2005
         (580 letters)



>mm_chr14_94133306_94134285
          Length = 980

 Score = 1122 bits (580), Expect = 0.0
 Identities = 580/580 (100%)
 Strand = Plus / Plus

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

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

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

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

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

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

                                                                       
Query: 361 atagtgaaacacagacaagaaattggagagattagatagattaaaatatggaaaaacaca 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 561 atagtgaaacacagacaagaaattggagagattagatagattaaaatatggaaaaacaca 620

                                                                       
Query: 421 aacacatttaagattgtgccctcaatcccaaatccctcaacacagtacaggaaatattcc 480
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 621 aacacatttaagattgtgccctcaatcccaaatccctcaacacagtacaggaaatattcc 680

                                                                       
Query: 481 agtgtttatctgaatgagcacaggcatgctactgagtcgtctgacaaaagaaaagccttc 540
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 681 agtgtttatctgaatgagcacaggcatgctactgagtcgtctgacaaaagaaaagccttc 740

                                                   
Query: 541 cttgcagttcctaagaatgatccggcaggaatttgcagag 580
           ||||||||||||||||||||||||||||||||||||||||
Sbjct: 741 cttgcagttcctaagaatgatccggcaggaatttgcagag 780


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: 29
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: 580
Length of database: 980
Length adjustment: 10
Effective length of query: 570
Effective length of database: 970
Effective search space:   552900
Effective search space used:   552900
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)


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