BAC Information

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BAC

Clone NameMSMg01-530D17
Chromosome5 (Build37)
Map Location 14,571,440 - 14,572,115
singlet/doubletsinglet
Overlap genePclo
Upstream geneSema3a, LOC208055, LOC626053, Speer3, EG626067, LOC668085, LOC384149, LOC384148, Sema3e, LOC100042957
Downstream geneENSMUSG00000033219, LOC624245, Speer8-ps1, Speer4c, Speer4d, 4930572O03Rik, Speer7-ps1, 4930519H02Rik, LOC100041781, Cacna2d1
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-530D17.T7 (MSMg01no530_d17.b1)MSMg01-530D17.TJ (MSMg01no530_d17.g1)
ACCAG598918AG598919
length761765
length of high quality
(start - end)		683 (49 - 731)499 (80 - 578)
definitionCHROMAT_FILE: MSMg01no530_d17.b1 PHD_FILE: MSMg01no530_d17.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 21:06:28 2005CHROMAT_FILE: MSMg01no530_d17.g1 PHD_FILE: MSMg01no530_d17.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 21:06:29 2005
singlet/doubletsinglet---
BLAST hituniqueno hit data
sequence
NNTTCTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCG
CGGAATTCTGGAGAGTTACGCTACACTTTGACTTAATAAGAACATCCTAG
GCTTATGATCTAGTCCTTTGAGGAACAGTGATTTCACTTCGAGTTATTGA
ACAACATAAATTAATCGGCTCAAATTTAATAATGTTTACAGCTTTGCACT
GACTTGAAAGCACAACATTTTCAAGGTCCCTATTCCAACACAGTTGATAT
TCTCATGAGACAGAGGGATTTTGTTTTTGAGAGATCAAATTTCAGTCAGA
TGCAGTTAAGAGACAAAATGAAATAATGACAAAACTGTTCTGAGAATTCA
ATACTAGATGCAAAGGTTACATTAAAATCCTTCCCTCTTTTGCAATCTAC
TAGAAAGAAATACACAAGGTTCAGTTTCATTACTTGATATCCTACTATTG
TTTATCATAAGAAATAAAATCTTTTTTTTTTTTCAACAGAGCATCTTGCC
TTTAGACTTGGCCATAAAACCAAGAAAGGCAGAGCTAGGAGTCCAGCATA
AGGCTTCATACAAGCTAGCCATGTTCTTGAACTGACAAAGACTCTCATTT
CACTTTCTAAATATGATCATTAATGTCCAAGGGAATAGATATTCCTGAGA
AAAAAAACCTTAACTGCCAGTTTCATATTCTGTGCAAGCAGTCATAGACA
GTTTCCTTTAGCCCCCAAATTCCATGTTTTTGTTTTGTATTTTCCATGTT
GTTATCAGAAA

NTTTCGATGCTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXTGCACTAAACCCATCTGGTCC
TGTTTGGGTTGGTTTTTTTTTTTTTTTTTTTTTTTTTGCCTTTCTTTCTT
TTTCTTTCTTTTATTTTTATTTTTTGGTTGGGAGAATTTTAATGATTGCT
TCTATTTCTTTAGGGGTTATGGAACTGTTTAGATGGTTTATCTGTCTACA
AAGTTGTCCATTTCATCTAGATTTTTCAGTTTTGATGAATATAGTCTTTT
GCAGTAGAATCTGATGATTTTTTAAAAAATTTCCTCAGTTTTTGTAGTTA
TAACATGCTTTTCGTTTCTGATTTTATTAATTTGGGTACTGCCTTTGTGC
CCTCTGGATAGTTTGGCTAAGGGTTATTCTATTTTGTAGATTTTTCTCAA
AAAACCAGCTCTTGCTTTTATTGATTCTTTGTATAGTTCTTTTTGTTTCT
ACTTGGGTTATTTCAGCCCTGAGTTTGATTATTTCTTGCTGTCTACTCCT
CTCGGGTGGATTTGCTTCTTTTTGTTCTAGAGCTTTCAGGTGTGCTGTTA
AACTGGTAGTGTATGATTTCTCCAGTTTCTTTTTGGAGGCCCTCAGAGCT
AAATTTTTCTCTTAACACTGTTTTAATTATACCCCATAAGTTTAGGTATG
TTGTGTCTCCATTTTCTTTAAATTCTAACAAAGGCTTTAAATTGGTTTCT
ATTTCTTCCTTGACC
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no530_d17.b1 MSMg01no530_d17.b1 CHROMAT_FILE:
MSMg01no530_d17.b1 PHD_FILE: MSMg01no530_d17.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 21:06:28 2005
         (683 letters)



>mm_chr5_14571236_14572315
          Length = 1080

 Score = 1168 bits (604), Expect = 0.0
 Identities = 660/680 (97%), Gaps = 5/680 (0%)
 Strand = Plus / Minus

                                                                       
Query: 5   gaattctggagag-ttacgctacactttgacttaataagaacatcctaggcttatgatct 63
           |||||||||||||  || ||||||||||||||||||||||||||||||||||||||||||
Sbjct: 880 gaattctggagagcataagctacactttgacttaataagaacatcctaggcttatgatct 821

                                                                       
Query: 64  agtcctttgaggaacagtgatttcacttcgagttattgaacaacataaattaatcggctc 123
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 820 agtcctttgaggaacagtgatttcacttcgagttattgaacaacataaattaatcggctc 761

                                                                       
Query: 124 aaatttaataatgtttacagctttgcactgacttgaaagcacaacattttcaaggtccct 183
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 760 aaatttaataatgtttacagctttgcactgacttgaaagcacaacattttcaaggtccct 701

                                                                       
Query: 184 attccaacacagttgatattctcatgagacagagggattttgtttttgagagatcaaatt 243
           ||||||||| ||||||||||||||||||||||||||||||||||||| ||||||||||||
Sbjct: 700 attccaacatagttgatattctcatgagacagagggattttgtttttaagagatcaaatt 641

                                                                       
Query: 244 tcagtcagatgcagttaagagacaaaatgaaataatgacaaaactgttctgagaattcaa 303
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 640 tcagtcagatgcagttaagagacaaaatgaaataatgacaaaactgttctgagaattcaa 581

                                                                       
Query: 304 tactagatgcaaaggttacattaaaatccttccctcttttgcaatctactagaaagaaat 363
           ||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||
Sbjct: 580 tactagatgcaaaggttacgttaaaatccttccctcttttgcaatctactagaaagaaat 521

                                                                       
Query: 364 acacaaggttcagtttcattacttgatatcctactattgtttatcataagaaataaaatc 423
           ||||||||||||||||||||||||||||||||| ||||||| ||||||||||||||||||
Sbjct: 520 acacaaggttcagtttcattacttgatatcctattattgttaatcataagaaataaaatc 461

                                                                       
Query: 424 ttttttttttttcaacagagcatcttgcctttagacttggccataaaaccaagaaaggca 483
           |||||||||   ||||||||||||||||||||||||||||||||||||| ||||||||||
Sbjct: 460 ttttttttt---caacagagcatcttgcctttagacttggccataaaactaagaaaggca 404

                                                                       
Query: 484 gagctaggagtccagcataaggcttcatacaagctagccatgttcttgaactgacaaaga 543
           |||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||
Sbjct: 403 gagctaggagtccagcataaggcttcatacaagctagccatgttctcgaactgacaaaga 344

                                                                       
Query: 544 ctctcatttcactttctaaatatgatcattaatgtccaagggaatagatattcctgagaa 603
           ||||||||||||||| |||||||||||||||| |||||||||| |||||| | |||||||
Sbjct: 343 ctctcatttcactttttaaatatgatcattaacgtccaagggactagataatgctgagaa 284

                                                                       
Query: 604 aaaaaaccttaactgccagtttcatattctgtgcaagcagtcatagacagtttcctttag 663
           ||||| ||| ||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 283 aaaaa-cctgaactgccagtttcatattctgtgcaagcagtcatagacagtttcctttag 225

                               
Query: 664 cccccaaattccatgttttt 683
           ||||||||||||||||||||
Sbjct: 224 cccccaaattccatgttttt 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: 30
Number of extensions: 3
Number of successful extensions: 3
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 683
Length of database: 1080
Length adjustment: 10
Effective length of query: 673
Effective length of database: 1070
Effective search space:   720110
Effective search space used:   720110
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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