BAC Information

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BAC

Clone NameMSMg01-116B11
Chromosome17 (Build37)
Map Location 4,074,185 - 4,202,229
singlet/doubletdoublet
Overlap gene4930470H14Rik
Upstream geneD030013I16Rik, LOC100040128, 1700024P12Rik, LOC435499, LOC224487, Rbm16, LOC665812, LOC621579, LOC624144, Tiam2, LOC630810, Tfb1m, Cldn20, 1700102H20Rik, Nox3
Downstream genePpia-ps17_26.1, Arid1b
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-116B11.T7 (MSMg01no116_b11.b1)MSMg01-116B11.TJ (MSMg01no116_b11.g1)
ACCAG327558AG327559
length708714
length of high quality
(start - end)		621 (50 - 670)571 (79 - 649)
definitionCHROMAT_FILE: MSMg01no116_b11.b1 PHD_FILE: MSMg01no116_b11.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 18:22:14 2005CHROMAT_FILE: MSMg01no116_b11.g1 PHD_FILE: MSMg01no116_b11.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 18:22:14 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(4,201,697 - 4,202,229)(4,074,185 - 4,074,754)
sequence
CCCAAAATCATXXXXXXXXXXXXXXXXXXXXXXXCTATTTCAAGAGGATC
CGCGGAATTCTGTGGTTACCACCACAGCCTGGGGGATGAATCTGTGTGAT
GTATGACTTCTGCACTCAGGAGCCAAGGACTGGTCACACCTTCACACTTG
GAATGACTGTTTAGCTAACTGGATTTCACTTCGTCAAAGATGCTGATACT
CACCAATGTTCCTTCCTATGCCTATCCCTGGTACCAGGCAGGGGTCTAAA
TGAGTCACAGTGTTAGAAAAGTCAAGATGGATTTTAGCTTTGAGTAGTAA
TACAGACATTACAGTAGAAATGGCATAACTGATTTACATAATCCTTCCAT
CCAGTCTTCACATTGTTCTTGCTTGGGCTTTGTTTTTATTTATTTTTCAT
ATATTTTTTAACTCACACTTTTTCTTCCTTGCTCTCCCATCCTCTCTTAA
GCTATATCTACTCAGATTAGTAAATAGCGCCTTATGTTATGTGCTTACCC
TGGGCTGAAAGCTTAATGCCCCTGCTACACTGCTGACGGGACACATGACC
TTGGAAACCACACCCCAACTTGTTTGACGTCTGGTGGAGGGTAGATAGCT
CAGTCTCCCTGTTTACAAATCCTCTTTGATCGGACCAATTTGGACATCAG
AGCTGATAGGAGCTTGGGACCCAAAAAGCCAAGGAAGCTATGTTTCTGGT
CTCTACAG

NNCCCTCGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXXTCTTTGTTCCCTTGGGTTTATA
AAGAAGGAAAGAAAAGGGATGGAAACTATCTTCTTGTTTTAGTGACATTC
CAAAGAAAAGCATCTATGGAGCCATGCCTGAGGGCCTCTCCTGGGAACCT
CAGTATGGGTGTGTAATTCGTGCAACAGGCTAGAGTCATGGTTATTCTTG
GTGCCATCTTACCATAGCATTATACTGGCTTGTGTTGCAGTTAGCAGTGA
GTTAGCTTTCTGTGACATGACATAGAATTATGCATCAACATTAAATTGTA
TGTTAAACATAAATTCCTTGGAGTTTTAAAGGACTAAAGTAAAGCTCGAA
GATTCTTAGTGAAAGAAAGTTGTTCATTTATGTATATTTTAGATTTGGGG
TTATTTTCATTTAAGTATACTCTGAAATCACAAGACAGTCTATTTAAGGA
ACAAAATAGGTTACCACCTACAAGTTCTAATTAATTAATGCAAATGACAA
TCATCTCTTATGCTGTACAACTAAAAATTGCACCAAATAAACAGGAAACA
AGATGCAACTCATTTATAAATAAAGGACGTAAAGCATGATTTTGTATTAT
AAATATGTACATATAAAGGTATATGCCTATTGACATTCCTAATCAGTTTC
AAATTTTAGATTTC
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no116_b11.b1 MSMg01no116_b11.b1 CHROMAT_FILE:
MSMg01no116_b11.b1 PHD_FILE: MSMg01no116_b11.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 18:22:14 2005
         (621 letters)



>mm_chr17_4201697_4202717
          Length = 1021

 Score =  940 bits (486), Expect = 0.0
 Identities = 522/534 (97%), Gaps = 2/534 (0%)
 Strand = Plus / Minus

                                                                       
Query: 5   ggaattctgtggtta-ccaccacagcctgggggatgaatctgtgtgatgtatgacttctg 63
           ||||||||||||  | ||||||||||||||||||||||| ||||||||||||||||||||
Sbjct: 533 ggaattctgtggggacccaccacagcctgggggatgaatttgtgtgatgtatgacttctg 474

                                                                       
Query: 64  cactcaggagccaaggactggtcacaccttcacacttggaatgactgtttagctaactgg 123
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 473 cactcaggagccaaggactggtcacaccttcacacttggaatgactgtttagctaactgg 414

                                                                       
Query: 124 atttcacttcgtcaaagatgctgatactcaccaatgttccttcctatgcctatccctggt 183
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 413 atttcacttcgtcaaagatgctgatactcaccaatgttccttcctatgcctatccctggt 354

                                                                       
Query: 184 accaggcaggggtctaaatgagtcacagtgttagaaaagtcaagatggattttagctttg 243
           ||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 353 accagacaggggtctaaatgagtcacagtgttagaaaagtcaagatggattttagctttg 294

                                                                       
Query: 244 agtagtaatacagacattacagtagaaatggcataactgatttacataatccttccatcc 303
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 293 agtagtaatacagacattacagtagaaatggcataactgatttacataatccttccatcc 234

                                                                       
Query: 304 agtcttcacattgttcttgcttgggctttgtttttatttatttttcatatattttttaac 363
           |||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||
Sbjct: 233 agtcttcacattgttctt-cttgggctttgtttttatttatttttcatatattttttaac 175

                                                                       
Query: 364 tcacactttttcttccttgctctcccatcctctcttaagctatatctactcagattagta 423
           |||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 174 tcactctttttcttccttgctctcccatcctctcttaagctatatctactcagattagta 115

                                                                       
Query: 424 aatagcgccttatgttatgtgcttaccctgggctgaaagcttaatgcccctgctacactg 483
           |||||| | |||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 114 aatagcactttatgttatgtgcttaccctgggctgaaagcttaatgcccctgctacactg 55

                                                                 
Query: 484 ctgacgggacacatgaccttggaaaccacaccccaacttgtttgacgtctggtg 537
           || |||| |||||||||||||||||||||| |||||||||||||||||||||||
Sbjct: 54  ctaacggaacacatgaccttggaaaccacatcccaacttgtttgacgtctggtg 1


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: 21
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: 621
Length of database: 1021
Length adjustment: 10
Effective length of query: 611
Effective length of database: 1011
Effective search space:   617721
Effective search space used:   617721
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= MSMg01no116_b11.g1 MSMg01no116_b11.g1 CHROMAT_FILE:
MSMg01no116_b11.g1 PHD_FILE: MSMg01no116_b11.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 18:22:14 2005
         (571 letters)



>mm_chr17_4073985_4074954
          Length = 970

 Score = 1073 bits (555), Expect = 0.0
 Identities = 567/571 (99%), Gaps = 1/571 (0%)
 Strand = Plus / Plus

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

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

                                                                       
Query: 121 ctcagtatgggtgtgtaattcgtgcaacaggctagagtcatggttattcttggtgccatc 180
           ||||||||||||||||||||| ||||||||||||||||||||||||||| ||||||||||
Sbjct: 321 ctcagtatgggtgtgtaattcctgcaacaggctagagtcatggttattcatggtgccatc 380

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

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

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

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

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

                                                                       
Query: 481 tatgctgtacaactaaaaattgcaccaaataaacaggaaacaagatgcaactcatttata 540
           ||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||
Sbjct: 681 tatgctgtacaactaaaaattgcac-aaataaacaggaaacaagatgcaactcatttata 739

                                          
Query: 541 aataaaggacgtaaagcatgattttgtatta 571
           ||||||||| |||||||||||||||||||||
Sbjct: 740 aataaaggaagtaaagcatgattttgtatta 770


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: 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: 571
Length of database: 970
Length adjustment: 10
Effective length of query: 561
Effective length of database: 960
Effective search space:   538560
Effective search space used:   538560
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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