BAC Information

Click to search

BAC

Clone NameMSMg01-188A15
Chromosome9 (Build37)
Map Location 28,897,799 - 28,910,904
singlet/doubletdoublet
Overlap geneHnt
Upstream geneOpcml, LOC625222
Downstream genenone
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-188A15.T7 (MSMg01no188_a15.b1)MSMg01-188A15.TJ (MSMg01no188_a15.g1)
ACCAG379185AG379186
length753737
length of high quality
(start - end)		661 (60 - 720)285 (75 - 359)
definitionCHROMAT_FILE: MSMg01no188_a15.b1 PHD_FILE: MSMg01no188_a15.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:03:33 2005CHROMAT_FILE: MSMg01no188_a15.g1 PHD_FILE: MSMg01no188_a15.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 20:03:33 2005
singlet/doubletdoubletdoublet
BLAST hituniqueunique
Map location.(28,910,247 - 28,910,904)(28,897,799 - 28,898,081)
sequence
CCCGCNCCNCTTGTCTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXCGCGGAATTCATTTCTATGAAAGTTTGGATGAGAGGTCTGA
GAGAGTTGGGCATTGAAAACAGATCCAGCTGGAGAGAAGTTGTCACTTCC
TTGTTAGTGGCTGGGTCATGCTGGGCAGTGGTCACGAAATCTGAAGCCTC
ACTTCTTTCTTGCATTAATTCCTGCTTCTTGCAATGGTACCTAGACTTTT
CATGACCTCACTCCTCTCCAATACCATATACAGCATTGTCAAAGCAACAG
CTCAGACAAGCCAACACATGCAGGAAGACCTCACTGTGACCCATGCCCTC
TTCTCTACTTAGATCACTCTTTTACTCAAGAATTGTATTCTTGCTTCAAG
ACCAAGATACCAAGTTGTAAGCCTCTGATGATATTCCTTAGCCACAGCAA
GTCACTCATTTCTCTGGGATCCAAGAGCACTTTCACACATTTCCAATCAG
GGACAATGGCTTTTTTTTCTAGTCACCCACAGAGATCTGATATTCTCAAG
TTACCTAAGAGATCCAGGATCTAAGAACAGTCCTTACTGAAGCCATTTTG
CTTCATCTTCAAGGGCTGCTGCAGGAGCACTGCAAGGGATAGTGGCAGGA
GAGAGTAGATAATGCTGGGGAGATGGCCCTATCAGCCCTCATATTTCTTT
GCATCCACCGAGAGTTTCTGTCTGGTATGGTTGTACATGTGTTCAATCCA
AGA

CGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXATTCATGTTTTTCCTTTCCTTGCAAT
GAGCTCAGACACAGGTTCTTAAGCAACCTGTGCTGCCACTCCTCTGAAGA
TCTCTGCCTTGCTCAAAGTAGCACAGCATGGGAAAACAACCGGGTTGGAA
GACAGACAGAAGAAAGCCTCTCCTGCTTTAAGGCAGTGGGCAAAGGCTGA
AACTTGAATGGTGGGGCTTAGGAATTAAATAAGGGGAACCGAAAAGGACA
AATGGCTGTTGGAATAGCATGCTGATACCTCCCATTTATTCTTTCTCTTT
TTGATAGTAGTGATTGGCGCCCGACTCGAATCAGAGCATCTTGAGTCACA
CTCTGACTCAAGAGACATTCATGATATCAGATCTTTAGGGGTTCCTTCAT
GGAAAGTCCAGAGACTCAGACTTGCAAGACTCTGAGGCCTCTATAGACCT
TCATGAGGCTCTTACTCTACCTAGGACTCCAATAAGAGGTAAGCAATTAT
TTAGGATTAGAACTTTTTTGAAGATAGTAGCTATATACTTGATAGACACA
GAGGAACTTTCCCAGTGCTGTGTGTGAGTGGCCTGTGATCCTGTAAATAA
TCCCAATAAACTCATTGATTCAAAAAACTGGACTTGGGTGAAATATTTTC
TTCAATTCAACAGCGCCCTGCTTATCTAGGACGCATN
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no188_a15.b1 MSMg01no188_a15.b1 CHROMAT_FILE:
MSMg01no188_a15.b1 PHD_FILE: MSMg01no188_a15.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 20:03:33 2005
         (661 letters)



>mm_chr9_28910044_28911104
          Length = 1061

 Score = 1249 bits (646), Expect = 0.0
 Identities = 655/658 (99%)
 Strand = Plus / Minus

                                                                       
Query: 4   ggaattcatttctatgaaagtttggatgagaggtctgagagagttgggcattgaaaacag 63
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| 
Sbjct: 861 ggaattcatttctatgaaagtttggatgagaggtctgagagagttgggcattgaaaacat 802

                                                                       
Query: 64  atccagctggagagaagttgtcacttccttgttagtggctgggtcatgctgggcagtggt 123
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 801 atccagctggagagaagttgtcacttccttgttagtggctgggtcatgctgggcagtggt 742

                                                                       
Query: 124 cacgaaatctgaagcctcacttctttcttgcattaattcctgcttcttgcaatggtacct 183
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 741 cacgaaatctgaagcctcacttctttcttgcattaattcctgcttcttgcaatggtacct 682

                                                                       
Query: 184 agacttttcatgacctcactcctctccaataccatatacagcattgtcaaagcaacagct 243
           |||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||
Sbjct: 681 agacttttcatgacctcactactctccaataccatatacagcattgtcaaagcaacagct 622

                                                                       
Query: 244 cagacaagccaacacatgcaggaagacctcactgtgacccatgccctcttctctacttag 303
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 621 cagacaagccaacacatgcaggaagacctcactgtgacccatgccctcttctctacttag 562

                                                                       
Query: 304 atcactcttttactcaagaattgtattcttgcttcaagaccaagataccaagttgtaagc 363
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 561 atcactcttttactcaagaattgtattcttgcttcaagaccaagataccaagttgtaagc 502

                                                                       
Query: 364 ctctgatgatattccttagccacagcaagtcactcatttctctgggatccaagagcactt 423
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 501 ctctgatgatattccttagccacagcaagtcactcatttctctgggatccaagagcactt 442

                                                                       
Query: 424 tcacacatttccaatcagggacaatggcttttttttctagtcacccacagagatctgata 483
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 441 tcacacatttccaatcagggacaatggcttttttttctagtcacccacagagatctgata 382

                                                                       
Query: 484 ttctcaagttacctaagagatccaggatctaagaacagtccttactgaagccattttgct 543
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 381 ttctcaagttacctaagagatccaggatctaagaacagtccttactgaagccattttgct 322

                                                                       
Query: 544 tcatcttcaagggctgctgcaggagcactgcaagggatagtggcaggagagagtagataa 603
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 321 tcatcttcaagggctgctgcaggagcactgcaagggatagtggcaggagagagtagataa 262

                                                                     
Query: 604 tgctggggagatggccctatcagccctcatatttctttgcatccaccgagagtttctg 661
           |||||||||||||| |||||||||||||||||||||||||||||||||||||||||||
Sbjct: 261 tgctggggagatggtcctatcagccctcatatttctttgcatccaccgagagtttctg 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: 37
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: 661
Length of database: 1061
Length adjustment: 10
Effective length of query: 651
Effective length of database: 1051
Effective search space:   684201
Effective search space used:   684201
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= MSMg01no188_a15.g1 MSMg01no188_a15.g1 CHROMAT_FILE:
MSMg01no188_a15.g1 PHD_FILE: MSMg01no188_a15.g1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 20:03:33 2005
         (285 letters)



>mm_chr9_28897599_28898283
          Length = 685

 Score =  516 bits (267), Expect = e-151
 Identities = 279/283 (98%)
 Strand = Plus / Plus

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

                                                                       
Query: 61  gccactcctctgaagatctctgccttgctcaaagtagcacagcatgggaaaacaaccggg 120
           |||||||||||| ||||| |||||||||||||||||||||||||||||||||||||||||
Sbjct: 261 gccactcctctgtagatcactgccttgctcaaagtagcacagcatgggaaaacaaccggg 320

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

                                                                       
Query: 181 tgaatggtggggcttaggaattaaataaggggaaccgaaaaggacaaatggctgttggaa 240
           |||||||||||| ||||||||||||||||||||||| |||||||||||||||||||||||
Sbjct: 381 tgaatggtgggggttaggaattaaataaggggaaccaaaaaggacaaatggctgttggaa 440

                                                      
Query: 241 tagcatgctgatacctcccatttattctttctctttttgatag 283
           |||||||||||||||||||||||||||||||||||||||||||
Sbjct: 441 tagcatgctgatacctcccatttattctttctctttttgatag 483


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: 13
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: 285
Length of database: 685
Length adjustment: 9
Effective length of query: 276
Effective length of database: 676
Effective search space:   186576
Effective search space used:   186576
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)


| Home | SequenceCutter | Blast | Download |