BAC Information

Click to search

BAC

Clone NameMSMg01-388A03
Chromosome4 (Build37)
Map Location 99,984,203 - 99,984,700
singlet/doubletsinglet
Overlap geneRor1
Upstream geneLOC665212, LOC638890, LOC100042589, Foxd3, Alg6, Itgb3bp, BC020077, Pgm2
Downstream geneUbe2u, LOC277707, LOC621573, Cachd1, LOC100039747, Raver2, Jak1
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-388A03.T7 (MSMg01no388_a03.b1)MSMg01-388A03.TJ (MSMg01no388_a03.g1)
ACCAG490607AG490608
length723757
length of high quality
(start - end)
498 (65 - 562)500 (78 - 577)
definitionCHROMAT_FILE: MSMg01no388_a03.b1 PHD_FILE: MSMg01no388_a03.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:31:14 2005CHROMAT_FILE: MSMg01no388_a03.g1 PHD_FILE: MSMg01no388_a03.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 23:31:14 2005
singlet/doubletsinglet---
BLAST hituniqueno hit data
sequence
CXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGCGAA
TTCTTGGCATGTCTTTGACGTGAGTTTAATGGAAACAGACTCACAAATCC
TCCCTTTTCCATCATTTTATGAAAAAAGATTTATTATAAAACTCTTACTG
AGATTATTACAAATTGTCACTAAATCATCCCGTGCATTGTTCTCCTGTCG
AGTTTATAAAAGTCCGGAGGGCACTGCTTTGGGAATGTCTCTTCTTGTAA
GAGTTGACTTGGTTCTGGATAATAGGAGCAGTGTTTTTCAACCAAAGTCT
GAGCTGTCTGGGGAGAGAAAGAAAATATGCCAGAGCCGTCACTGGACTCT
GGAAGTCAGAGGGATGGGGTACTTAGCTTCACTATCCTGATGACATTCCG
TGCTGAAGGTGGGTCCCTCTAGACTGCTCCCTCAGCGTCAGCTCCTGGGG
CAGGCAGCCAACATCCTGAAGCAACTGCCATTTTCCTGGGGTGATTCATG
TGTGAAAGTGTCTCCCCCATAAGAATGCGGGCCATCACGATCTTCCCAGA
GTGCAGTTCCTATCATCCCAGAAGTGTTTGTTCATGTAAATGCATCCCCG
TTGGGAAGTCCAAGGATGTGAAGGACGGCTGTCCCATCCGAAACCTAACC
CTTTGCGTCTGCCGTATCTCACATTTGGCTACATTAGCTCTAGTGCTTAA
CAAAACTGGCCCTCCCTGTGACN
CCGATGAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXXXXCAATTTCTAAAGCTAAAACCATT
CCTGCTTCCCAATGAGGGAGGCTTCTACCCCAGTTATTCATCCCCTGTCT
TAGTCAGGGTTTCTATTCCTGCACAGACATCATGACCACAAAGCAAATTG
GGGAGGAAAGGGTTTATTCAGCCACATTGCTCTTGATCTCACAGAGCTCT
TAACACCGAATGGATCTTTTAGCCCAAAGTTCCAAAGTCCTTCCACAGTC
CTCCCCAAAATATGGTCAGGTTGTCACAGGAATACCCCACTATGCTGGTA
CCAATTTCTATATTAGTCGGAGTCACAGTTTTACTGCTGTGGACAGACAC
CATGACCAAGGCAAGTCTTCTTTTTTTTTTATTACATATTTTCCTCAATT
ACATTTCCAATGCTATCCCAAAAGTCCCCCATACCCTCCCCCACACTTCC
CTACCCACCCATTCCCATTTTTTTTTTTTTTTTTTGGTCCTGGCGTTCCC
CTGTACTGGGGCATATACAGTTTGCGTGTCCCATGGGCCTCTCTTTCCAG
TGATGGCCGGCTAGGCCATCTTTTGAACATATGCAGCTAAGAGCCAGAGC
TCCCGGGTACTGGTTAGCTAAAAATGGTGTGCCCCCCAAGGGCTGGAATA
CCTTTAGTCCCCTGCCCACCGCAGCCCCTAACCCACACCCTTCCTCCCGC
CACTCCC
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no388_a03.b1 MSMg01no388_a03.b1 CHROMAT_FILE:
MSMg01no388_a03.b1 PHD_FILE: MSMg01no388_a03.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 23:31:14 2005
         (498 letters)



>mm_chr4_99984003_99984900
          Length = 898

 Score =  940 bits (486), Expect = 0.0
 Identities = 495/498 (99%)
 Strand = Plus / Plus

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

                                                                       
Query: 61  aaagatttattataaaactcttactgagattattacaaattgtcactaaatcatcccgtg 120
           |||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||
Sbjct: 261 aaagatttattataaaactcttactgagattattacaaattgtcactaaatcatcctgtg 320

                                                                       
Query: 121 cattgttctcctgtcgagtttataaaagtccggagggcactgctttgggaatgtctcttc 180
           ||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||
Sbjct: 321 cattgttctcctgtcgagtttatgaaagtccggagggcactgctttgggaatgtctcttc 380

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

                                                                       
Query: 241 tgtctggggagagaaagaaaatatgccagagccgtcactggactctggaagtcagaggga 300
           ||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||
Sbjct: 441 tgtctggggagagaaagaaaatatgccagagtcgtcactggactctggaagtcagaggga 500

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

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

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

                             
Query: 481 cccagagtgcagttccta 498
           ||||||||||||||||||
Sbjct: 681 cccagagtgcagttccta 698


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: 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: 498
Length of database: 898
Length adjustment: 10
Effective length of query: 488
Effective length of database: 888
Effective search space:   433344
Effective search space used:   433344
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)