BAC Information

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BAC

Clone NameMSMg01-417B18
Chromosome18 (Build37)
Map Location 40,684,542 - 40,684,955
singlet/doubletsinglet
Overlap geneKctd16
Upstream genePabpc2, LOC100041939, Yipf5
Downstream geneEG225416, LOC677182
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-417B18.T7 (MSMg01no417_b18.b1)MSMg01-417B18.TJ (MSMg01no417_b18.g1)
ACCAG512768AG512769
length788780
length of high quality
(start - end)
487 (46 - 532)316 (75 - 390)
definitionCHROMAT_FILE: MSMg01no417_b18.b1 PHD_FILE: MSMg01no417_b18.b1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:35:53 2005CHROMAT_FILE: MSMg01no417_b18.g1 PHD_FILE: MSMg01no417_b18.g1.phd.1 CHEM: term DYE: big TIME: Wed May 18 18:35:53 2005
singlet/doubletsinglet---
BLAST hituniqueno hit data
sequence
TTTATXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXCGCGG
AATTCATTTGTCCTGTATGTAGACATTTACTGAGCATCTACTACTACATA
CCAGCACATCATCACAGCCTGACTTGTGTGTATTAGTGTGGCGTGTAGTG
TAGAATTCAGAATGACATTGATATAGCTCACAGCCTAGTCATTAAATCAA
TACCTGGAAGAATACACGTATATGTTGTACATGTACACACACACACACAC
ACACACACACACACACACACACACACACACACACACACACATACACATAC
ACACAAAGGGGGACTGTGAGGAACAGAGAAACAGACAGAATGACAAGCTT
CTACATATATGATGTTATAAAGCCAGGCACTTGAGATTAGGGTGAGCTTA
AATTGTGCCGGGGAATTAGATAGGTGAATTCATGTTGTGAAGCTCTATTT
CAGCGGAGCTTGTGATGATATATGATGATATGATATGATATGATATGATA
TGATATGATATGATATGATATGATATGATCTTANCNNNTNNNNNCCCCCA
TATTTTTTTTTTTTCCTTTTTTCTCCACTTTTTTTTCTTTTTCTCCTATC
CCCCCTTTCTTCCTCAAATCTCCCTCTTTATTTCCTATCTTCTCCCTTTT
TAATTCTCCCCCCCCTCTTCCCCTTTTTTTTAAAAACCACATTTTTCTCT
TATACTCTACCTTTTTTCTCTTTCTTCTTTCATTTTTCCCCCCTTTCCCC
CTCCCTTATTTCTCTTCCTTCCCTCCTTCTCCCTTTTN
CGATGATANTXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXX
XXXXXXXXXXXXXXXXXXXXXXXXTTTGGTTAGCTCTGAACCCCACTTTT
TAATGGGGTTATTTGAATTTCTGGAGTCCAGCTTCTTGAGCTGAGCATAA
GCCATTTGTGTTCTGTTCAGGAACTTTTCCCCTGTGCTCATGTGTTAAAG
GCTTTTCCCCACTTTCTATTCTATTAGATTCAATGTATCTGGTTTTGTTT
GTTTGTTTGTTTGTTTGTTTGTTTGTGGAAGTCTTTGATCCACTTGGACT
TGAGCTTTGAAAATATTGATGTATCTAATTTTTAAAAAGGAGAAAAAAAG
AATGGATCAATTTACATTCTTCTACATGCTGACCTTCAGTTGAACCAGTA
CCATTTGTTGACAATGCTGCATTTTCTCCATTGAATGGTTTTAGCTCCTT
TGGCAACGATCAAGTGACCATATGTCCTTTGCCTCATTTCTGGGACTCTC
GATCTATTGTAATGATCTTCCCGCCTGCCTCTGTAACACTACCATTATTT
TTTCATCCCCTTTATCTCCGTTTTACCCCCCTGTCTTTCGCTATTTCCCC
TCTTCCCCACTTTTTATTTTCCTTTTTTTCCCACTTCCTTTTTTCCCCTT
TTTTTTTTTTTCTTCCCGCCTCCCCCTTCCTCCCCTTTTTTTTCCTTTCC
TTCTCCCTCTTTCCCCCTATTTTCTTTCCCTTATTCCTTTTTCCCTCCCC
AATTTTTTTCTTCACCCCCTTTTTTTTTTG
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no417_b18.b1 MSMg01no417_b18.b1 CHROMAT_FILE:
MSMg01no417_b18.b1 PHD_FILE: MSMg01no417_b18.b1.phd.1 CHEM: term DYE:
big TIME: Wed May 18 18:35:53 2005
         (487 letters)



>mm_chr18_40684316_40685202
          Length = 887

 Score =  615 bits (318), Expect = e-180
 Identities = 405/470 (86%), Gaps = 56/470 (11%)
 Strand = Plus / Plus

                                                                       
Query: 5   gaattcatttgtcctgtatgtagacatttactgagcatctactactacataccagcacat 64
           ||||||||||||||||| | |||||||||||||||                      |||
Sbjct: 227 gaattcatttgtcctgtgtttagacatttactgag----------------------cat 264

                                                                       
Query: 65  catcacagcctgacttgtgtgtattagtgtggcgtgtagtgtagaattcagaatgacatt 124
           |||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||
Sbjct: 265 catcacagcctgacttgtgtgtattagtgtggtgtgtagtgtagaattcagaatgacatt 324

                                                                       
Query: 125 gatatagctcacagcctagtcattaaatcaatacctggaagaatacacgtatatgttgta 184
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| 
Sbjct: 325 gatatagctcacagcctagtcattaaatcaatacctggaagaatacacgtatatgttgtg 384

                                                                       
Query: 185 catgtacacacacacacacacacacacacacacacacacacacacacacacacacacaca 244
           |||||||||||||||||||||||||||||||||||                         
Sbjct: 385 catgtacacacacacacacacacacacacacacac------------------------- 419

                                                                       
Query: 245 catacacatacacacaaagggggactgtgaggaacagagaaacagacagaatgacaagct 304
                    ||||||||||||||||  |||||||||||||||||||||||||| ||||||
Sbjct: 420 ---------acacacaaagggggaccatgaggaacagagaaacagacagaatggcaagct 470

                                                                       
Query: 305 tctacatatatgatgttataaagccaggcacttgagattagggtgagcttaaattgtgcc 364
           |||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||
Sbjct: 471 tctacatatatgatgttataaagccaggcactagagattagggtgagcttaaattgtgcc 530

                                                                       
Query: 365 ggggaattagataggtgaattcatgttgtgaagctctatttcagcggagcttgtgatgat 424
           |||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||
Sbjct: 531 ggggaattagataggtgaattcctgttgtgaagctctatttcagcggagcttgtgatgat 590

                                                             
Query: 425 atatgatgatatgatatgatatgatatgatatgatatgatatgatatgat 474
           ||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 591 atatgatgatatgatatgatatgatatgatatgatatgatatgatatgat 640



 Score = 91.6 bits (47), Expect = 1e-22
 Identities = 47/47 (100%)
 Strand = Plus / Plus

                                                          
Query: 189 tacacacacacacacacacacacacacacacacacacacacacacac 235
           |||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 143 tacacacacacacacacacacacacacacacacacacacacacacac 189



 Score = 89.7 bits (46), Expect = 4e-22
 Identities = 46/46 (100%)
 Strand = Plus / Plus

                                                         
Query: 192 acacacacacacacacacacacacacacacacacacacacacacac 237
           ||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 144 acacacacacacacacacacacacacacacacacacacacacacac 189



 Score = 89.7 bits (46), Expect = 4e-22
 Identities = 46/46 (100%)
 Strand = Plus / Plus

                                                         
Query: 194 acacacacacacacacacacacacacacacacacacacacacacac 239
           ||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 144 acacacacacacacacacacacacacacacacacacacacacacac 189



 Score = 89.7 bits (46), Expect = 4e-22
 Identities = 46/46 (100%)
 Strand = Plus / Plus

                                                         
Query: 196 acacacacacacacacacacacacacacacacacacacacacacac 241
           ||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 144 acacacacacacacacacacacacacacacacacacacacacacac 189



 Score = 89.7 bits (46), Expect = 4e-22
 Identities = 46/46 (100%)
 Strand = Plus / Plus

                                                         
Query: 198 acacacacacacacacacacacacacacacacacacacacacacac 243
           ||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 144 acacacacacacacacacacacacacacacacacacacacacacac 189



 Score = 89.7 bits (46), Expect = 4e-22
 Identities = 46/46 (100%)
 Strand = Plus / Plus

                                                         
Query: 200 acacacacacacacacacacacacacacacacacacacacacacac 245
           ||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 144 acacacacacacacacacacacacacacacacacacacacacacac 189



 Score = 87.7 bits (45), Expect = 2e-21
 Identities = 45/45 (100%)
 Strand = Plus / Plus

                                                        
Query: 202 acacacacacacacacacacacacacacacacacacacacacaca 246
           |||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 144 acacacacacacacacacacacacacacacacacacacacacaca 188



 Score = 81.9 bits (42), Expect = 9e-20
 Identities = 45/46 (97%)
 Strand = Plus / Plus

                                                         
Query: 206 acacacacacacacacacacacacacacacacacacacacatacac 251
           ||||||||||||||||||||||||||||||||||||||||| ||||
Sbjct: 144 acacacacacacacacacacacacacacacacacacacacacacac 189



 Score = 80.0 bits (41), Expect = 3e-19
 Identities = 44/45 (97%)
 Strand = Plus / Plus

                                                        
Query: 208 acacacacacacacacacacacacacacacacacacacatacaca 252
           ||||||||||||||||||||||||||||||||||||||| |||||
Sbjct: 144 acacacacacacacacacacacacacacacacacacacacacaca 188



 Score = 74.2 bits (38), Expect = 2e-17
 Identities = 44/46 (95%)
 Strand = Plus / Plus

                                                         
Query: 212 acacacacacacacacacacacacacacacacacatacacatacac 257
           ||||||||||||||||||||||||||||||||||| ||||| ||||
Sbjct: 144 acacacacacacacacacacacacacacacacacacacacacacac 189



 Score = 74.2 bits (38), Expect = 2e-17
 Identities = 44/46 (95%)
 Strand = Plus / Plus

                                                         
Query: 214 acacacacacacacacacacacacacacacacatacacatacacac 259
           ||||||||||||||||||||||||||||||||| ||||| ||||||
Sbjct: 144 acacacacacacacacacacacacacacacacacacacacacacac 189



 Score = 72.3 bits (37), Expect = 7e-17
 Identities = 43/45 (95%)
 Strand = Plus / Plus

                                                        
Query: 216 acacacacacacacacacacacacacacacatacacatacacaca 260
           ||||||||||||||||||||||||||||||| ||||| |||||||
Sbjct: 144 acacacacacacacacacacacacacacacacacacacacacaca 188


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: 108
Number of extensions: 52
Number of successful extensions: 52
Number of sequences better than 10.0: 1
Number of HSP's gapped: 46
Number of HSP's successfully gapped: 13
Length of query: 487
Length of database: 887
Length adjustment: 10
Effective length of query: 477
Effective length of database: 877
Effective search space:   418329
Effective search space used:   418329
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)