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Table 1 BAC insert assemblies based on Illumina and PacBio reads

From: Short tandem repeats, segmental duplications, gene deletion, and genomic instability in a rapidly diversified immune gene family

Accession number BAC clone Clustera Sequencing techniqueb No. of contigs Length (nt) Final lengthc Gapsd N50 (nt) Comments
KU668451 10B1 1 Illumina 1 153857   8 153857 Both ends confirmed
PacBio 1 166299 157472 0 166299  
KU668452 4074J14 1 Illumina 1 136199   8 136199 Both ends confirmed
PacBio 1 151419 142396 0 151419 Artificial duplication at the ends
KU668453 10K9 2 Illumina 1 148572   2 148572 Both ends confirmed
PacBio 1 153438 144627 0 153438 Artificial duplication at the ends
KU668450 10M18 3 Illumina 1 122168   8 122168 Both ends confirmed
PacBio 1 136808 74402 0 136808  
KU668454 3104P4 3 Illumina 1 118285   7 118285 Both ends confirmed
PacBio 1 127392 118584 0 127392 Artificial duplication at one end
Not submitted 14K16 1″ Illumina 5 99921   3 58593 Ends missing
Not submitted 3020I13 SB+e Illumina 1 56106   0 56106 Finished, both ends confirmed
Not submitted 4024N22 2 Illumina 7 293347   31 77201 One end missing
Not submitted 4069G2 SB+ Illumina 10 125037   2 54882 Both ends confirmed
Not submitted 4069C2 SB+ Illumina 24 27398   0 1016 Very poor assembly, one end missing
Not submitted 4092O3 2′ Illumina 6 279956   7 125559 Both ends missing
  1. aSee Fig. 2
  2. bBACs sequenced by both techniques were used to characterize the Sp185/333 gene family structure
  3. cFinal length was determined after corrections to remove artificial repeats generated from the assembly process and vector contamination
  4. dGaps are defined as spaces in the assemblies with unknown nucleotides that are indicated in the sequence as Ns
  5. eSB+; positive for Sp185/333 sequences by Southern blot (see Additional file 3: Figure S2B)