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Table 1 Summary of genotyping results.

From: A comparison of SNPs and microsatellites as linkage mapping markers: lessons from the zebra finch (Taeniopygia guttata)

Locus Locus reference Number of individuals genotyped in study population Predicted allele size Observed allele size range Number of alleles obs. He Ho Est. null allele freq. (CERVUS v3.0) Mean estimated error rate (CERVUS v3.0) Multiplex set
ZF01-020 This study 320 178 160-261 15 0.69 0.59 0.075 0.007 3
ZF01-025 This study 334 211 188-217 11 0.78 0.77 0.005 0 2, 3
TG01-040 This study 307 286 286-294 7 0.69 0.70 -0.011 0 2
ZF01-054a This study 308 185 157-188 13 0.89 0.75 0.083 0.002 2
ZF01-139b This study 330 188 156-209 4 0.53 0.55 -0.007 0.040 4
ZF01-136 This study 299 367 333-373 10 0.73 0.55 0.138$ 0 2
ZF01-170c [47] 21 316 257-305 9 0.83 0.86 -0.032 - 4
ZF01-161 This study 333 159 125-168 8 0.70 0.74 -0.036 0 4
ZF01-190 This study 329 342 308-366 12 0.83 0.87 -0.026 0 3
ZF01-196 This study 334 292 270-304 7 0.74 0.77 -0.014 0 2, 3, 4
Tgu12 This study 331 282 248-273 10 0.79 0.75 0.026 0.016 3
ZF01-180b [43] 331 213 166-218 8 0.76 0.66 0.071 0.060 4
ZF01-081b This study 337 233 130-154 5 0.55 0.51 0.031 0.077 4
ZF02-068 This study 292 185 121-152 7 0.70 0.50 0.157$ 0.010 2
ZF02-038b This study 301 233 211-245 11 0.77 0.66 0.074 0.085 2
TG02-078 [43] 314 309 308-321 6 0.73 0.76 -0.024 0 1
TG02-088 [43] 310 268 263-269 5 0.73 0.77 -0.034 0 1
Ase44 [64] 303 268 308-329 8 0.81 0.79 0.010 0.006 2
ZF02-128 This study 301 374 365-435 9 0.83 0.79 0.022 0.005 2
ZF02-129 This study 329 169 124-172 11 0.83 0.82 0.004 0.005 3
ZEST09-005 Dawson et al. unpublished 316 168 155-165 5 0.74 0.67 0.047 0 1
Smm4 [65] 313 332 332-341 6 0.57 0.50 0.049$ 0.018 1
Cpi7 [66] 308 128 119-131 5 0.54 0.55 -0.016 0 1
ZEST09-018 Dawson et al. unpublished 289 285 282-293 8 0.70 0.75 -0.039 0 1
ZEST09-021 Dawson et al. unpublished 311 119 114-121 5 0.47 0.41 0.096 0 1
ZEST09-025 Dawson et al. unpublished 281 167 164-170 6 0.71 0.69 0.014 0 1
  1. Information is for the 26 zebra finch (Taeniopygia guttata) microsatellite markers used to create the linkage maps for the zebra finch chromosomes 1, 1A, 2 and 9. See additional file 1: Table S1 for more information.
  2. He, Ho expected and observed heterozygosity (calculated using CERVUS v3.0)
  3. $, Markers with null alleles; null alleles were detectable by following their segregation through the pedigree. Null alleles were rescored as allele 99 before running through CriMap. Null allele frequencies are calculated using the original genotypes and are based on the excess of homozygous individuals.
  4. a, Excluded after CHROMPIC revealed an excess of double recombination events with adjacent markers, indicative of high error rate.
  5. b, Excluded from linkage maps as parent-offspring mismatches estimated the error rate > 0.02
  6. c, Could not be accurately scored after multiplexing.