198c9b8daecc44fbda6a6494c566c723920f030a
lrnassar
  Wed Mar 11 18:25:21 2026 -0700
Fixing a few hundred clear typos with the help of Claude. Some are less important in code comments, but majority of them are in user-facing places. I manually approved 60%+ of the changes and didn't see any that were an incorrect suggestion, at worst it was potentially uncessesary, like a code comment having cant instead of can't. No RM.

diff --git src/hg/makeDb/trackDb/human/numtSeq.html src/hg/makeDb/trackDb/human/numtSeq.html
index e60634321f7..ee2a11281b3 100644
--- src/hg/makeDb/trackDb/human/numtSeq.html
+++ src/hg/makeDb/trackDb/human/numtSeq.html
@@ -27,31 +27,31 @@
 </li>
 
 <li><b>"NumtS on mitochondrion" Track</b>
 <p>
 The "NumtS on mitochondrion" track shows the mapping of the HSPs on the mitochondrial genome. The shading of the items reflects the similarity returned by BlastN, and the direction of the arrows is concordant with the strand of the alignment. For every item, a link pointing to the nuclear mapping is provided.
 </p>
 
 <li><b>"NumtS on mitochondrion with chromosome placement" Track</b>
 <p>
 The "NumtS on mitochondrion with chromosome placement" shows the mapping of the HSPs on the mitochondrial genome, but the items are coloured according to the colours assigned to each human chromosome on the UCSC genome browser. No shading is here provided. For every item, a link pointing to the nuclear mapping is provided.
 </p>
 </ol>
 
 <h2>Methods</h2>
 <p>
-NumtS mappings were obtained by running Blast2seq (program: BlastN) between each chromosome of of the Human Genome hg18 build and the human mitochondrial reference sequence (rCRS, AC: NC_012920), fixing the e-value threshold to 1e-03. The assembling of the HSPs was performed with spreadsheet interpolation and manual inspection.
+NumtS mappings were obtained by running Blast2seq (program: BlastN) between each chromosome of the Human Genome hg18 build and the human mitochondrial reference sequence (rCRS, AC: NC_012920), fixing the e-value threshold to 1e-03. The assembling of the HSPs was performed with spreadsheet interpolation and manual inspection.
 </p>
 
 <h2>Verification</h2>
 <p>
 NumtS predicted in silico were validated by carrying out PCR amplification and sequencing on blood-extracted DNA of a healthy individual of European origin. PCR amplification was successful for 275 NumtS and provided amplicons of the expected length. All PCR fragments were sequenced on both strands, and submitted to the EMBL databank.
 </p>
 <p>
 Furthermore, 541 NumtS were validated by merging NumtS nuclear coordinates with HapMap annotations. Our analysis has been carried on eight HapMap individuals (NA18517, NA18507, NA18956, NA19240, NA18555, NA12878, NA19129, NA12156). For each sample, clones with a single best concordant placement (according to the fosmid end-sequence-pair analysis described in Kidd et al., 2008), have been considered. The analysis showed that 541 NumtS (at least 30bp for each one) had been sequenced in such samples.
 </p>
 
 <h2>Credits</h2>
 <p>
 These data were provided by Domenico Simone and Marcella Attimonelli at Department of Biochemistry and Molecular Biology "Ernesto Quagliariello" (University of Bari, Italy). Primer designing was carried out by Francesco Calabrese and Giuseppe Mineccia. PCR validation was carried out by Martin Lang, Domenico Simone and Giuseppe Gasparre. Merging with HapMap annotations has been performed by Domenico Simone.
 </p>