Spreadsheet: 23c203f9-aea9-4c7f-8d90-487d66933e51
Sheet: Sheet1

Table S5. Sequence characteristics of FL-L1s across the 10q25 neocentromere | Unnamed: 1 | Unnamed: 2 | Unnamed: 3 | Unnamed: 4 | Unnamed: 5 | Unnamed: 6 | Unnamed: 7 | Unnamed: 8 | Unnamed: 9 | Unnamed: 10 | Unnamed: 11 | Unnamed: 12 | Unnamed: 13 | Unnamed: 14
A. General Characteristics
L1 nomenclature | [NAME] (bp) | Ta1-nd/d | GC content | Intactness score | Find TSDs | Kimura distance | PolyA signal | Poly-A
FL-L1a | 6161 | non canonical | 0.4098 | 16 | 11 nt | 0.1152 | mut | 2 pure/16 est ([NAME])
FL-L1b | 6207 | Ta1-nd | 0.4209 | 25 | 11 nt | 0.029 | cons | 13 pure/20 est ([NAME] dist=0.2529)
FL-L1c | 6135 | Ta1-nd | 0.4217 | 18 | 15 nt | 0.0431 | mut | 2 pure/16 est ([NAME])
FL-L1d | 6039 | Ta1-nd | 0.4211 | 23 | 11 nt | 0.0397 | cons | 10 pure/18 est ([NAME])
FL-L1f | 6025 | Ta1-nd | 0.4221 | 23 | no tsd | 0.0266 | cons | 3 pure/14 est ([NAME] dist=0.6693)
FL-L1g | 6000 | non canonical | 0.4212 | 21 | 11 nt | 0.0187 | cons | 5 pure/10 est ([NAME] dist=n/a)
B. Promoter sequence and transcription factor binding sites
L1 nomenclature | % promoter identities | CPG islands | SRY site 1 | SRY site 2 | Runx3 site | Runx3 site 2 | Runx3 ASP | [NAME] | TF nkx-2.5
FL-L1a | 0.832258064516129 | 0 islands | cons | cons | mut | mut | mut | mut | cons
FL-L1b | 0.9161290322580645 | 1 islands | cons | cons | cons | cons | cons | cons | cons
FL-L1c | 0.7225806451612903 | 0 islands | cons | cons | cons | mut | mut | mut | cons
FL-L1d | 0.9161290322580645 | 0 islands | cons | cons | cons | cons | mut | cons | cons
FL-L1f | 0.9096774193548387 | 1 islands | cons | cons | cons | cons | cons | mut | cons
FL-L1g | 0.7290322580645161 | 1 islands | cons | cons | mut 84G/A | cons | mut | mut | cons
C. ORF1 features
L1 nomenclature | ORF1 conserved | ORF1 gaps | ORF1 frameshifts | ORF1 stops | ORF1 %A | ORF1 %T | ORF1 CAI
FL-L1a | 1 | 0 | 2 | 4 | 0.408560311284047 | 0.188715953307393 | 0.64
FL-L1b | 1 | 0 | 0 | 2 | 0.397435897435897 | 0.175542406311637 | 0.682
FL-L1c | 1 | 0 | 1 | 2 | 0.401970443349754 | 0.172413793103448 | 0.662
FL-L1d | 1 | 0 | 0 | 2 | 0.398422090729783 | 0.17258382642998 | 0.673
FL-L1f | 1 | 0 | 0 | 0 | 0.404692082111437 | 0.172043010752688 | 0.683
FL-L1g | 1 | 0 | 0 | 0 | 0.400394477317554 | 0.174556213017751 | 0.683
D. ORF2 features
L1 nomenclature | ORF2 conserved | ORF2 gaps | ORF2 frameshifts | [NAME] stops | [NAME]A | [NAME]T | [NAME]
FL-L1a | 1 | 10 | 9 | 4 | 0.417084102293699 | 0.203532823622462 | 0.64
FL-L1b | 1 | 2 | 0 | 3 | 0.408745744959413 | 0.205813040062844 | 0.621
FL-L1c | 1 | 9 | 6 | 1 | 0.411950513292972 | 0.201895235588313 | 0.653
FL-L1d | 1 | 1 | 4 | 1 | 0.410704960835509 | 0.202610966057441 | 0.628
FL-L1f | 1 | 1 | 2 | 0 | 0.407853403141361 | 0.204188481675393 | 0.658
FL-L1g | 1 | 1 | 2 | 0 | 0.409733124018838 | 0.203819989534275 | 0.622
E. ORF1 amino acid sequence conversation
L1 nomenclature | REKG235 | ARR260 | YPAKLS282
FL-L1a | cons | cons | mut
FL-L1b | cons | cons | cons
FL-L1c | cons | mut | cons
FL-L1d | cons | cons | cons
FL-L1f | cons | cons | mut
FL-L1g | cons | cons | cons
[NAME] amino acid sequence conversation
L1 nomenclature | [NAME] | E43 | Y115 | D145 | N147 | T192 | D205 | I1220 | SDH228 | R363 | FADD700 | HMKK1091 | SSS1096 | S1259
FL-L1a | cons | cons | cons | cons | mut | cons | cons | cons | mut | mut | cons | cons | cons | cons
FL-L1b | cons | cons | cons | cons | cons | cons | cons | cons | cons | cons | cons | cons | cons | cons
FL-L1c | cons | cons | cons | cons | cons | cons | cons | mut | cons | cons | cons | cons | mut | cons
FL-L1d | cons | cons | cons | cons | cons | cons | cons | cons | cons | cons | cons | cons | mut | cons
FL-L1f | cons | cons | cons | cons | cons | cons | cons | cons | cons | cons | cons | cons | cons | cons
FL-L1g | cons | cons | mut | cons | cons | cons | cons | cons | cons | cons | cons | cons | cons | cons