genome.fa.s10.2.7.7.80.10.50.1000.137.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: Chr10 ID=Chr10-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62175169

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   

This is table  137  of  202  ( 24201 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42553619--42553644	3	8.7	3	100	0	52	34	0	0	65	0.93
42555083--42555135	8	6.5	8	83	12	56	66	1	1	30	1.13
42555068--42555137	9	8.0	9	73	16	51	64	4	1	30	1.21
42555080--42555136	17	3.4	16	79	15	62	66	1	1	29	1.12
42555072--42555143	33	2.2	33	83	16	87	65	5	1	27	1.23
42555080--42555143	16	3.8	17	78	17	64	65	3	1	29	1.17
42560302--42560370	29	2.4	29	83	7	88	36	7	10	46	1.65
42574179--42574288	47	2.3	47	88	0	157	29	13	20	36	1.91
42579135--42579282	27	5.5	27	85	1	172	35	14	17	32	1.91
42579134--42579293	80	2.0	82	83	2	207	35	14	17	33	1.90
42579139--42579282	53	2.7	53	89	3	191	34	14	17	33	1.90
42588197--42588252	20	2.8	20	69	15	53	44	5	17	32	1.72
42593399--42593469	35	2.0	35	97	0	133	29	21	25	23	1.99
42595478--42595510	2	16.0	2	93	6	57	48	3	0	48	1.17
42595744--42595782	18	2.1	19	86	13	55	25	0	15	58	1.37
42597626--42597742	54	2.2	54	81	3	128	29	23	28	18	1.98
42599881--42599912	2	16.0	2	100	0	64	0	50	0	50	1.00
42602183--42602237	27	2.0	27	85	7	74	58	1	0	40	1.09
42602241--42602327	9	9.7	9	73	9	52	65	3	2	28	1.21
42602241--42602308	18	3.7	18	86	7	84	64	4	1	29	1.21
42602231--42602318	37	2.3	37	76	7	88	64	3	3	28	1.25
42602243--42602334	19	5.1	17	76	15	62	64	3	2	30	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42602339--42602404	19	3.4	19	75	21	66	54	4	7	33	1.49
42602621--42602669	19	2.6	19	84	9	57	36	2	0	61	1.08
42602726--42602904	88	2.0	87	81	6	209	34	10	17	37	1.84
42603360--42603415	29	1.9	29	85	0	76	26	12	19	41	1.87
42604358--42604413	29	1.9	29	89	7	87	41	19	16	23	1.90
42604661--42604710	17	2.8	18	75	6	57	6	12	8	74	1.22
42610127--42610293	87	1.9	90	82	9	216	31	7	5	56	1.49
42612716--42612760	9	4.8	9	84	10	63	64	4	6	24	1.37
42613040--42613095	21	2.7	21	80	0	58	28	8	33	28	1.87
42613488--42613528	20	2.0	20	95	0	73	29	12	14	43	1.82
42613626--42613664	20	2.0	20	94	0	69	48	2	0	48	1.15
42617452--42617495	6	7.2	6	89	5	70	38	0	61	0	0.96
42621233--42621264	14	2.4	14	94	5	57	59	18	9	12	1.59
42621859--42622026	81	2.1	81	89	2	259	26	19	6	47	1.73
42628471--42628517	12	3.9	12	80	0	58	14	14	19	51	1.77
42628469--42628516	24	2.0	24	91	0	78	18	14	18	47	1.82
42628720--42628761	12	3.6	12	77	6	50	23	14	21	40	1.90
42628703--42628783	23	3.5	23	83	5	92	30	11	17	40	1.84
42631919--42631994	39	1.9	39	86	0	107	35	15	31	17	1.91
42631943--42632014	20	3.7	19	73	17	67	40	19	27	12	1.88
42631928--42632004	39	2.0	39	84	5	102	37	16	28	16	1.91
42642043--42642077	18	1.9	18	94	0	61	28	14	11	45	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42655958--42656015	15	3.7	15	72	6	53	53	0	1	44	1.10
42656453--42656501	24	2.0	24	96	0	89	40	10	8	40	1.69
42660925--42660991	33	2.0	34	85	8	93	31	19	23	25	1.98
42680091--42680131	21	2.0	21	90	0	64	36	41	4	17	1.71
42680051--42680129	11	7.1	11	69	8	52	36	44	5	13	1.67
42681532--42681613	28	2.9	29	89	5	132	31	21	23	23	1.98
42681976--42682307	27	12.3	27	82	4	312	18	15	24	40	1.90
42681981--42682307	54	6.1	54	83	3	372	18	15	24	40	1.90
42681976--42682307	81	4.1	81	84	2	391	18	15	24	40	1.90
42701680--42701843	29	5.7	29	75	2	170	22	15	21	39	1.92
42704307--42704354	15	3.1	15	80	16	53	39	0	22	37	1.55
42712930--42713004	33	2.3	33	88	0	105	56	4	2	37	1.32
42713799--42713832	12	2.8	12	90	0	50	67	0	0	32	0.91
42726211--42726326	45	2.7	43	85	10	150	12	18	21	46	1.83
42726871--42726920	22	2.3	21	80	10	55	52	2	10	36	1.47
42737010--42737049	21	1.9	21	84	0	53	70	7	5	17	1.30
42738162--42738206	23	2.0	23	95	0	81	40	4	0	55	1.20
42740371--42740437	24	2.6	25	88	6	100	47	0	8	43	1.34
42752527--42752606	23	3.4	23	98	1	151	55	0	3	41	1.18
42754248--42754291	23	1.9	23	90	0	70	61	4	2	31	1.28
42754252--42754294	11	3.8	11	80	17	52	65	2	2	30	1.18
42756231--42756269	18	2.2	17	86	13	53	33	0	20	46	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42756495--42756616	23	5.3	23	85	3	165	22	20	26	31	1.98
42756495--42756616	46	2.7	46	92	0	190	22	20	26	31	1.98
42757642--42757668	2	13.5	2	100	0	54	48	0	0	51	1.00
42758775--42759211	230	1.9	229	86	1	615	38	10	18	32	1.85
42761310--42761364	22	2.5	22	88	5	76	21	12	23	41	1.88
42766014--42766221	91	2.3	91	92	0	335	46	3	4	45	1.41
42766136--42766196	28	2.3	26	82	5	68	45	1	3	49	1.28
42766371--42766412	15	2.7	16	82	14	52	45	0	2	52	1.13
42766362--42766403	15	2.9	15	82	10	52	47	0	0	52	1.00
42766543--42766596	16	3.4	16	84	0	72	25	33	3	37	1.74
42767789--42767855	18	3.6	18	68	7	62	23	19	19	37	1.94
42767983--42768060	38	2.0	39	90	7	124	51	25	2	20	1.60
42768191--42768256	17	3.7	17	73	11	69	33	3	15	48	1.60
42768188--42768259	37	1.9	37	94	0	126	34	2	15	47	1.60
42768259--42768300	9	4.7	9	84	0	57	21	9	21	47	1.79
42769455--42769488	15	2.3	15	94	0	59	41	2	14	41	1.61
42769524--42769615	13	7.0	13	84	7	114	57	7	2	32	1.39
42770707--42770758	22	2.4	22	83	6	61	17	11	48	23	1.79
42771837--42771872	18	2.0	18	100	0	72	38	16	11	33	1.84
42776235--42776413	38	4.7	38	83	1	207	17	21	26	35	1.95
42782870--42783083	62	3.5	62	85	0	302	25	30	21	21	1.99
42783038--42783133	49	2.0	48	93	2	165	27	32	22	17	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42790017--42790389	44	8.5	43	73	12	214	26	24	19	30	1.98
42790519--42790678	44	3.6	43	77	15	141	28	24	20	26	1.99
42790559--42790718	44	3.7	44	80	13	147	29	24	20	26	1.99
42802612--42802655	4	10.5	4	92	7	70	72	0	2	25	0.96
42806686--42806763	33	2.4	33	100	0	156	50	21	2	25	1.62
42816713--42816760	24	2.0	25	91	4	80	68	12	8	10	1.39
42817253--42817295	15	2.9	14	77	16	50	11	9	9	69	1.36
42817264--42817294	16	1.9	16	93	0	53	9	9	9	70	1.33
42820452--42820507	28	2.0	28	100	0	112	28	17	17	35	1.93
42824877--42825151	41	6.7	41	79	4	259	34	16	26	22	1.95
42824880--42825148	82	3.3	82	81	5	301	34	16	26	23	1.95
42825045--42825151	21	5.2	21	64	13	60	31	16	29	21	1.96
42824879--42825152	123	2.2	123	80	5	311	34	16	26	22	1.95
42831119--42831359	50	4.8	50	80	1	243	22	27	21	28	1.99
42835261--42835499	41	5.8	41	78	2	165	34	14	29	21	1.93
42835261--42835499	82	2.9	82	73	4	239	34	14	29	21	1.93
42837438--42837463	7	3.7	7	100	0	52	26	26	0	46	1.53
42844477--42844532	22	2.5	22	79	0	58	33	19	25	21	1.97
42844847--42845030	27	6.8	27	81	0	179	26	22	17	33	1.96
42844816--42845030	81	2.7	81	83	4	256	26	21	17	34	1.95
42844818--42845043	54	4.2	54	78	2	220	26	21	16	35	1.94
42852154--42852327	45	3.9	45	78	6	158	43	12	18	24	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42856916--42856951	15	2.5	15	95	4	65	63	0	0	36	0.94
42863366--42863416	8	6.4	8	83	0	57	41	1	0	56	1.10
42865266--42865389	40	3.1	39	80	6	142	22	32	16	29	1.95
42866984--42867100	35	3.3	35	85	1	144	42	28	10	18	1.83
42874368--42874529	35	4.6	35	83	5	184	41	31	9	16	1.81
42883907--42883936	14	2.2	14	94	5	53	50	0	6	43	1.28
42884772--42884958	40	4.7	40	86	1	234	23	29	15	31	1.95
42886522--42886566	3	15.0	3	95	0	63	0	6	66	26	1.16
42886670--42886694	12	2.1	12	100	0	50	0	24	0	76	0.80
42886726--42886766	20	2.0	20	90	0	64	21	24	26	26	2.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202