genome.fa.s13.2.7.7.80.10.50.1000.159.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: Chr13 ID=Chr13-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  58321163

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   

This is table  159  of  199  ( 23770 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)
47377729--47377793	21	3.1	21	71	2	60	13	18	18	49	1.80
47377665--47377819	42	3.7	42	78	10	147	15	20	18	45	1.85
47380509--47380548	11	3.6	11	93	0	71	50	0	35	15	1.44
47385552--47385606	27	2.0	28	82	3	67	54	1	3	40	1.28
47387287--47387316	13	2.2	14	94	5	53	73	6	0	20	1.05
47389203--47389233	13	2.4	13	100	0	62	22	48	16	12	1.80
47392967--47393017	13	4.0	12	80	12	57	3	19	0	76	0.94
47394864--47394898	18	1.9	18	94	0	61	45	0	0	54	0.99
47394994--47395106	41	2.8	41	86	5	156	29	16	26	27	1.97
47395414--47395467	25	2.2	25	86	0	72	12	44	20	22	1.85
47398454--47398487	11	2.8	13	91	8	54	44	11	8	35	1.72
47404685--47404983	33	9.0	32	71	10	154	30	16	25	28	1.96
47404725--47404986	134	2.0	134	93	0	452	30	16	25	27	1.96
47404623--47404867	101	2.4	101	93	0	409	31	17	24	26	1.97
47404988--47405063	24	3.2	24	90	3	109	48	3	25	22	1.67
47407075--47407177	43	2.4	43	83	6	136	23	17	27	32	1.97
47407075--47407220	43	3.4	42	76	5	123	26	17	23	32	1.96
47408823--47409073	50	4.9	50	86	5	317	23	29	21	25	1.99
47409409--47409466	30	1.9	31	82	6	75	27	24	6	41	1.80
47420892--47421140	123	2.0	123	100	0	498	46	14	10	28	1.78
47429422--47429450	12	2.4	12	100	0	58	44	34	13	6	1.71
47433493--47433571	5	15.4	5	72	22	58	20	1	1	77	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47433511--47433578	4	16.2	4	77	17	59	23	1	0	75	0.89
47433494--47433579	17	4.5	21	70	24	75	22	1	1	75	0.94
47433491--47433578	40	2.2	39	79	15	101	21	1	1	76	0.92
47433511--47433582	35	2.0	35	89	7	110	23	2	0	73	0.96
47434914--47434968	17	3.5	15	73	22	51	76	3	0	20	0.94
47434908--47434965	27	2.2	26	81	12	64	72	5	1	20	1.13
47434917--47434977	23	2.7	22	73	16	61	73	3	0	22	0.97
47435525--47435559	15	2.4	15	90	4	54	48	0	8	42	1.33
47440639--47440678	21	2.0	21	85	5	55	47	7	12	32	1.69
47449144--47449204	19	3.2	19	77	13	54	60	4	4	29	1.38
47449585--47449666	31	2.7	30	86	7	112	36	2	4	56	1.34
47449616--47449679	10	6.3	11	68	23	50	39	1	3	56	1.25
47449583--47449658	29	2.5	30	87	4	109	35	3	5	55	1.41
47449583--47449668	29	2.9	29	78	13	95	37	3	4	54	1.38
47449644--47449689	21	2.2	21	100	0	92	43	0	0	56	0.99
47449697--47449743	17	2.8	16	78	12	58	61	0	12	25	1.31
47450067--47450143	19	3.8	19	90	10	118	41	10	11	36	1.76
47450068--47450143	21	3.7	21	92	3	129	42	10	10	36	1.74
47450343--47450381	19	2.0	21	85	10	55	15	10	5	69	1.34
47450567--47450636	3	23.3	3	88	11	108	35	0	0	64	0.94
47450996--47451035	2	20.0	2	100	0	80	50	0	0	50	1.00
47458340--47458415	29	2.5	30	82	4	100	38	3	7	50	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47458340--47458423	31	2.7	31	81	7	109	38	3	7	51	1.47
47458340--47458426	29	2.9	28	78	10	93	39	3	8	49	1.49
47458433--47458479	16	2.7	18	77	12	53	65	2	6	25	1.27
47458732--47458789	20	3.2	18	79	15	66	31	1	0	67	1.01
47458737--47458779	18	2.6	16	85	10	59	27	2	0	69	1.00
47458744--47458803	10	6.1	10	78	20	56	35	5	0	60	1.19
47458761--47458808	24	2.2	20	82	14	51	39	4	0	56	1.19
47459042--47459146	19	5.2	20	75	14	83	26	3	1	67	1.18
47459042--47459147	9	11.7	9	75	20	80	27	3	1	66	1.19
47459062--47459110	16	3.1	15	79	8	53	22	2	2	73	1.04
47459042--47459128	42	2.0	45	88	6	135	25	4	1	68	1.15
47462276--47462324	24	2.0	24	84	7	64	57	2	4	36	1.30
47465326--47465377	26	2.0	26	100	0	104	23	3	26	46	1.69
47469270--47469352	27	3.1	27	83	0	103	25	28	21	24	1.99
47472895--47472963	31	2.3	29	83	11	79	52	11	14	21	1.73
47478803--47478828	12	2.2	12	100	0	52	38	23	15	23	1.92
47479628--47479652	12	2.1	12	100	0	50	60	0	8	32	1.26
47482262--47482302	9	4.2	10	76	17	50	36	0	2	60	1.10
47482254--47482337	18	4.7	18	68	16	57	40	3	2	53	1.31
47482486--47482513	6	4.7	6	100	0	56	35	32	0	32	1.58
47489238--47489288	20	2.5	20	78	9	59	37	15	27	19	1.92
47492528--47492619	34	2.7	34	91	0	139	27	5	30	36	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47499631--47499680	27	1.9	26	84	8	66	64	18	4	14	1.44
47507426--47507454	10	3.0	10	95	5	51	10	27	10	51	1.68
47511925--47511978	27	2.0	27	100	0	108	22	18	3	55	1.58
47513104--47513149	20	2.4	20	82	7	51	63	4	4	28	1.33
47513156--47513427	41	6.7	41	88	2	386	30	30	21	18	1.96
47513829--47514234	108	3.7	110	87	4	588	33	19	17	29	1.95
47514646--47514682	2	18.5	2	88	0	56	45	0	5	48	1.25
47514745--47514774	2	15.0	2	100	0	60	50	0	0	50	1.00
47514911--47514956	3	15.0	3	95	4	83	65	0	0	34	0.93
47517805--47518248	114	3.9	113	89	2	676	25	23	25	25	2.00
47518495--47518525	15	2.1	15	93	0	53	19	0	45	35	1.51
47518758--47518832	21	3.5	21	68	12	55	29	1	30	38	1.66
47518808--47518896	14	6.1	15	73	18	55	24	0	38	37	1.56
47519895--47520059	85	2.0	85	90	1	260	51	10	10	27	1.68
47526825--47526855	5	6.2	5	100	0	62	80	0	0	19	0.71
47526912--47527050	42	3.3	43	77	7	124	25	17	26	30	1.97
47527016--47527134	42	2.8	42	92	2	195	22	23	21	31	1.98
47532535--47532569	17	2.1	17	100	0	70	48	17	5	28	1.69
47533382--47533466	43	2.0	42	88	6	127	23	24	1	50	1.56
47534717--47534747	2	15.5	2	100	0	62	51	0	0	48	1.00
47536459--47536555	21	4.7	21	87	5	144	38	12	8	41	1.73
47536866--47537844	44	22.5	44	70	14	403	27	23	20	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47537036--47537326	133	2.2	133	98	0	564	26	25	20	27	1.99
47537169--47537853	217	3.2	216	92	0	1120	28	23	20	28	1.99
47539086--47539135	22	2.5	20	80	9	57	4	16	0	80	0.87
47543490--47543523	12	2.8	12	86	4	50	79	2	0	17	0.86
47544395--47544491	21	4.7	21	89	5	153	38	12	9	40	1.75
47545611--47545702	9	10.4	9	87	4	134	34	21	8	34	1.84
47545610--47545702	26	3.5	26	91	1	150	35	21	8	34	1.84
47545611--47545702	35	2.6	36	87	5	143	34	21	8	34	1.84
47547302--47547338	20	1.9	19	89	10	58	21	16	16	45	1.84
47549139--47549207	35	2.0	35	88	0	102	43	28	4	23	1.73
47552386--47552483	11	9.4	11	71	23	61	58	0	4	37	1.17
47552378--47552472	30	3.1	30	85	7	122	61	0	3	35	1.12
47552413--47552492	41	2.0	41	89	0	124	60	0	3	36	1.15
47560168--47560230	2	32.0	2	80	3	74	46	3	3	47	1.34
47566388--47566413	11	2.4	11	100	0	52	76	0	23	0	0.78
47566409--47566470	6	10.0	6	77	16	56	77	0	20	1	0.85
47566411--47566467	10	5.3	10	77	22	62	77	0	21	1	0.86
47566415--47566470	20	2.8	20	86	5	78	76	0	21	1	0.87
47567733--47567952	44	5.0	44	69	10	151	30	25	20	23	1.99
47567688--47567952	89	3.0	89	80	4	309	29	24	21	24	1.99
47567681--47567947	45	6.0	44	68	10	150	29	23	21	25	1.99
47568158--47568561	44	9.4	44	72	8	301	26	21	20	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47568156--47568561	85	4.7	86	74	7	358	27	20	20	31	1.98
47568205--47568561	129	2.8	129	94	0	633	26	20	20	31	1.98
47569970--47570017	20	2.4	20	96	0	87	33	0	27	39	1.57
47570024--47570267	35	7.1	35	68	8	176	22	23	22	31	1.99
47570024--47570287	69	3.8	69	87	0	357	23	23	22	30	1.99
47570184--47570292	35	3.1	35	67	10	89	25	22	20	31	1.98
47570807--47570854	20	2.4	20	92	0	78	35	0	25	39	1.56
47570863--47571117	35	7.4	35	69	9	157	21	21	24	33	1.97
47570875--47571117	69	3.6	69	78	5	233	21	20	23	33	1.97
47572175--47572232	23	2.5	23	77	5	55	41	6	17	34	1.76

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