genome.fa.s8.2.7.7.80.10.50.1000.163.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: Chr08 ID=Chr08-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  57128820

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   

This is table  163  of  190  ( 22705 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)
47601476--47601523	20	2.4	20	92	0	78	43	0	20	35	1.52
47601755--47601811	22	2.6	23	81	13	66	40	1	1	56	1.20
47608222--47608249	2	14.0	2	100	0	56	50	0	0	50	1.00
47608321--47608400	33	2.4	33	76	12	83	52	3	6	37	1.45
47608404--47608443	3	13.3	3	100	0	80	67	0	0	32	0.91
47609059--47609092	17	2.1	16	88	5	50	79	0	0	20	0.73
47621340--47621372	14	2.4	14	100	0	66	18	18	30	33	1.94
47628325--47628365	21	2.0	21	90	0	64	56	7	21	14	1.63
47628799--47628949	17	8.8	17	72	15	87	49	10	10	29	1.71
47628781--47628942	34	4.6	33	74	13	146	49	10	10	29	1.71
47628776--47628971	35	5.5	36	71	14	115	47	10	10	32	1.71
47628776--47628949	70	2.5	71	82	6	203	48	10	10	30	1.70
47629030--47629068	17	2.3	17	90	0	60	61	10	5	23	1.48
47629038--47629092	17	3.2	17	85	7	67	56	9	9	25	1.60
47629463--47629512	24	2.1	23	85	10	66	0	14	6	80	0.90
47629543--47629596	24	2.2	24	83	6	65	0	29	46	24	1.53
47629552--47629609	24	2.4	24	80	5	64	0	29	44	25	1.54
47629698--47629730	12	2.8	12	90	4	50	3	3	12	81	0.91
47629823--47629884	25	2.4	25	80	15	65	1	14	4	79	0.98
47629843--47629905	24	2.7	23	85	9	76	0	23	1	74	0.90
47629837--47629902	22	3.1	22	83	10	75	0	21	3	75	0.93
47629871--47629907	3	12.3	3	100	0	74	0	32	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47630248--47630403	29	5.2	29	77	12	156	40	5	18	35	1.73
47633110--47633154	24	1.9	23	86	4	63	60	0	0	40	0.97
47633110--47633153	12	3.7	13	80	17	51	59	0	0	40	0.98
47643072--47643118	24	1.9	25	86	4	69	46	6	0	46	1.28
47645457--47645482	13	2.0	13	100	0	52	61	30	0	7	1.24
47649615--47649653	7	5.4	7	84	6	51	46	35	0	17	1.49
47649615--47649644	14	2.1	14	100	0	60	46	33	0	20	1.51
47670721--47670769	22	2.2	22	78	7	55	40	6	12	40	1.67
47672710--47672739	2	15.0	2	100	0	60	50	0	0	50	1.00
47673982--47674024	15	2.8	16	85	3	52	55	2	11	30	1.48
47682530--47682676	66	2.2	66	87	4	208	40	17	29	13	1.87
47682655--47682759	21	5.0	21	77	9	106	35	17	43	3	1.67
47683111--47683383	43	6.3	43	78	4	282	22	17	31	28	1.97
47683111--47683362	129	2.0	129	82	6	314	23	17	31	28	1.97
47683131--47683385	86	3.0	86	86	2	352	23	17	31	26	1.97
47683221--47683422	86	2.3	86	86	0	233	23	19	30	26	1.98
47683388--47683469	43	1.9	43	87	0	119	26	26	21	24	2.00
47684123--47684183	26	2.4	26	88	2	88	31	11	13	44	1.79
47684437--47684487	16	3.0	16	80	13	50	17	13	1	66	1.34
47684436--47684487	17	3.0	16	83	16	52	17	13	1	67	1.32
47684459--47684487	9	3.0	10	90	10	51	20	17	0	62	1.33
47686487--47686538	19	2.7	20	88	8	72	30	3	0	65	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47688001--47688049	23	2.2	22	82	7	55	30	2	2	65	1.15
47688709--47688750	22	2.0	22	85	4	59	64	2	2	30	1.19
47694200--47694238	2	19.5	2	100	0	78	48	0	0	51	1.00
47696393--47696563	91	1.8	92	86	3	245	38	16	7	38	1.76
47696504--47696635	69	1.9	68	84	1	174	31	20	6	40	1.79
47696716--47696839	67	1.9	65	90	6	196	44	4	8	41	1.57
47697106--47697145	20	2.0	20	85	4	55	32	2	2	62	1.22
47699185--47699210	8	3.2	8	100	0	52	0	23	0	76	0.78
47704230--47704272	15	2.9	15	79	3	52	48	46	2	2	1.27
47704906--47704946	21	1.9	22	85	5	57	41	0	7	51	1.30
47706884--47706917	17	1.9	17	88	5	50	35	0	8	55	1.31
47707561--47707605	16	2.8	16	89	0	72	37	4	26	31	1.76
47707562--47707615	16	3.4	16	84	5	65	38	1	25	33	1.67
47724500--47724536	16	2.3	17	81	13	51	54	0	5	40	1.24
47728029--47728055	5	5.4	5	100	0	54	18	0	0	81	0.69
47728029--47728062	15	2.3	15	89	0	50	17	2	0	79	0.86
47730443--47730493	19	2.6	19	88	11	77	60	0	0	39	0.97
47733670--47733696	2	13.5	2	100	0	54	51	0	0	48	1.00
47734292--47734345	23	2.4	21	75	22	56	66	7	3	22	1.33
47747369--47747408	2	20.0	2	100	0	80	50	0	0	50	1.00
47747413--47747490	3	26.0	3	77	14	72	29	2	2	65	1.19
47748496--47748559	22	2.9	22	75	11	67	40	6	1	51	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47748579--47748720	76	1.9	76	85	2	196	39	6	12	41	1.69
47750722--47750751	13	2.3	13	100	0	60	46	23	6	23	1.75
47754224--47754272	25	2.0	25	88	8	73	46	0	2	51	1.12
47754404--47754437	18	1.9	18	88	5	52	8	8	20	61	1.52
47755737--47755774	12	3.2	12	77	7	51	28	2	28	39	1.70
47755728--47755774	23	2.0	23	100	0	94	27	4	29	38	1.76
47755728--47755766	11	3.5	11	79	6	51	28	5	30	35	1.79
47755922--47756043	41	3.0	41	79	2	111	31	17	22	29	1.96
47756231--47756255	13	1.9	13	100	0	50	24	8	20	48	1.76
47762916--47763427	256	2.0	256	98	0	988	39	16	13	31	1.86
47770022--47770124	46	2.2	46	77	10	111	52	7	5	33	1.54
47771274--47771316	20	2.1	21	86	4	61	62	0	2	34	1.08
47776292--47776484	71	2.7	71	89	3	262	30	25	11	32	1.91
47776327--47776484	71	2.2	71	95	0	280	29	25	11	32	1.91
47779834--47779908	36	2.1	37	82	7	91	34	0	0	65	0.93
47779874--47779924	27	1.9	26	84	11	68	35	0	1	62	1.06
47784056--47784086	15	2.1	15	100	0	62	48	6	0	45	1.28
47784580--47784616	17	2.2	17	95	0	65	24	2	21	51	1.61
47785288--47785418	46	2.8	45	88	4	190	34	7	27	30	1.85
47792857--47792911	21	2.6	21	91	0	92	21	9	40	29	1.84
47796980--47797020	14	3.0	14	83	16	59	58	0	0	41	0.98
47796984--47797035	24	2.2	24	86	13	72	57	1	0	40	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47796980--47797035	14	4.3	13	80	13	53	57	1	0	41	1.09
47799859--47800020	42	3.9	42	81	2	175	19	21	17	40	1.91
47808013--47808104	45	2.0	45	100	0	184	42	13	4	40	1.63
47809582--47809650	19	3.5	20	73	13	70	50	1	1	46	1.19
47811716--47811770	27	2.1	26	83	10	67	41	0	3	54	1.18
47816468--47816565	48	2.0	48	98	0	187	28	25	20	25	1.99
47817561--47817625	32	2.1	31	91	8	105	46	12	10	30	1.76
47818507--47818609	42	2.5	41	88	4	152	38	15	25	20	1.92
47820720--47820791	33	2.2	32	85	11	94	40	2	6	50	1.44
47820877--47820944	18	3.7	19	74	18	63	38	0	5	55	1.24
47821098--47821154	25	2.2	25	84	9	71	66	3	28	1	1.18
47821299--47821356	29	2.0	29	80	12	66	31	1	25	41	1.66
47822009--47822035	2	13.5	2	100	0	54	48	0	0	51	1.00
47822491--47822571	22	3.5	22	78	9	74	41	18	24	14	1.88
47822485--47822619	25	5.6	25	76	11	115	39	19	24	17	1.92
47825611--47825695	9	9.4	9	90	0	107	23	7	25	43	1.79
47825619--47825695	18	4.3	18	89	0	118	23	7	25	42	1.81
47825611--47825696	27	3.2	27	88	0	127	23	6	25	44	1.78
47831398--47831461	20	3.2	20	77	4	67	23	4	28	43	1.73
47832780--47832808	13	2.3	13	94	5	51	68	0	0	31	0.89
47840756--47840825	26	2.9	23	83	10	70	14	24	21	40	1.90
47844783--47844827	9	5.1	9	82	15	58	53	4	0	42	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47851573--47851698	66	1.9	66	100	0	252	26	37	18	18	1.93
47851825--47851933	57	1.9	57	86	3	157	26	24	19	29	1.98
47855317--47855354	16	2.4	16	90	0	58	36	23	7	31	1.84
47856384--47856425	22	1.9	22	85	9	59	38	0	4	57	1.20
47856555--47856613	27	2.2	27	84	6	75	49	0	3	47	1.18
47858426--47858612	46	4.1	46	84	4	236	28	24	9	37	1.87
47859357--47859404	17	2.9	17	84	3	62	54	20	0	25	1.45
47860599--47860671	31	2.4	30	84	9	85	45	12	12	30	1.78
47867530--47867567	12	3.1	13	85	7	53	13	10	0	76	1.02
47870535--47870563	13	2.2	13	100	0	58	34	20	13	31	1.92

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