genome.fa.s8.2.7.7.80.10.50.1000.146.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  146  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)
42981603--42981909	34	9.1	34	70	13	195	39	15	15	29	1.89
42981579--42981821	68	3.6	67	79	8	224	38	15	15	30	1.89
42981639--42981837	102	2.0	102	87	6	287	39	16	14	30	1.88
42981669--42981894	68	3.3	68	80	6	224	39	15	15	28	1.89
42981603--42981890	102	2.8	102	81	4	280	38	15	15	29	1.89
42981594--42981924	68	4.9	68	77	6	217	38	16	14	30	1.88
42983777--42983823	17	2.8	17	80	6	60	65	0	0	34	0.93
42983774--42983823	25	2.0	25	81	14	59	62	0	0	38	0.96
42991863--42991912	25	2.0	25	88	0	73	42	20	26	12	1.86
42998786--42998826	15	2.7	15	88	7	57	68	7	14	9	1.39
42999316--42999381	25	2.6	26	69	7	64	43	18	19	18	1.88
43007895--43007951	20	2.8	22	85	15	79	49	5	0	45	1.24
43010195--43010222	13	2.2	13	100	0	56	28	0	21	50	1.49
43011467--43011586	37	3.2	37	71	17	120	37	5	19	38	1.73
43011451--43011613	76	2.1	77	84	6	215	37	6	18	38	1.76
43011809--43011903	41	2.3	41	94	0	172	30	21	23	25	1.99
43016528--43016600	38	1.9	38	94	0	128	24	19	34	21	1.96
43016566--43016733	50	3.4	48	81	7	169	27	22	26	23	1.99
43016605--43016733	48	2.6	49	83	8	165	28	21	25	24	1.99
43017217--43017696	23	20.6	23	72	7	324	41	16	15	26	1.88
43017237--43017711	47	10.1	47	70	12	257	41	16	15	26	1.87
43017217--43017711	70	7.1	69	87	5	654	41	15	15	27	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43017148--43017711	209	2.7	212	83	6	707	40	16	14	27	1.88
43017162--43017735	139	4.1	140	84	6	700	41	16	14	27	1.88
43017851--43017939	44	2.0	44	95	0	160	40	14	12	32	1.83
43018449--43018569	28	4.5	28	85	10	153	31	26	12	29	1.93
43018449--43018569	51	2.3	53	85	7	156	31	26	12	29	1.93
43025704--43025729	5	5.2	5	100	0	52	38	0	0	61	0.96
43033462--43033491	15	1.9	16	93	6	53	80	10	10	0	0.92
43034506--43034574	22	3.2	21	76	17	70	39	1	4	55	1.29
43034506--43034548	21	2.0	22	90	9	70	39	0	4	55	1.20
43034506--43034556	20	2.5	21	81	12	61	39	0	5	54	1.24
43037502--43037526	13	1.9	13	100	0	50	8	0	24	68	1.16
43038139--43038171	12	2.8	12	90	4	50	36	3	9	51	1.49
43038371--43038403	12	2.8	12	90	4	50	36	3	9	51	1.49
43038045--43038488	232	1.9	234	94	0	793	39	4	15	39	1.69
43038029--43038488	114	4.0	114	93	2	767	40	4	15	40	1.68
43038815--43038964	41	3.7	41	90	0	237	28	18	28	25	1.98
43049505--43049577	26	2.8	26	80	0	92	42	10	13	32	1.79
43052176--43052242	34	1.9	35	90	3	109	32	8	13	44	1.75
43056264--43056297	6	5.7	6	100	0	68	0	0	50	50	1.00
43059017--43059041	13	1.9	13	100	0	50	0	28	0	72	0.86
43076732--43076771	20	2.0	21	90	5	64	30	2	20	47	1.63
43083218--43083336	40	2.9	41	82	2	141	36	23	20	20	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43084672--43084778	20	5.8	18	70	22	62	53	4	1	40	1.33
43085473--43085528	27	2.1	27	89	0	85	57	3	7	32	1.43
43092226--43092266	21	1.9	22	85	5	57	68	0	26	4	1.10
43092262--43092294	14	2.2	16	89	10	52	60	0	15	24	1.35
43098744--43098841	3	32.7	3	95	0	178	33	32	0	33	1.58
43100096--43100128	16	2.1	16	94	0	57	24	27	12	36	1.91
43101430--43101677	125	2.0	124	92	2	417	46	15	7	31	1.73
43101974--43102056	38	2.2	39	82	6	98	49	1	0	49	1.08
43103941--43104031	2	46.5	2	74	8	53	54	2	4	38	1.32
43104070--43104106	19	1.9	19	88	0	56	62	8	2	27	1.37
43105807--43105933	45	2.7	46	72	14	107	31	23	14	29	1.95
43106114--43106539	220	1.9	217	88	1	636	26	24	20	28	1.99
43106883--43106935	24	2.2	24	86	0	70	28	24	15	32	1.95
43107406--43107611	108	1.9	108	86	0	295	45	11	17	25	1.81
43121024--43121068	24	1.9	23	82	13	56	48	24	6	20	1.73
43127565--43127707	33	4.3	33	68	10	101	25	25	16	32	1.96
43127470--43127709	101	2.4	101	92	0	390	27	25	16	31	1.96
43134861--43134895	9	3.8	9	92	7	61	0	11	0	88	0.51
43134861--43134896	10	3.7	10	88	3	56	0	11	0	88	0.50
43135905--43135971	29	2.4	29	80	9	77	76	0	4	19	0.96
43135904--43135964	12	5.6	11	83	11	65	75	0	4	19	0.98
43135912--43135971	17	3.6	16	77	18	68	78	0	3	18	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43135912--43135973	6	10.8	6	84	8	69	77	0	3	19	0.90
43139416--43139619	102	2.0	103	87	2	295	30	27	21	20	1.98
43144097--43144148	6	8.7	6	97	0	86	46	0	19	34	1.50
43146341--43146421	28	2.8	29	80	10	78	60	6	0	33	1.22
43154447--43154490	10	4.3	10	81	13	54	72	0	6	20	1.07
43154455--43154514	17	3.6	16	77	18	68	75	0	3	21	0.95
43154455--43154516	12	5.5	11	81	11	63	74	0	3	22	0.96
43154455--43154516	6	10.8	6	81	8	51	74	0	3	22	0.96
43157967--43158019	27	2.0	27	100	0	106	26	30	24	18	1.98
43157891--43158094	102	2.0	103	89	0	311	30	26	21	20	1.98
43158041--43158192	33	4.5	33	74	17	118	35	26	19	19	1.95
43157994--43158168	75	2.3	75	93	0	287	34	25	18	21	1.96
43157868--43158194	177	1.8	178	90	0	521	32	26	20	20	1.97
43161312--43161361	24	2.1	24	92	0	82	12	38	16	34	1.85
43169314--43169359	6	7.7	6	97	0	74	34	19	0	45	1.51
43169658--43170207	274	2.0	275	96	0	1012	32	15	13	38	1.86
43174429--43174481	6	8.8	6	91	0	61	32	24	0	43	1.55
43174429--43174481	18	2.9	18	82	0	70	32	24	0	43	1.55
43179280--43179319	6	6.7	6	97	0	62	35	20	0	45	1.51
43186825--43186858	6	5.7	6	96	0	50	35	20	0	44	1.52
43191656--43191695	6	6.7	6	97	0	62	35	20	0	45	1.51
43196491--43196536	6	7.7	6	97	0	74	34	19	0	45	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43223735--43223780	6	7.7	6	90	0	56	32	17	4	45	1.68
43227664--43227697	6	5.7	6	96	0	50	35	20	0	44	1.52
43231639--43231672	6	5.7	6	96	0	50	35	20	0	44	1.52
43235873--43235918	6	7.7	6	97	0	74	34	19	0	45	1.51
43242491--43242528	6	6.5	6	93	3	51	34	21	0	44	1.52
43246113--43246161	2	24.5	2	100	0	98	48	0	0	51	1.00
43249843--43249876	7	4.7	7	92	3	50	85	14	0	0	0.60
43249832--43249881	13	3.9	13	80	15	50	84	12	0	4	0.76
43249835--43249869	15	2.4	14	90	9	52	88	8	0	2	0.61
43250328--43250368	13	3.3	13	76	10	50	78	2	19	0	0.87
43251079--43251119	16	2.7	15	81	7	55	41	21	2	34	1.67
43251281--43251557	45	6.3	43	73	8	209	28	15	25	29	1.96
43251281--43251557	133	2.1	132	89	0	419	28	15	25	29	1.96
43251643--43252106	50	9.3	50	68	5	175	30	21	20	26	1.98
43251593--43252164	100	5.7	100	86	0	777	29	21	21	26	1.99
43251593--43252164	299	1.9	300	87	0	849	29	21	21	26	1.99
43252188--43253076	40	21.3	40	74	12	729	33	23	20	23	1.97
43252171--43253055	124	7.0	125	79	10	815	34	22	20	22	1.97
43252184--43253076	84	10.7	84	83	6	1109	33	23	20	23	1.97
43252177--43253189	84	12.1	83	84	5	1064	33	23	20	22	1.97
43253044--43253180	41	3.3	41	75	9	150	27	24	24	24	2.00
43253453--43253493	21	2.0	21	85	9	57	65	24	2	7	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43254866--43254902	2	18.5	2	100	0	74	48	0	0	51	1.00
43260795--43260856	31	2.0	31	100	0	124	22	25	16	35	1.94
43260808--43260860	15	3.5	15	72	23	56	24	26	13	35	1.92
43261156--43261223	23	3.1	22	75	16	61	23	0	13	63	1.30
43263162--43263200	2	19.5	2	100	0	78	51	0	48	0	1.00
43271404--43271461	29	2.0	30	83	12	77	8	24	0	67	1.18
43273448--43273503	21	2.6	22	80	11	62	53	1	1	42	1.21
43273485--43273518	16	2.1	16	94	0	59	47	0	8	44	1.34
43273529--43273668	59	2.4	59	97	0	262	38	4	10	47	1.57
43273774--43273819	24	1.9	24	91	8	76	60	2	0	36	1.09

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