genome.fa.s10.2.7.7.80.10.50.1000.17.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  17  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)
5153523--5153617	47	2.0	47	97	0	181	34	14	26	24	1.94
5158462--5158516	21	2.4	23	85	8	69	58	10	1	29	1.43
5158820--5158871	8	6.6	8	78	12	63	57	0	5	36	1.23
5158891--5158924	16	2.1	16	94	0	59	50	5	8	35	1.58
5159983--5160009	4	6.8	4	100	0	54	77	0	0	22	0.76
5160852--5161173	50	6.4	50	69	0	221	26	20	20	32	1.97
5160852--5161173	100	3.2	100	92	0	500	26	20	20	32	1.97
5161049--5161189	50	2.8	50	70	4	122	29	20	19	31	1.97
5160852--5161221	100	3.7	100	88	0	481	26	20	20	32	1.97
5160896--5161259	100	3.6	100	86	0	307	25	21	20	32	1.97
5161200--5161509	125	2.5	125	88	4	448	23	20	22	33	1.97
5161384--5161510	50	2.5	50	79	0	119	25	21	20	32	1.98
5161385--5161679	100	3.0	98	82	3	322	23	22	23	30	1.99
5161443--5161679	98	2.4	99	84	1	296	21	23	24	30	1.99
5161516--5161663	49	3.0	50	71	4	147	22	23	25	29	1.99
5161777--5162209	86	5.1	86	88	2	615	25	23	20	30	1.99
5161777--5162209	171	2.5	171	89	3	633	25	23	20	30	1.99
5163386--5163435	14	3.5	14	83	2	64	14	14	0	72	1.14
5163434--5163461	3	9.3	3	100	0	56	0	32	0	67	0.91
5168510--5168564	21	2.4	23	85	8	69	58	10	1	29	1.43
5170106--5170132	4	6.8	4	100	0	54	77	0	0	22	0.76
5173480--5173520	13	3.2	13	80	19	59	53	4	0	41	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5185054--5185107	25	2.2	24	75	15	58	44	5	42	7	1.55
5186631--5186656	3	8.7	3	100	0	52	34	30	34	0	1.58
5189141--5189182	23	1.9	22	85	9	59	38	7	4	50	1.51
5190570--5190623	19	2.8	20	72	16	58	57	7	0	35	1.27
5198155--5198194	11	3.6	11	79	0	53	20	15	7	57	1.61
5198235--5198294	30	2.0	30	96	0	111	25	3	15	56	1.54
5199435--5199540	55	1.9	55	84	3	142	39	15	18	26	1.90
5203437--5203483	23	2.0	23	91	0	76	19	19	14	46	1.84
5203872--5203934	16	4.1	17	67	23	57	36	3	0	60	1.13
5209390--5209482	3	31.0	3	100	0	186	66	0	33	0	0.92
5213156--5213410	135	1.9	135	82	0	321	37	20	14	27	1.91
5216616--5216646	6	5.2	6	100	0	62	16	0	51	32	1.44
5217156--5217207	20	2.7	19	81	3	59	61	17	13	7	1.54
5223930--5224028	28	3.5	28	68	13	67	59	3	4	33	1.31
5223993--5224060	24	2.9	25	81	14	83	63	0	1	35	1.04
5225845--5225896	6	8.7	6	91	0	77	51	34	11	1	1.49
5225841--5225896	18	3.1	18	89	0	85	53	33	10	1	1.46
5227916--5227995	30	2.5	30	80	11	72	42	2	6	48	1.41
5231095--5231119	5	5.0	5	100	0	50	40	0	0	60	0.97
5231807--5231831	12	2.1	12	100	0	50	8	24	36	32	1.84
5231943--5232543	114	5.3	113	88	1	853	21	22	24	30	1.99
5233061--5233095	15	2.4	14	85	4	52	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5233097--5233137	7	5.9	7	83	11	57	17	0	43	39	1.49
5233119--5233373	93	2.8	91	84	6	340	27	2	25	45	1.66
5233356--5233394	15	2.7	15	84	4	53	7	0	43	48	1.31
5233408--5233447	18	2.2	19	86	8	57	35	7	22	35	1.82
5236087--5236183	38	2.7	35	76	14	115	50	13	1	35	1.48
5236065--5236341	126	2.2	121	94	3	482	48	11	3	36	1.56
5236178--5236304	34	3.8	34	80	11	138	47	12	2	37	1.55
5236243--5236349	56	1.9	56	84	3	144	44	12	3	39	1.60
5236275--5236326	22	2.4	22	83	0	77	46	11	3	38	1.59
5236440--5236523	31	2.6	32	81	11	91	50	10	2	36	1.50
5236466--5236579	56	2.0	56	86	5	158	47	10	1	40	1.48
5236494--5236545	22	2.4	22	90	0	86	46	11	0	42	1.40
5236522--5236634	34	3.1	34	76	14	136	45	9	3	41	1.54
5236566--5236789	9	24.7	9	66	17	72	42	16	3	38	1.64
5236556--5236701	22	7.1	21	68	22	96	43	14	1	40	1.54
5236648--5236678	16	1.9	16	100	0	62	41	25	0	32	1.56
5236662--5236781	35	3.6	34	76	5	111	42	15	4	37	1.67
5236662--5236754	22	4.2	22	67	15	66	44	15	3	37	1.62
5236513--5236754	82	3.1	77	86	10	318	43	13	2	39	1.59
5242293--5242419	66	1.9	66	90	3	202	42	16	24	16	1.88
5242293--5242440	66	2.2	66	85	2	190	42	17	23	16	1.88
5242293--5242462	66	2.6	66	83	1	171	41	17	26	14	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5242453--5242545	21	4.4	21	77	0	105	34	15	44	6	1.72
5242917--5243258	43	8.0	43	75	6	176	23	21	26	27	1.99
5242917--5243258	86	4.0	86	75	4	219	23	21	26	27	1.99
5243681--5243759	39	2.0	40	87	5	115	51	10	0	37	1.36
5246607--5246690	34	2.5	34	73	7	89	34	7	3	54	1.45
5248635--5248674	19	2.0	20	85	4	55	25	20	7	47	1.75
5250518--5250557	19	2.1	19	86	9	55	15	17	5	62	1.49
5251496--5251541	7	6.6	7	81	18	60	67	0	17	15	1.24
5252768--5252960	45	4.3	45	76	7	189	29	17	25	27	1.97
5252768--5252960	89	2.2	89	89	1	289	29	17	25	27	1.97
5252953--5253741	44	17.9	44	68	6	330	28	19	24	26	1.98
5253724--5253870	44	3.3	44	67	8	109	30	22	23	23	1.99
5252952--5253716	132	5.8	132	93	0	1230	28	19	24	27	1.99
5256632--5256668	17	2.2	17	100	0	74	48	0	16	35	1.46
5259706--5259733	11	2.5	11	100	0	56	25	0	0	75	0.81
5259910--5259957	20	2.3	20	79	10	53	41	2	2	54	1.24
5269618--5269658	2	20.5	2	100	0	82	51	0	0	48	1.00
5278509--5278552	21	2.0	21	82	8	52	50	4	2	43	1.35
5281698--5281914	101	2.2	100	87	3	301	30	23	11	33	1.91
5281691--5281880	33	5.7	33	69	13	104	30	24	11	33	1.91
5284557--5284638	35	2.3	36	83	8	96	46	1	4	47	1.31
5284550--5284646	24	4.1	23	72	23	62	47	1	4	47	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5284935--5284985	3	17.0	3	95	0	93	33	1	0	64	1.05
5286365--5286465	45	2.2	45	85	0	130	21	17	20	39	1.92
5286634--5286658	2	12.5	2	100	0	50	52	0	0	48	1.00
5288471--5288582	55	2.0	55	100	0	224	29	14	16	40	1.87
5289045--5289153	17	6.5	17	69	3	69	22	8	24	44	1.80
5289105--5289200	33	2.8	32	76	6	84	22	12	23	40	1.88
5295457--5295555	50	2.0	50	91	0	162	39	8	20	32	1.82
5313750--5313789	3	13.3	3	100	0	80	32	0	0	67	0.91
5321872--5321901	14	2.1	14	93	0	51	36	0	13	50	1.42
5332827--5332873	24	2.0	24	83	4	60	40	10	8	40	1.70
5338640--5338683	22	2.0	22	90	0	70	11	20	25	43	1.85
5338777--5339053	43	6.3	43	86	7	369	32	24	17	25	1.97
5338958--5339052	49	1.9	49	97	0	181	31	24	17	26	1.97
5343540--5343921	148	2.6	144	90	5	595	25	14	13	45	1.82
5343852--5343892	20	2.0	20	85	0	55	24	0	4	70	1.06
5344572--5344620	14	3.4	14	84	15	57	34	44	0	20	1.52
5344582--5344623	15	2.8	16	89	10	63	38	45	0	16	1.48
5345184--5345363	73	2.5	72	92	1	288	26	23	22	27	2.00
5345276--5345588	113	2.8	112	86	5	443	27	25	22	24	2.00
5345883--5345908	2	13.0	2	100	0	52	50	0	0	50	1.00
5353226--5353277	19	2.8	19	76	2	61	61	1	1	34	1.18
5363662--5363764	27	3.8	27	87	2	136	19	16	23	40	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5363662--5363768	54	2.0	54	87	3	153	19	16	22	41	1.90
5363662--5363791	27	4.8	27	85	0	134	20	16	21	42	1.89
5374513--5374593	37	2.2	39	82	10	98	35	17	17	29	1.93
5375453--5375496	16	2.6	17	85	3	63	0	27	4	68	1.09
5375536--5375687	5	30.4	5	98	0	295	59	0	0	39	1.02
5375669--5375742	38	1.9	38	86	5	105	40	4	4	51	1.40
5378403--5378521	33	3.4	35	67	13	84	63	11	6	17	1.48
5382034--5382093	15	4.1	15	80	8	70	35	41	8	15	1.77
5382281--5382323	16	2.8	16	85	3	61	16	4	4	74	1.16
5384981--5385011	15	2.0	15	93	6	53	35	0	0	64	0.94

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