genome.fa.s10.2.7.7.80.10.50.1000.15.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: At_chr6
Parameters: 2 7 7 80 10 50 1000
Length:  56482370

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   

This is table  15  of  172  ( 20562 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)
4730611--4730652	13	2.9	14	80	13	50	54	0	0	45	0.99
4730615--4730651	16	2.3	16	86	13	58	59	0	0	40	0.97
4730684--4730740	15	3.5	15	71	17	51	49	1	1	47	1.22
4731939--4732050	34	3.2	34	67	16	102	40	3	8	48	1.50
4733327--4733416	44	2.0	45	85	6	121	33	16	25	23	1.95
4739634--4739679	23	2.0	23	91	0	74	50	15	10	23	1.75
4740355--4740753	45	8.9	45	65	16	191	31	15	25	27	1.96
4740368--4741251	90	10.3	90	72	11	762	31	16	24	27	1.96
4740670--4741516	76	10.6	76	78	11	890	31	17	23	27	1.97
4740400--4741479	166	6.5	166	94	3	1792	31	16	24	27	1.97
4740746--4740880	45	3.0	45	65	12	114	34	16	22	27	1.95
4740777--4740919	45	3.2	44	70	11	128	32	16	24	25	1.96
4740912--4741046	45	3.0	45	65	12	114	34	16	22	27	1.95
4740943--4741085	45	3.2	44	70	11	128	32	16	24	25	1.96
4740836--4741516	242	2.9	232	86	8	937	30	17	23	27	1.97
4741078--4741212	45	3.0	45	65	12	114	34	16	22	27	1.95
4741109--4741251	45	3.2	44	70	11	128	32	16	24	25	1.96
4741472--4741748	45	6.2	45	70	14	212	32	15	24	27	1.95
4741503--4741769	90	3.0	90	92	0	435	31	15	25	27	1.96
4741950--4741989	17	2.4	17	86	0	53	72	22	0	5	1.04
4741959--4741991	17	1.9	17	93	0	57	69	21	0	9	1.15
4745594--4745627	16	2.1	16	88	0	50	50	14	17	17	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4748429--4748469	21	2.0	21	90	0	64	29	21	29	19	1.98
4750375--4750408	16	2.1	16	88	0	50	50	14	17	17	1.79
4756162--4756268	42	2.5	42	84	0	124	19	21	14	43	1.87
4756513--4756537	11	2.3	11	100	0	50	60	16	16	8	1.58
4756715--4756739	13	1.9	13	100	0	50	16	32	44	8	1.76
4760866--4760938	36	2.0	36	100	0	146	21	21	8	47	1.76
4763571--4763595	12	2.1	12	100	0	50	56	0	8	36	1.29
4767165--4767323	83	1.9	83	100	0	318	30	28	17	23	1.97
4781723--4781764	12	3.5	12	83	9	59	30	42	19	7	1.78
4784433--4784706	66	4.2	66	99	0	539	44	14	24	16	1.85
4785164--4785410	126	1.9	126	84	1	323	34	25	13	26	1.93
4788560--4788657	49	2.0	49	97	0	187	38	13	6	41	1.69
4792828--4792902	31	2.4	30	82	8	96	41	0	5	53	1.24
4793663--4793702	20	2.0	20	85	0	53	40	7	15	37	1.75
4796196--4796224	11	2.7	11	94	5	51	82	0	0	17	0.66
4800644--4800672	11	2.7	11	94	5	51	82	0	0	17	0.66
4805267--4805335	31	2.2	31	87	5	95	36	21	13	28	1.91
4807659--4807710	21	2.4	21	72	15	52	55	25	11	7	1.61
4814745--4814782	14	2.6	15	83	8	51	42	13	5	39	1.66
4815636--4815686	9	5.6	9	77	13	50	66	3	0	29	1.09
4824058--4824093	18	2.0	19	89	10	58	55	5	5	33	1.46
4838932--4838977	17	2.8	17	78	15	51	15	4	4	76	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4850307--4850400	25	3.8	25	72	2	91	34	18	26	21	1.96
4850312--4850416	50	2.1	50	94	0	183	32	17	25	24	1.97
4850339--4850422	25	3.4	25	68	6	71	33	17	26	22	1.96
4850455--4850500	24	1.9	24	86	0	65	32	26	28	13	1.93
4850961--4851012	26	2.0	26	100	0	104	30	26	3	38	1.74
4851636--4851663	13	2.2	13	100	0	56	21	14	0	64	1.29
4852630--4852694	30	2.2	31	94	5	116	56	12	7	23	1.61
4857858--4858120	76	3.5	75	81	4	305	36	20	22	20	1.95
4858147--4858194	20	2.4	20	92	0	78	39	25	0	35	1.56
4864966--4865022	28	2.0	28	96	0	105	36	17	24	21	1.94
4867425--4867462	6	6.3	6	100	0	76	15	0	0	84	0.63
4877562--4877632	27	2.7	26	84	4	97	25	16	18	39	1.91
4878389--4878424	18	2.1	17	94	5	63	22	22	16	38	1.93
4877716--4878511	400	2.0	393	90	2	1263	25	16	25	33	1.96
4880179--4880210	6	5.5	6	96	3	57	0	15	0	84	0.63
4883281--4883343	26	2.3	26	83	5	72	34	26	9	28	1.88
4883449--4883589	27	5.2	26	83	6	174	17	24	24	34	1.95
4883449--4883589	54	2.6	54	90	2	221	17	24	24	34	1.95
4884589--4884642	27	2.0	27	100	0	108	33	7	29	29	1.85
4888032--4888081	21	2.3	22	80	13	59	28	34	0	38	1.57
4890186--4890238	20	2.7	19	76	5	61	43	11	9	35	1.73
4894971--4895071	51	2.0	50	94	1	175	19	7	11	60	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4905052--4905275	104	2.2	104	93	1	378	31	31	19	17	1.95
4912029--4912295	104	2.6	104	92	1	428	30	30	19	19	1.96
4912624--4912687	30	2.2	29	81	10	76	29	28	6	35	1.82
4912631--4912687	30	1.9	30	85	3	80	29	24	7	38	1.82
4917013--4917079	18	3.6	18	73	15	64	50	17	2	28	1.61
4917013--4917079	9	7.2	9	71	6	53	50	17	2	28	1.61
4917812--4917858	23	2.0	23	100	0	94	23	4	29	42	1.73
4920779--4920813	17	1.9	19	88	11	56	65	11	2	20	1.37
4920882--4920917	10	3.6	10	84	0	54	77	2	2	16	1.00
4937236--4937278	20	2.3	19	88	11	63	62	9	6	20	1.48
4937499--4937537	20	2.0	20	90	5	62	48	10	12	28	1.74
4945813--4945863	23	2.2	23	100	0	102	43	0	3	52	1.19
4946339--4946414	38	2.0	39	82	7	93	44	23	3	27	1.71
4955549--4955600	11	4.7	11	76	6	52	53	0	21	25	1.45
4961192--4961225	17	2.0	17	100	0	68	35	0	11	52	1.38
4961614--4961692	18	4.3	19	73	17	60	25	5	17	51	1.65
4961477--4961692	56	3.8	56	77	7	211	25	8	15	50	1.73
4971443--4971472	15	1.9	16	93	6	53	16	6	10	66	1.41
4978462--4978569	26	4.2	26	90	0	171	33	6	23	37	1.80
4980166--4980306	27	5.2	27	81	11	173	18	24	22	34	1.96
4980163--4980306	54	2.7	54	93	2	236	18	24	22	34	1.96
4980166--4980324	81	2.0	80	83	10	200	19	23	22	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4982484--4982526	19	2.3	19	96	4	79	34	0	39	25	1.56
4985431--4985486	26	2.2	26	96	0	103	30	7	25	37	1.82
4987084--4987170	27	3.2	27	84	9	115	18	24	22	34	1.96
4994518--4994679	86	1.9	86	81	7	195	34	22	16	27	1.95
5001196--5001308	42	2.6	43	75	6	122	34	23	15	26	1.95
5001188--5001336	43	3.5	42	78	7	122	33	24	17	24	1.96
5004460--5004511	27	1.9	27	100	0	104	30	23	3	42	1.72
5006274--5006341	26	2.6	26	77	9	66	20	33	20	25	1.97
5006365--5006465	27	3.7	27	83	0	130	25	39	19	14	1.90
5016370--5016394	12	2.1	12	100	0	50	16	0	0	84	0.63
5017638--5017668	16	1.9	16	93	0	53	35	22	12	29	1.91
5023394--5023481	24	3.7	23	75	15	74	13	19	23	43	1.87
5023352--5023484	47	2.7	48	75	12	119	16	20	21	41	1.90
5035154--5035192	5	7.8	5	94	0	69	38	20	2	38	1.66
5036276--5036683	206	2.0	204	85	2	559	36	20	19	24	1.95
5046230--5046258	9	3.2	9	100	0	58	41	0	0	58	0.98
5046244--5046290	22	2.2	20	82	10	58	44	2	0	53	1.12
5048104--5048205	50	2.0	50	98	0	195	41	5	11	41	1.66
5052235--5052359	58	2.1	60	82	2	155	32	16	15	36	1.89
5055423--5055460	18	2.1	18	85	9	51	63	2	2	31	1.22
5057435--5057477	22	2.0	22	95	0	77	34	27	25	11	1.91
5057577--5057632	21	2.7	21	74	0	58	21	39	25	14	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5058153--5058216	23	2.6	25	80	7	78	73	9	15	1	1.16
5058199--5058243	16	2.8	16	93	3	72	86	0	8	4	0.69
5058198--5058249	23	2.3	23	83	6	70	84	3	7	3	0.85
5059045--5059100	23	2.6	21	81	10	67	58	1	3	35	1.26
5063568--5063600	17	1.9	17	100	0	66	48	18	18	15	1.81
5065892--5065939	25	1.9	25	86	0	69	22	22	16	37	1.94
5068604--5068649	21	2.2	20	80	3	56	32	2	2	63	1.19
5072758--5072848	19	4.9	19	88	8	134	36	14	12	37	1.83
5072758--5072848	35	2.5	37	87	8	132	36	14	12	37	1.83
5072772--5072827	17	3.5	15	88	9	60	35	14	12	37	1.84

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