genome.fa.s20.2.7.7.80.10.50.1000.18.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_chr2
Parameters: 2 7 7 80 10 50 1000
Length:  61750188

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   

This is table  18  of  186  ( 22216 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)
5494915--5495180	79	3.2	80	85	9	374	57	12	0	29	1.37
5494994--5495263	61	4.3	60	68	14	188	57	12	0	29	1.35
5494994--5495164	88	2.0	87	92	1	288	58	11	0	29	1.34
5495149--5495201	21	2.6	21	88	5	74	56	13	0	30	1.37
5495079--5495303	100	2.2	101	92	0	371	57	12	0	29	1.39
5495314--5495383	27	2.6	27	90	0	113	18	30	21	30	1.97
5495342--5495671	173	1.9	174	93	0	572	30	19	12	37	1.89
5496712--5496750	15	2.4	16	87	12	53	69	0	28	2	1.02
5497459--5497543	31	2.7	32	76	15	88	41	0	2	56	1.12
5499129--5499232	20	5.0	20	68	20	54	33	2	1	61	1.22
5499128--5499232	21	5.0	21	70	20	76	33	2	1	61	1.21
5499198--5499272	21	3.9	20	74	25	81	41	4	0	54	1.19
5499192--5499270	35	2.3	35	95	0	149	41	3	0	54	1.18
5505024--5505068	22	2.1	21	83	4	54	44	0	33	22	1.53
5505743--5505778	18	2.0	18	94	0	63	30	16	19	33	1.94
5507620--5507667	11	4.4	11	81	0	60	62	6	10	20	1.49
5517546--5517614	31	2.2	31	87	5	95	39	14	10	36	1.80
5519690--5519714	3	8.3	3	100	0	50	68	0	0	32	0.90
5524853--5524888	9	4.0	9	85	0	54	11	2	30	55	1.49
5529672--5529721	24	2.0	24	88	7	73	70	4	0	26	1.05
5531006--5531136	57	2.3	58	81	9	160	51	4	16	27	1.64
5531979--5532011	16	2.1	16	100	0	66	18	6	33	42	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5535673--5535723	3	17.3	3	95	4	95	64	0	35	0	0.94
5545578--5545606	14	2.0	15	93	6	51	55	13	3	27	1.55
5548982--5549603	23	26.7	23	70	15	295	42	18	13	25	1.87
5548974--5549634	93	7.1	93	93	0	1135	42	18	13	26	1.87
5549971--5550097	28	4.5	28	89	0	182	30	26	11	30	1.92
5556367--5556615	23	10.7	23	70	17	119	42	18	13	25	1.87
5556359--5556646	93	3.1	93	94	0	504	41	18	13	27	1.87
5557385--5557511	28	4.5	28	89	0	182	30	26	11	30	1.92
5558116--5558183	9	7.4	9	83	9	84	39	26	10	23	1.87
5558325--5558354	13	2.3	13	94	0	51	20	0	40	40	1.52
5560322--5560824	230	2.2	231	81	7	580	30	19	21	28	1.97
5560449--5560807	115	3.1	115	88	0	547	30	18	21	29	1.97
5561759--5561903	71	2.0	71	95	0	263	48	8	8	33	1.64
5562483--5562573	45	2.0	45	91	0	146	23	31	8	36	1.85
5563170--5563228	23	2.6	23	100	0	118	47	11	13	27	1.78
5564245--5564279	15	2.3	15	100	0	70	48	0	5	45	1.26
5564354--5564403	18	2.9	17	85	8	66	38	18	2	42	1.61
5564457--5564494	19	2.0	19	94	0	67	44	0	0	55	0.99
5564499--5564699	24	9.3	22	65	23	65	47	19	1	30	1.60
5564616--5564692	24	3.6	21	73	14	68	51	19	1	27	1.54
5564630--5564791	12	13.8	12	68	13	79	51	19	1	28	1.54
5564623--5564691	24	3.0	24	87	8	92	53	17	1	27	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5564776--5564826	19	2.7	19	88	11	86	50	17	0	31	1.46
5564776--5564914	9	15.9	9	76	16	107	47	20	2	29	1.62
5564811--5564914	25	4.1	25	80	4	127	46	22	2	28	1.66
5573766--5573834	21	3.3	21	85	0	93	36	20	42	1	1.61
5574254--5574345	42	2.2	42	84	5	114	28	20	22	28	1.99
5574254--5574456	43	4.8	42	84	6	148	27	22	21	29	1.99
5574267--5574578	42	7.4	41	84	6	317	26	21	20	31	1.98
5578960--5578994	18	1.9	18	88	0	52	54	20	0	25	1.45
5579113--5579155	3	14.3	3	85	0	59	32	30	0	37	1.58
5583802--5583971	43	4.0	42	79	11	177	22	18	28	31	1.97
5584132--5584163	16	1.9	17	93	6	57	40	0	21	37	1.54
5593241--5593269	12	2.4	12	100	0	58	34	6	13	44	1.71
5601330--5601355	6	4.3	6	100	0	52	19	34	15	30	1.93
5607241--5607591	126	2.8	123	90	3	560	28	15	22	33	1.95
5610622--5611138	115	4.5	115	99	0	1016	44	8	9	37	1.67
5611133--5611247	29	4.1	29	81	16	134	31	0	23	45	1.53
5611177--5611219	23	2.0	21	95	4	68	30	0	20	48	1.50
5611136--5611445	103	3.0	102	84	10	411	28	0	24	46	1.56
5611223--5611268	22	2.2	20	88	11	67	26	0	28	45	1.54
5611174--5611435	74	3.5	74	84	6	382	28	0	25	45	1.56
5611252--5611401	23	5.6	29	73	25	118	30	0	22	47	1.56
5614432--5614475	19	2.3	20	84	7	56	27	20	11	40	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5617059--5617088	8	3.6	8	91	8	51	73	13	0	13	1.10
5619200--5619463	86	3.0	88	86	4	349	31	23	21	23	1.98
5619556--5619809	44	5.8	44	73	7	187	29	20	23	27	1.99
5619648--5619808	87	1.9	87	82	2	207	30	20	22	26	1.98
5619766--5619869	54	1.9	54	92	0	172	37	16	18	27	1.92
5621684--5621708	12	2.1	12	100	0	50	20	8	0	72	1.10
5623608--5623648	21	2.0	21	90	0	64	34	17	26	21	1.95
5625739--5625888	67	2.2	67	81	8	171	32	17	28	21	1.96
5625763--5625946	67	2.8	64	77	8	194	29	17	29	22	1.97
5630219--5630298	38	2.1	38	90	0	124	20	22	28	28	1.98
5630291--5630402	43	2.6	43	97	0	206	9	27	33	29	1.89
5630733--5630859	45	2.9	45	83	8	147	24	22	29	23	1.99
5638956--5638986	12	2.6	12	100	0	62	6	32	22	38	1.80
5643832--5643856	7	3.6	7	100	0	50	76	0	0	24	0.80
5649455--5649499	14	3.3	13	79	11	54	20	0	26	53	1.46
5649658--5649687	14	2.1	14	100	0	60	20	0	23	56	1.42
5649714--5649763	8	6.6	8	78	17	54	24	0	42	34	1.55
5649712--5649763	15	3.5	14	82	10	59	23	0	40	36	1.55
5649862--5649920	21	2.8	21	76	0	64	16	1	37	44	1.59
5649862--5649920	14	4.2	14	77	0	64	16	1	37	44	1.59
5653681--5653744	32	2.0	32	96	0	119	21	15	26	35	1.94
5655009--5655037	15	1.9	15	100	0	58	24	6	20	48	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5663163--5663206	21	2.1	21	95	0	79	20	22	56	0	1.42
5665547--5665582	18	1.9	19	88	5	56	33	13	19	33	1.91
5665977--5666299	129	2.5	128	82	3	391	38	18	17	25	1.93
5669847--5670084	131	1.8	130	87	0	350	31	17	16	34	1.92
5672746--5672865	51	2.4	51	91	2	188	25	22	12	39	1.89
5677786--5677830	23	2.0	23	100	0	90	48	8	0	42	1.34
5677787--5677836	23	2.2	23	92	0	82	52	10	0	38	1.35
5685689--5685763	37	2.0	37	92	0	123	34	10	8	46	1.68
5686704--5686778	38	2.0	38	97	0	141	46	42	2	8	1.47
5688349--5688392	22	2.0	22	82	8	54	34	6	2	56	1.38
5701241--5701323	38	2.2	37	87	6	121	50	38	2	8	1.46
5702915--5702948	17	2.0	17	100	0	68	17	5	11	64	1.45
5702997--5703064	22	3.2	22	74	14	54	33	7	4	54	1.48
5714917--5714946	12	2.5	12	100	0	60	36	13	6	43	1.70
5715790--5715816	4	6.8	4	100	0	54	77	0	0	22	0.76
5722877--5722958	41	2.0	41	100	0	164	21	9	19	48	1.77
5723982--5724141	45	3.4	45	65	20	119	29	17	23	29	1.97
5723948--5724143	97	2.0	95	96	1	356	30	18	22	29	1.97
5733095--5733132	20	1.9	20	84	10	51	39	15	5	39	1.70
5733423--5733545	38	3.2	38	90	2	185	30	24	21	22	1.99
5744324--5744431	56	1.9	56	86	0	153	45	14	8	31	1.75
5749159--5749221	28	2.3	27	78	13	65	30	6	1	61	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5749297--5749339	20	2.2	20	87	8	61	34	11	0	53	1.37
5750436--5750477	18	2.3	18	88	8	59	52	0	0	47	1.00
5754339--5754364	12	2.2	12	100	0	52	61	0	0	38	0.96
5754389--5754442	6	8.5	6	81	6	54	14	5	1	77	1.03
5766092--5766150	30	2.0	30	90	6	93	61	8	0	30	1.26
5772542--5772663	3	40.3	3	84	4	75	66	0	10	22	1.27
5784538--5784756	68	3.2	68	98	0	420	30	24	19	26	1.98
5792683--5792853	3	57.3	3	98	1	335	67	0	0	32	0.91
5793254--5793284	12	2.7	12	95	5	55	90	0	3	6	0.55
5793464--5793492	8	3.8	8	95	4	51	82	0	6	10	0.83

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