genome.fa.s10.2.7.7.80.10.50.1000.14.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  14  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)
4412746--4412835	28	3.1	28	76	6	81	47	16	16	18	1.82
4419601--4419646	23	2.0	22	84	12	58	26	0	8	65	1.21
4420044--4420081	11	3.5	11	79	13	51	76	2	2	18	1.02
4420318--4420374	30	1.9	30	86	10	82	42	3	5	49	1.42
4426224--4426986	382	2.0	382	99	0	1517	30	15	18	36	1.91
4429532--4429579	20	2.4	20	83	10	62	39	10	0	50	1.37
4429535--4429578	21	2.1	21	87	4	63	36	11	0	52	1.38
4429799--4429855	25	2.2	25	84	9	71	49	0	5	45	1.24
4431635--4431673	3	13.0	3	100	0	78	0	33	0	66	0.92
4440209--4440261	9	5.5	10	78	14	58	58	1	1	37	1.20
4440315--4440348	13	2.5	13	90	4	50	29	5	0	64	1.17
4440319--4440350	13	2.5	13	95	5	57	28	6	0	65	1.16
4452252--4452281	3	10.0	3	100	0	60	66	0	33	0	0.92
4456853--4456926	27	2.8	26	87	6	112	39	22	17	20	1.92
4457529--4457563	16	2.2	16	100	0	70	11	22	11	54	1.68
4460030--4460107	37	2.1	37	95	2	140	26	2	15	55	1.53
4460665--4460780	43	2.7	45	82	7	134	25	16	25	31	1.96
4460787--4460832	24	1.9	24	100	0	92	47	13	17	21	1.81
4467180--4467356	47	3.8	47	80	12	220	21	20	28	29	1.98
4469390--4469466	39	2.0	39	89	0	118	48	6	14	31	1.69
4474327--4474386	28	2.2	27	78	3	66	26	20	21	31	1.98
4475095--4475152	4	14.0	4	81	15	57	72	0	25	1	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4478295--4478414	54	2.2	54	82	5	154	26	25	28	20	1.99
4481965--4482006	22	1.9	22	90	0	66	40	11	11	35	1.79
4494610--4494736	66	1.9	66	90	0	200	20	29	25	25	1.99
4495518--4495560	16	2.6	16	81	7	50	32	23	6	37	1.82
4500191--4500299	49	2.3	49	83	3	141	28	14	18	38	1.90
4504795--4504834	16	2.4	16	87	4	53	47	2	0	50	1.14
4511545--4511598	27	2.0	27	100	0	108	29	14	7	48	1.71
4513762--4513814	28	2.0	27	82	17	67	64	5	1	28	1.27
4514862--4514887	13	2.0	13	100	0	52	38	0	23	38	1.55
4518163--4518187	9	2.8	9	100	0	50	56	20	0	24	1.43
4531165--4531364	35	5.8	34	76	8	163	42	21	9	28	1.83
4531154--4531285	70	1.9	69	89	4	203	41	18	9	30	1.82
4531165--4531364	104	1.9	103	81	6	242	42	21	9	28	1.83
4531368--4531460	43	2.2	43	96	0	168	36	19	11	32	1.88
4534117--4534169	23	2.4	22	76	20	56	9	18	1	69	1.25
4548503--4548534	13	2.5	13	94	0	55	43	18	12	25	1.85
4552382--4552746	47	7.7	49	77	9	321	26	18	30	24	1.98
4554333--4554362	12	2.5	12	100	0	60	0	40	26	33	1.57
4561211--4561243	14	2.4	14	100	0	66	33	45	15	6	1.70
4571235--4571526	43	6.8	43	79	6	272	17	37	30	14	1.89
4571240--4571529	85	3.4	84	82	5	323	17	37	30	14	1.90
4571220--4571483	128	2.1	128	82	5	309	18	39	29	13	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4571637--4572532	43	21.0	43	73	8	679	19	32	30	17	1.95
4571685--4571991	42	7.2	42	75	6	323	21	29	30	18	1.97
4571648--4572532	85	10.4	85	87	4	1061	20	32	30	17	1.95
4571648--4572532	341	2.6	338	84	4	1109	20	32	30	17	1.95
4571729--4572533	426	1.9	426	87	2	1177	19	32	30	17	1.95
4572543--4572608	24	2.8	24	90	0	96	18	34	37	9	1.82
4574478--4574768	42	6.9	42	76	9	263	20	32	27	18	1.97
4577216--4577278	32	2.0	32	96	0	117	28	36	20	14	1.92
4577343--4577401	30	2.0	30	96	0	109	15	33	25	25	1.95
4578640--4579464	43	19.3	41	77	5	563	18	34	31	15	1.92
4578663--4579456	213	3.7	212	82	4	841	17	34	32	15	1.92
4578643--4579481	298	2.8	298	92	1	1317	17	34	31	15	1.92
4578660--4579481	85	9.6	84	82	4	785	17	33	32	16	1.92
4584628--4584741	56	2.0	57	94	3	203	34	23	13	28	1.92
4585835--4586023	94	2.0	94	98	0	369	21	24	13	40	1.89
4585851--4586047	94	2.1	94	86	3	272	22	27	11	38	1.88
4587124--4587294	85	2.0	85	98	0	333	27	22	20	29	1.98
4591458--4591525	24	3.0	23	83	8	86	23	20	16	39	1.91
4592747--4593243	85	5.8	84	79	4	333	17	34	30	16	1.93
4592729--4592977	128	1.9	128	81	5	297	17	37	30	14	1.90
4592866--4593283	128	3.3	127	80	6	511	17	33	31	18	1.94
4592745--4593283	43	12.6	43	79	4	450	17	34	30	17	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4596129--4596348	39	5.6	39	83	4	282	33	31	18	16	1.93
4596129--4596348	117	1.9	117	88	3	336	33	31	18	16	1.93
4599487--4599530	21	2.0	22	86	4	63	65	2	2	29	1.16
4607396--4607425	7	4.3	7	100	0	60	26	0	13	60	1.34
4622085--4622176	35	2.6	35	82	3	105	25	19	16	39	1.92
4630745--4630774	9	3.3	9	100	0	60	36	33	20	10	1.86
4632234--4632267	13	2.6	13	90	0	50	32	5	14	47	1.69
4635355--4635619	103	2.6	104	89	3	408	30	29	20	19	1.97
4635947--4636011	30	2.2	29	81	8	76	30	27	6	35	1.81
4635954--4636011	30	1.9	30	85	0	80	31	24	6	37	1.82
4637680--4637758	22	3.7	21	73	13	72	39	8	1	50	1.42
4644017--4644057	21	2.0	21	90	0	64	29	21	29	19	1.98
4648253--4648324	20	3.6	20	76	10	76	38	15	29	16	1.89
4649801--4650197	214	1.9	214	85	3	557	49	16	4	29	1.66
4650497--4650548	26	2.0	26	92	0	86	15	38	11	34	1.83
4656253--4656329	38	2.0	38	90	5	120	24	19	18	37	1.94
4659157--4659193	19	1.9	19	94	0	65	32	18	18	29	1.96
4661211--4661245	18	2.0	17	88	5	52	45	0	0	54	0.99
4661104--4661387	120	2.4	120	90	2	446	44	1	4	48	1.34
4661331--4661365	18	2.0	17	88	5	52	45	0	0	54	0.99
4661331--4661385	15	3.4	16	80	16	53	47	0	1	50	1.11
4661601--4661668	16	4.2	16	96	0	127	38	35	0	26	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4670521--4670604	20	4.2	20	70	11	73	36	20	30	11	1.89
4672407--4673106	139	5.1	138	91	2	1034	45	5	7	41	1.55
4672682--4672893	66	3.1	66	63	23	157	45	6	6	41	1.55
4679448--4679490	22	2.0	22	81	9	52	39	2	4	53	1.34
4679526--4679553	6	4.7	6	100	0	56	53	0	0	46	1.00
4679647--4679704	29	2.0	29	96	0	107	46	6	13	32	1.70
4680741--4680856	60	1.9	60	94	0	205	31	8	22	37	1.84
4681215--4681239	7	3.6	7	100	0	50	24	0	28	48	1.52
4681296--4681508	88	2.4	90	85	7	306	25	7	15	51	1.69
4691038--4691790	49	15.6	49	93	3	1233	32	8	29	29	1.87
4695817--4695891	23	3.3	23	68	19	66	37	9	10	42	1.72
4695822--4695908	45	1.9	45	90	0	138	37	9	11	41	1.73
4697093--4697133	17	2.3	18	91	4	66	53	4	7	34	1.50
4698161--4698200	21	1.9	21	84	0	53	50	12	10	27	1.72
4699185--4699274	41	2.2	40	84	5	119	17	20	17	44	1.87
4700004--4700046	21	2.0	22	86	9	61	48	0	0	51	1.00
4700000--4700054	21	2.7	21	80	8	60	49	1	0	49	1.11
4703009--4703059	18	2.7	19	76	14	52	72	1	0	25	0.95
4706732--4706765	17	2.0	17	88	0	50	47	11	5	35	1.65
4711892--4712116	40	5.7	40	82	4	213	24	21	28	25	1.99
4711967--4712149	79	2.3	80	82	1	226	25	20	28	24	1.99
4714273--4714327	24	2.5	22	80	11	67	56	16	12	14	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4715463--4715496	6	5.7	6	86	13	52	85	0	14	0	0.60
4717738--4717766	5	5.8	5	100	0	58	41	0	20	37	1.53
4723743--4723808	15	4.4	15	84	0	87	33	13	21	31	1.92
4723816--4723898	34	2.4	34	84	4	96	36	13	13	37	1.83
4725369--4725743	34	11.1	33	81	7	389	30	14	18	36	1.91
4726818--4726859	21	2.0	21	81	9	50	16	7	7	69	1.34
4728609--4728639	15	2.0	16	93	6	55	38	12	0	48	1.42
4729572--4729631	13	4.8	13	70	14	54	56	6	1	35	1.35
4729529--4729718	97	1.9	99	91	5	312	40	8	0	51	1.36
4729794--4729826	17	2.0	16	94	5	57	30	0	0	69	0.88

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