genome.fa.s13.2.7.7.80.10.50.1000.15.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: Chr13 ID=Chr13-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  58321163

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   

This is table  15  of  199  ( 23770 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)
4694409--4694609	72	2.8	72	82	0	222	35	23	16	23	1.95
4695648--4695681	15	2.3	15	89	0	50	47	0	0	52	1.00
4707461--4707524	17	3.6	17	74	15	67	28	12	12	46	1.78
4707453--4707521	36	1.9	36	96	0	129	27	13	13	46	1.79
4707453--4707504	19	2.9	18	72	16	54	26	13	13	46	1.80
4712643--4712703	17	3.5	17	72	16	61	27	13	11	47	1.77
4712635--4712705	36	2.0	36	97	0	133	28	12	12	46	1.78
4712635--4712686	19	2.9	18	72	16	54	26	13	13	46	1.80
4717467--4717498	15	2.0	17	88	11	50	34	3	6	56	1.40
4723350--4723398	18	2.6	18	78	15	55	77	0	6	16	0.96
4723683--4723724	19	2.2	20	83	12	61	59	7	0	33	1.25
4725210--4725368	44	3.6	43	77	8	115	25	20	20	33	1.97
4725402--4725662	50	5.2	50	68	0	200	26	23	22	27	2.00
4725382--4725669	100	2.9	100	91	0	468	25	23	22	28	1.99
4725761--4725890	51	2.5	51	74	0	134	26	25	21	26	1.99
4725686--4726290	169	3.6	169	89	0	895	28	25	17	28	1.97
4726387--4727159	87	8.9	87	82	2	856	24	23	22	29	1.99
4726387--4727159	260	3.0	260	84	3	869	24	23	22	29	1.99
4726387--4727164	347	2.2	349	84	2	994	24	23	22	29	1.99
4738256--4738290	2	17.5	2	100	0	70	48	0	0	51	1.00
4738722--4738939	43	5.1	42	84	2	240	30	31	15	22	1.95
4740315--4740356	15	2.9	15	89	3	59	38	33	2	26	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4740529--4740587	7	7.9	7	75	14	55	32	47	0	20	1.50
4740539--4740587	15	3.2	15	85	8	55	34	46	0	18	1.49
4740540--4740589	23	2.1	24	92	3	84	36	48	0	16	1.46
4740600--4740653	14	3.8	14	80	4	54	44	35	0	20	1.52
4740600--4740639	15	2.7	15	88	3	55	40	37	0	22	1.54
4740925--4741037	41	2.8	41	91	0	181	30	28	21	19	1.97
4743310--4743505	90	2.2	90	85	4	252	37	19	9	33	1.84
4743748--4743831	19	4.5	19	74	4	64	64	2	5	27	1.29
4743750--4743840	29	3.1	29	70	9	69	62	2	5	29	1.29
4744047--4744125	9	8.3	10	71	12	51	30	1	2	65	1.13
4744343--4744502	86	1.8	87	85	7	227	33	8	13	44	1.75
4744588--4744616	15	1.9	15	100	0	58	24	0	0	75	0.80
4747717--4747743	13	2.1	13	100	0	54	14	22	22	40	1.90
4749608--4749649	22	1.9	22	85	0	57	28	28	19	23	1.98
4750165--4750211	17	2.7	18	76	6	51	53	0	0	46	1.00
4750184--4750222	20	2.0	20	85	10	53	64	0	0	35	0.94
4750184--4750267	25	3.2	26	78	10	73	59	0	2	38	1.10
4752736--4752881	24	5.8	24	74	11	89	38	21	23	16	1.93
4753547--4753588	18	2.3	19	87	4	59	33	11	2	52	1.51
4755122--4755197	30	2.7	27	73	16	64	19	2	14	63	1.42
4758698--4758841	73	1.9	73	80	12	166	31	6	2	59	1.34
4768286--4768315	2	15.0	2	100	0	60	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4768628--4768812	46	4.0	46	89	1	273	28	25	9	36	1.87
4770025--4770073	17	2.9	17	90	3	73	51	18	0	30	1.47
4773823--4773955	51	2.6	51	81	0	149	29	16	25	28	1.97
4774054--4774097	21	2.1	21	86	0	61	38	6	34	20	1.79
4774129--4774246	51	2.3	51	83	0	155	31	14	25	28	1.95
4773738--4774225	261	1.9	261	88	0	751	30	16	25	28	1.96
4774187--4774322	72	1.9	72	87	0	200	30	13	27	27	1.95
4774238--4774280	21	2.1	21	91	4	70	39	11	30	18	1.86
4774361--4774486	51	2.5	51	84	0	162	27	20	22	29	1.98
4774636--4775113	44	10.8	44	65	14	180	28	21	26	24	1.99
4774538--4775128	132	4.5	132	90	1	900	28	21	25	24	1.99
4775121--4775237	45	2.6	45	83	2	137	30	14	23	30	1.94
4777304--4777344	10	4.1	10	80	20	50	41	0	2	56	1.13
4777468--4777528	18	3.4	17	74	17	52	18	4	4	72	1.21
4777467--4777549	44	1.9	42	81	16	98	19	4	6	69	1.27
4777837--4777978	73	1.9	73	91	2	232	28	17	18	35	1.94
4791175--4791246	24	3.0	24	93	0	117	48	9	4	37	1.55
4793676--4793701	3	8.7	3	100	0	52	30	34	0	34	1.58
4814167--4814505	109	3.1	109	90	2	515	36	15	15	32	1.89
4816764--4816789	13	2.0	13	100	0	52	84	0	15	0	0.62
4819166--4819242	37	2.1	37	100	0	154	41	0	5	53	1.23
4819166--4819224	20	3.1	20	66	14	61	42	0	5	52	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4838510--4838611	27	3.6	27	79	17	77	57	6	2	32	1.40
4838753--4838798	17	2.6	17	82	3	56	45	0	13	41	1.43
4838754--4838808	21	2.5	22	79	11	58	43	0	14	41	1.45
4838905--4838945	3	13.7	3	84	0	55	60	2	4	31	1.30
4839260--4839309	24	2.2	22	85	7	64	38	16	6	40	1.73
4839301--4839338	12	3.2	12	100	0	76	42	15	7	34	1.76
4841067--4841096	14	2.1	15	93	6	53	83	0	0	16	0.65
4841018--4841112	50	1.9	50	82	6	122	57	1	1	40	1.12
4843952--4844046	27	3.6	27	74	16	90	32	3	3	61	1.28
4845259--4845283	12	2.1	12	100	0	50	76	0	8	16	1.02
4845717--4845745	14	2.1	14	100	0	58	27	6	20	44	1.77
4847717--4847747	11	2.8	11	95	0	53	41	0	19	38	1.51
4848805--4848860	26	2.1	27	83	9	80	39	39	5	16	1.71
4853692--4853738	19	2.5	19	85	0	58	51	0	0	48	1.00
4854514--4854579	26	2.6	26	76	7	64	51	3	0	45	1.16
4855229--4855355	43	3.0	43	95	0	218	26	34	17	21	1.95
4855601--4855642	19	2.2	20	83	12	52	71	4	4	19	1.22
4856304--4856418	53	2.2	53	96	0	212	40	13	20	24	1.89
4860118--4860172	28	1.9	29	85	3	76	41	41	0	16	1.48
4860115--4860320	89	2.3	89	79	4	243	43	29	1	25	1.63
4860359--4860397	14	2.8	14	84	0	51	35	43	0	20	1.52
4860417--4860448	14	2.2	15	94	5	57	37	31	0	31	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4860826--4861063	41	5.8	41	93	1	379	29	24	21	24	1.99
4860826--4861063	81	2.9	82	91	1	379	29	24	21	24	1.99
4861234--4861259	12	2.2	12	100	0	52	46	30	15	7	1.74
4861391--4861431	16	2.5	17	84	11	59	29	0	12	58	1.34
4864065--4864106	18	2.3	19	87	4	59	38	0	2	59	1.10
4864065--4864106	10	4.6	9	80	16	50	38	0	2	59	1.10
4865285--4865335	21	2.5	20	81	9	66	11	11	37	39	1.79
4865879--4865906	2	14.0	2	100	0	56	50	0	0	50	1.00
4873801--4873881	18	4.6	18	67	6	58	38	2	41	17	1.63
4878804--4878858	16	3.4	17	76	14	62	29	0	1	69	0.99
4878814--4878858	17	2.7	16	83	10	54	28	0	2	68	1.01
4884803--4884884	42	2.0	42	97	0	155	26	21	13	37	1.91
4893139--4893181	20	2.1	21	91	4	70	51	0	13	34	1.42
4893183--4893232	26	1.9	26	84	8	66	76	4	6	14	1.13
4895250--4895296	23	2.1	22	92	4	76	38	8	2	51	1.45
4899977--4900021	20	2.3	19	77	7	54	15	17	2	64	1.39
4906833--4906888	27	2.0	27	82	3	67	58	5	0	35	1.21
4906837--4906901	19	3.3	19	76	24	55	58	3	0	38	1.14
4914564--4914640	28	2.7	27	82	11	84	63	1	7	27	1.29
4914901--4914963	30	2.0	32	84	6	85	60	0	3	36	1.13
4915154--4915218	34	1.9	34	81	12	80	35	3	0	61	1.12
4916426--4916497	22	3.3	22	94	0	117	30	16	27	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4917002--4917031	9	3.3	9	100	0	60	60	0	0	40	0.97
4917399--4917441	17	2.4	19	81	14	56	55	13	0	30	1.39
4918871--4918927	29	2.0	29	92	0	96	38	12	12	36	1.80
4924181--4924245	25	2.5	25	82	7	67	33	24	21	20	1.97
4924324--4924403	25	3.2	25	78	5	83	32	23	26	17	1.97
4927967--4928035	30	2.3	30	80	5	77	5	1	26	66	1.22
4930038--4930179	66	2.2	66	81	0	167	25	15	28	30	1.96
4930051--4930174	36	3.6	35	70	12	96	23	14	29	33	1.94
4938774--4938819	23	2.0	23	100	0	92	30	30	8	30	1.87
4940323--4940356	15	2.1	17	89	10	54	41	0	0	58	0.98

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