genome.fa.s6.2.7.7.80.10.50.1000.164.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: Chr06 ID=Chr06-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  51074515

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   

This is table  164  of  168  ( 20060 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)
49386529--49387017	102	4.8	102	89	2	648	30	14	25	29	1.95
49393158--49393188	13	2.4	13	94	0	53	38	3	22	35	1.71
49399035--49399107	15	4.9	15	69	16	53	57	0	5	36	1.22
49399039--49399092	14	3.8	14	74	13	56	53	0	7	38	1.29
49399040--49399087	13	3.5	13	78	13	51	54	0	6	39	1.26
49399039--49399100	28	2.2	29	88	2	99	56	0	6	37	1.25
49399054--49399099	14	3.3	14	80	20	60	54	0	6	39	1.26
49399037--49399101	29	2.2	30	83	8	98	56	0	6	36	1.24
49400699--49400780	30	2.7	30	88	0	128	26	20	6	46	1.74
49400699--49400774	15	5.1	15	70	10	66	27	19	6	46	1.75
49405367--49405448	30	2.7	30	90	0	128	24	24	4	46	1.72
49411993--49412043	25	2.0	26	84	3	68	43	3	21	31	1.71
49420753--49420797	23	1.9	23	86	13	65	26	0	8	64	1.23
49422336--49422365	3	10.0	3	100	0	60	0	33	0	66	0.92
49422360--49423156	117	6.7	118	87	3	1008	15	25	20	37	1.92
49422360--49423159	237	3.3	237	87	2	1095	15	25	20	37	1.93
49422360--49423156	354	2.2	358	86	3	1100	15	25	20	37	1.92
49422925--49423161	126	1.9	126	90	0	384	15	26	18	38	1.91
49423821--49423861	22	2.0	22	85	9	59	29	0	4	65	1.13
49425360--49425419	31	1.9	31	86	0	84	33	8	13	45	1.73
49427876--49427914	2	19.5	2	100	0	78	48	0	0	51	1.00
49428216--49428255	16	2.5	16	87	0	53	42	5	2	50	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49428229--49428290	22	2.7	23	85	5	81	46	0	1	51	1.10
49428823--49428885	27	2.3	27	80	0	72	28	26	34	9	1.88
49434185--49434484	51	5.9	51	94	0	474	17	25	19	38	1.93
49434252--49434384	27	5.1	27	61	29	74	19	25	20	34	1.96
49434279--49434408	24	5.2	24	61	29	56	16	23	20	39	1.92
49436652--49436703	24	2.2	24	85	0	68	53	9	3	32	1.51
49446260--49447063	51	15.8	51	79	1	871	16	26	19	37	1.93
49446260--49447066	102	8.0	102	92	1	1282	16	26	19	37	1.93
49446826--49446913	30	3.2	30	62	31	79	14	27	19	38	1.91
49449857--49450048	56	3.3	55	73	19	199	51	3	1	44	1.24
49449874--49450057	37	4.7	36	70	18	127	50	3	1	45	1.27
49449828--49450075	120	2.1	120	96	0	451	50	4	0	44	1.26
49449857--49450009	18	8.9	17	64	25	63	53	2	0	43	1.19
49449872--49450062	61	3.2	61	72	19	209	50	3	1	44	1.26
49453067--49453094	14	2.0	14	100	0	56	64	0	28	7	1.20
49453741--49453808	34	2.0	34	100	0	136	35	11	11	41	1.78
49454459--49454590	70	1.9	70	84	6	178	29	13	30	26	1.94
49468777--49468821	21	2.1	21	84	8	56	15	0	11	73	1.10
49470793--49470857	29	2.3	28	84	7	78	40	0	0	60	0.97
49470790--49470834	18	2.7	16	82	6	54	40	0	0	60	0.97
49472543--49472586	23	1.9	23	81	9	54	36	2	2	59	1.23
49473982--49474147	57	3.0	54	81	8	174	21	31	10	36	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49476390--49476465	32	2.4	30	75	16	73	26	2	5	65	1.27
49478400--49478463	22	2.9	22	92	0	101	34	15	26	23	1.95
49483104--49483146	9	4.7	9	82	5	59	23	0	4	72	1.04
49487703--49487749	24	2.0	24	95	0	85	31	29	23	14	1.95
49495540--49495577	11	3.7	11	83	16	55	68	0	0	31	0.90
49495662--49495728	27	2.5	27	82	0	89	29	32	29	7	1.85
49495853--49495917	24	2.7	23	69	9	58	70	0	26	3	1.01
49496070--49496278	40	5.3	39	72	16	160	34	5	10	49	1.61
49496120--49496261	76	1.9	76	88	2	214	29	6	12	51	1.64
49496070--49496286	76	2.8	77	78	9	208	34	5	10	49	1.60
49499476--49500081	158	3.9	157	91	4	896	30	8	8	53	1.59
49500283--49500326	22	2.0	23	82	13	56	40	13	9	36	1.76
49503286--49503406	30	4.4	30	73	21	129	61	8	6	23	1.48
49503309--49503341	12	2.8	12	95	0	57	69	6	0	24	1.10
49503346--49503396	16	3.3	16	71	20	54	54	11	7	25	1.63
49514702--49514738	19	2.0	18	89	5	56	56	0	0	43	0.99
49519067--49519176	4	27.5	4	100	0	220	50	24	0	25	1.50
49519181--49519554	189	2.0	185	89	4	563	31	17	12	37	1.88
49533131--49533172	16	2.7	15	79	20	50	57	0	2	40	1.12
49544966--49545034	6	11.5	6	74	0	66	20	59	5	14	1.56
49544955--49545007	18	2.9	18	85	0	79	24	58	3	13	1.51
49545025--49545088	30	2.4	26	82	15	69	23	57	7	10	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49545043--49545100	24	2.4	25	80	8	84	25	58	8	6	1.53
49545158--49545292	42	3.2	41	74	8	137	20	49	8	20	1.75
49545278--49545328	18	2.8	18	84	0	66	19	49	1	29	1.60
49545141--49545472	30	11.3	30	73	11	229	21	50	7	21	1.73
49545141--49545310	84	2.0	84	87	0	241	20	50	7	22	1.73
49545284--49545335	18	2.9	18	82	0	59	17	48	1	32	1.58
49545200--49545427	120	1.9	120	89	0	357	20	50	7	22	1.72
49545296--49545379	42	2.0	42	80	0	96	17	50	7	25	1.72
49545464--49545587	18	6.6	18	68	17	81	23	58	5	12	1.54
49545468--49545548	15	5.4	15	66	21	53	19	60	6	13	1.54
49545393--49545562	30	5.7	30	88	5	179	24	55	7	12	1.62
49545363--49545562	60	3.3	58	81	7	190	23	55	7	14	1.64
49545535--49545622	6	14.2	6	74	7	50	28	57	3	10	1.47
49545453--49545593	30	4.7	30	89	1	167	24	58	5	10	1.53
49545583--49545652	15	4.5	15	70	5	50	34	58	1	5	1.31
49545507--49545642	30	4.5	30	77	1	103	30	58	3	8	1.45
49545554--49545616	24	2.6	24	84	0	72	31	57	3	7	1.43
49553484--49553529	17	2.7	18	76	10	60	60	0	0	39	0.97
49556440--49556464	13	1.9	13	100	0	50	80	8	0	12	0.92
49558830--49558857	14	2.0	14	100	0	56	71	14	0	14	1.15
49566733--49566777	22	2.2	20	84	8	54	53	2	0	44	1.13
49572121--49572163	17	2.6	17	82	13	54	37	0	0	62	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49573271--49573329	28	2.1	29	87	3	84	49	5	20	25	1.69
49580940--49580987	21	2.3	21	85	0	60	16	20	16	45	1.85
49581965--49582033	31	2.3	31	89	2	104	43	10	10	36	1.72
49583728--49583756	11	2.7	11	94	5	51	75	6	0	17	1.01
49583977--49584020	9	5.0	9	83	5	54	22	0	2	75	0.92
49583965--49584013	20	2.5	20	84	12	66	18	0	2	79	0.83
49584794--49584893	34	2.9	34	81	1	119	38	1	18	43	1.57
49584791--49584912	34	3.7	32	79	8	113	39	1	15	43	1.57
49584962--49585357	125	3.2	123	88	3	569	35	17	17	29	1.93
49588383--49588439	25	2.3	24	80	11	71	54	3	0	42	1.17
49588387--49588576	90	2.1	91	95	2	337	54	3	3	38	1.34
49588918--49588960	18	2.4	18	92	0	68	41	9	27	20	1.83
49590485--49590513	14	2.0	15	93	6	51	65	0	0	34	0.93
49598948--49598976	7	4.1	7	100	0	58	27	0	0	72	0.85
49600331--49600382	4	13.0	4	100	0	104	25	0	25	50	1.50
49600881--49601011	64	2.0	64	85	2	174	28	13	12	45	1.81
49620236--49620301	29	2.3	29	89	0	96	48	18	9	24	1.76
49633189--49633372	39	4.6	39	87	6	253	37	1	0	60	1.06
49633203--49633372	11	16.9	11	71	21	124	38	1	0	59	1.08
49633194--49633372	79	2.2	79	89	3	261	37	1	0	60	1.07
49633234--49633371	9	14.1	9	76	11	87	39	0	0	59	1.03
49634303--49634369	31	2.2	31	88	0	98	19	7	19	53	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49636925--49636984	23	2.6	23	76	15	61	48	0	5	46	1.24
49637167--49637213	23	2.1	23	84	11	62	25	4	0	70	1.05
49641728--49641915	101	1.9	98	82	5	234	40	14	6	37	1.73
49645562--49645595	2	17.0	2	93	0	59	50	0	2	47	1.16
49650985--49651115	57	2.3	56	82	2	154	29	12	13	44	1.81
49656687--49656723	17	2.1	17	90	5	56	48	0	2	48	1.15
49657674--49657720	20	2.5	19	81	18	55	38	2	0	59	1.09
49657651--49657761	30	3.9	29	80	11	122	36	2	0	60	1.11
49672513--49672545	16	2.0	17	88	5	50	48	0	3	48	1.17
49672675--49672709	9	4.0	9	92	7	63	54	0	0	45	0.99

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