genome.fa.s6.2.7.7.80.10.50.1000.61.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  61  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)
17526863--17526888	13	2.0	13	100	0	52	53	15	0	30	1.42
17528994--17529078	43	2.0	43	88	0	125	35	7	10	47	1.66
17529341--17529603	43	6.3	43	83	7	306	25	17	29	27	1.97
17530154--17530232	34	2.3	34	93	4	131	46	11	12	29	1.77
17533100--17533137	12	3.2	12	100	0	76	26	15	23	34	1.95
17533123--17533154	16	2.0	16	100	0	64	31	12	18	37	1.88
17534089--17534330	50	4.9	50	81	2	247	28	22	27	21	1.99
17542744--17542833	44	2.0	45	91	2	146	36	24	16	22	1.94
17542848--17543032	51	3.6	51	79	2	203	30	27	17	24	1.97
17542845--17543030	101	1.8	99	87	5	266	31	26	17	24	1.97
17547879--17548016	50	2.8	48	85	2	141	26	23	29	19	1.98
17548258--17548290	12	2.8	12	100	0	66	66	0	24	9	1.20
17555027--17555133	54	2.0	54	100	0	214	37	20	14	28	1.91
17565544--17565664	29	4.2	29	77	8	147	25	24	11	38	1.89
17568512--17568611	51	2.0	48	90	5	155	30	9	16	45	1.78
17570098--17570167	35	2.0	35	100	0	140	48	8	2	40	1.49
17571562--17571638	39	2.0	39	89	0	118	66	1	9	23	1.28
17571556--17571626	15	5.1	15	69	27	50	67	0	11	21	1.21
17571632--17571701	11	6.7	11	75	19	62	55	1	0	42	1.08
17571632--17571683	24	2.3	23	83	6	61	57	1	0	40	1.10
17572695--17572740	23	2.0	23	100	0	92	30	13	8	47	1.72
17573638--17573719	41	2.0	41	90	0	128	34	14	4	46	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17574362--17574562	100	2.0	100	96	1	368	39	22	12	24	1.89
17579776--17579876	35	2.9	35	90	0	157	15	17	26	39	1.90
17583496--17583564	33	2.1	34	86	2	95	30	26	23	20	1.98
17583536--17583659	28	4.5	28	86	2	178	29	22	24	24	1.99
17584483--17584681	40	5.0	40	85	1	249	15	31	16	37	1.90
17584483--17584681	20	10.1	20	68	9	122	15	31	16	37	1.90
17584621--17584678	18	3.1	18	73	14	55	13	31	18	36	1.90
17592525--17592562	11	3.5	11	88	0	58	26	42	2	28	1.69
17604760--17604812	27	2.0	27	84	0	70	35	16	26	20	1.94
17606061--17606157	43	2.4	42	84	8	121	27	17	4	50	1.64
17611607--17611660	21	2.6	21	81	0	72	35	9	33	22	1.86
17611947--17611980	17	2.1	15	89	10	50	64	0	35	0	0.94
17615520--17615557	10	3.6	10	86	13	58	36	0	2	60	1.11
17626993--17627045	13	4.1	13	87	0	79	26	7	28	37	1.83
17626993--17627045	26	2.0	26	96	0	97	26	7	28	37	1.83
17630023--17630063	14	2.7	15	85	7	57	21	2	2	73	1.07
17634222--17634460	29	8.2	29	86	0	307	24	24	13	37	1.91
17649099--17649131	17	2.0	17	94	5	59	42	15	0	42	1.46
17659783--17659832	25	2.0	24	88	3	73	22	14	0	64	1.29
17676838--17677105	137	1.9	138	81	5	319	32	27	19	20	1.97
17679531--17679681	75	2.0	75	100	0	302	23	25	11	39	1.88
17689827--17689865	16	2.6	15	88	8	53	20	10	5	64	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17690205--17690325	23	5.3	23	82	5	138	31	25	19	23	1.98
17690205--17690325	46	2.6	46	86	0	170	31	25	19	23	1.98
17691193--17691266	23	3.2	23	82	3	78	31	0	31	37	1.58
17695528--17695578	24	2.2	23	82	10	59	5	17	1	74	1.11
17695516--17695578	19	3.0	21	82	13	69	9	17	1	71	1.20
17697094--17697135	16	2.7	15	85	7	66	21	11	2	64	1.38
17697480--17697601	23	5.3	22	82	10	147	31	24	18	24	1.98
17697480--17697601	46	2.7	46	94	0	208	31	24	18	24	1.98
17698437--17698510	23	3.2	23	82	3	78	31	1	31	36	1.66
17702191--17702229	14	2.8	13	82	14	51	17	5	0	76	0.96
17703543--17703663	49	2.5	49	83	5	147	21	15	34	28	1.94
17708551--17708720	50	3.3	50	81	5	187	25	27	21	25	2.00
17721694--17721828	50	2.6	51	82	10	157	25	28	20	25	1.99
17724724--17724778	22	2.5	22	90	0	83	27	43	3	25	1.71
17724724--17724778	11	5.0	11	79	0	65	27	43	3	25	1.71
17740094--17740359	103	2.6	103	88	4	401	30	29	20	19	1.97
17744792--17744831	21	1.9	21	89	0	62	50	17	7	25	1.72
17746484--17746514	16	1.9	16	93	0	53	32	12	3	51	1.56
17756294--17756405	47	2.4	47	80	3	136	47	17	11	23	1.80
17757059--17757083	13	1.9	13	100	0	50	0	20	0	80	0.72
17757283--17757314	17	1.9	17	93	6	57	15	0	9	75	1.05
17757938--17758006	24	2.9	24	85	10	97	31	4	11	52	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17761593--17762032	44	10.0	44	90	0	610	32	17	23	26	1.97
17762134--17763086	88	10.8	88	90	0	1483	28	20	25	26	1.99
17762170--17763084	44	20.8	44	63	5	272	27	20	24	26	1.99
17763096--17763386	44	6.8	43	72	10	211	29	21	22	26	1.99
17763082--17763441	128	2.8	129	89	0	535	30	21	21	26	1.99
17764239--17764263	13	1.9	13	100	0	50	0	20	0	80	0.72
17765124--17765192	24	2.9	24	82	6	86	33	4	10	52	1.55
17771594--17772712	374	3.0	371	88	3	1633	33	23	9	34	1.86
17775148--17775182	15	2.2	16	90	5	54	65	0	25	8	1.21
17775147--17775183	16	2.3	17	81	13	51	67	0	24	8	1.17
17775636--17775681	16	2.9	16	78	18	51	52	0	17	30	1.45
17776758--17776782	6	4.2	6	100	0	50	68	0	32	0	0.90
17777503--17777550	20	2.4	20	86	6	62	54	2	22	20	1.55
17777514--17777559	20	2.3	20	92	0	74	47	0	28	23	1.52
17783885--17784060	94	1.9	94	86	5	257	35	15	14	35	1.88
17784601--17784643	18	2.5	17	84	3	59	2	11	2	83	0.83
17788646--17788748	44	2.3	44	81	3	109	31	22	14	32	1.94
17788602--17789166	218	2.6	217	89	0	860	26	24	19	30	1.98
17790705--17790742	20	1.9	19	94	5	67	31	15	28	23	1.96
17808411--17808450	20	2.0	20	90	9	64	15	22	7	55	1.65
17808734--17808846	50	2.3	50	84	0	145	21	30	23	24	1.99
17813889--17813932	23	1.9	23	95	0	79	27	4	25	43	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17818790--17818828	14	2.6	15	88	8	53	38	35	0	25	1.56
17821168--17821212	20	2.3	19	84	7	54	33	11	31	24	1.90
17826208--17826257	25	2.0	25	88	0	73	38	0	36	26	1.57
17826922--17827333	27	15.3	27	84	3	386	34	20	21	22	1.97
17826994--17827333	80	4.2	81	84	2	407	33	20	22	23	1.97
17826994--17827352	27	13.4	27	84	3	406	32	20	23	23	1.98
17827373--17827457	24	3.6	23	78	7	73	21	7	23	48	1.74
17827524--17827583	27	2.2	27	82	11	70	21	23	23	31	1.98
17827571--17827636	26	2.5	26	85	0	78	19	18	25	36	1.94
17827630--17827905	32	8.6	32	77	7	231	22	19	21	36	1.95
17827630--17827898	64	4.2	64	80	5	278	21	18	22	37	1.95
17828131--17828186	27	2.1	27	86	0	76	19	23	25	32	1.98
17830090--17830131	20	2.0	21	86	4	59	35	16	26	21	1.94
17834477--17834548	22	3.3	22	94	0	117	30	16	27	25	1.97
17836402--17836548	41	3.6	41	83	1	161	31	25	23	18	1.97
17836478--17836509	16	2.0	16	93	0	55	28	25	28	18	1.98
17845169--17845211	22	2.0	22	90	0	68	27	20	6	44	1.77
17846357--17846851	27	18.3	27	82	1	553	22	20	17	39	1.92
17850833--17850944	37	3.0	37	92	0	179	49	14	5	31	1.66
17850879--17850939	17	3.4	17	65	12	50	50	13	4	31	1.62
17854548--17854592	3	15.0	3	100	0	90	0	33	0	66	0.92
17855216--17855246	7	4.4	7	91	0	53	25	0	29	45	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17859889--17859961	38	1.9	38	91	0	119	28	17	19	34	1.95
17860481--17860536	26	2.2	26	93	0	94	39	21	23	16	1.92
17860644--17860698	25	2.2	26	83	3	67	47	18	7	27	1.74
17860694--17861135	27	16.3	26	80	5	389	22	20	18	38	1.94
17860693--17861135	54	8.2	52	84	5	445	22	20	18	38	1.94
17860692--17861135	81	5.5	81	83	3	498	22	20	18	38	1.94
17867543--17867595	27	2.0	26	88	3	79	13	24	33	28	1.93
17867465--17867774	104	3.0	105	91	2	493	19	20	29	30	1.97
17867646--17867697	27	1.9	27	96	0	95	13	25	32	28	1.93
17888071--17888182	23	4.9	23	76	0	116	37	25	6	30	1.81

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