genome.fa.s6.2.7.7.80.10.50.1000.48.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  48  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)
13381058--13381202	47	3.2	46	68	16	120	44	2	4	48	1.38
13381039--13381229	91	2.1	92	88	2	278	44	4	3	47	1.41
13381262--13381674	120	3.4	120	99	0	808	42	2	6	49	1.40
13381387--13381438	15	3.6	15	80	12	56	44	0	1	53	1.11
13381507--13381558	15	3.6	15	80	12	56	44	0	1	53	1.11
13381636--13381677	15	2.7	16	82	14	52	45	0	2	52	1.13
13381627--13381668	15	2.9	15	82	10	52	47	0	0	52	1.00
13381611--13381883	147	1.9	147	96	1	503	46	3	3	46	1.35
13381770--13381804	18	2.0	17	88	5	52	45	0	0	54	0.99
13381964--13382058	45	2.1	44	90	1	145	32	27	7	32	1.84
13382037--13382122	16	5.4	16	97	0	136	31	36	0	32	1.58
13389253--13389343	41	2.2	41	90	5	139	63	12	5	18	1.46
13392029--13392319	109	2.7	109	85	1	404	30	22	20	26	1.98
13392357--13392438	40	2.0	40	85	0	110	39	26	18	15	1.91
13406079--13406122	19	2.3	19	88	0	61	34	15	22	27	1.95
13409851--13409931	35	2.3	35	85	10	103	32	19	17	30	1.95
13412238--13412276	18	2.2	18	86	9	53	41	17	2	38	1.64
13422394--13422419	10	2.6	10	100	0	52	26	0	38	34	1.57
13428870--13428912	11	3.9	11	79	8	52	58	6	6	27	1.50
13433266--13433352	42	2.1	42	86	4	122	24	24	33	18	1.97
13439292--13439319	13	2.2	13	100	0	56	35	7	21	35	1.81
13440423--13440461	21	1.9	20	84	5	51	25	2	23	48	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13454578--13454646	34	2.0	34	86	5	95	28	28	18	23	1.98
13456588--13456627	19	2.1	19	100	0	80	42	0	10	47	1.37
13467502--13467587	27	3.2	27	77	0	100	11	37	27	23	1.89
13485531--13485638	41	2.6	41	88	0	162	35	17	26	20	1.95
13494756--13494823	30	2.2	31	84	2	84	26	19	7	47	1.75
13504179--13504236	28	2.1	28	96	0	107	29	17	10	43	1.82
13506039--13506070	2	16.0	2	100	0	64	50	0	50	0	1.00
13506347--13506432	36	2.2	36	84	10	100	52	2	3	41	1.31
13506570--13506612	19	2.4	17	84	7	50	41	2	4	51	1.35
13506570--13506615	17	2.5	19	86	6	60	41	2	6	50	1.40
13507767--13507831	31	2.1	30	88	8	96	56	0	0	43	0.99
13508912--13508962	27	1.9	27	84	4	68	54	1	1	41	1.22
13511687--13511711	2	12.5	2	100	0	50	52	0	0	48	1.00
13513630--13513729	49	2.0	49	100	0	200	48	22	6	24	1.73
13522861--13522896	18	2.0	18	100	0	72	27	16	33	22	1.95
13526744--13526805	21	3.0	21	77	13	65	37	37	14	11	1.82
13532850--13532882	17	1.9	17	93	0	57	15	12	12	60	1.59
13540550--13540585	11	3.2	11	92	7	63	58	33	0	8	1.28
13540547--13540585	12	3.3	12	92	7	71	56	35	0	7	1.28
13544729--13544773	12	3.8	12	93	0	72	24	6	13	55	1.62
13547109--13547165	27	2.1	27	96	3	105	43	3	10	42	1.56
13547113--13547177	27	2.3	28	86	7	87	44	3	10	41	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13551765--13551812	20	2.5	19	76	6	51	43	4	0	52	1.20
13553120--13553164	4	10.8	4	81	9	54	48	0	2	48	1.13
13553120--13553153	13	2.6	13	100	0	68	47	0	0	52	1.00
13559035--13559079	23	1.9	24	86	4	65	37	35	2	24	1.68
13568243--13568276	16	2.1	16	88	0	50	26	14	11	47	1.79
13569919--13569959	21	2.0	21	85	0	55	34	9	34	21	1.87
13573758--13573782	11	2.3	11	100	0	50	72	8	0	20	1.10
13574705--13574747	21	2.0	21	90	0	68	16	25	16	41	1.88
13575575--13575639	30	2.2	31	80	8	80	21	21	30	26	1.98
13580413--13580464	22	2.5	20	79	17	52	32	7	1	57	1.38
13580597--13580655	31	1.9	31	96	0	109	45	3	6	44	1.47
13583898--13583932	18	1.9	18	88	11	54	0	17	2	80	0.84
13583906--13583934	13	2.3	13	94	5	51	0	17	0	82	0.66
13588894--13589233	51	6.7	50	77	8	294	31	27	16	25	1.96
13588897--13589235	101	3.3	100	80	6	328	30	26	16	25	1.97
13588894--13589232	152	2.2	152	90	0	534	31	26	16	25	1.96
13591217--13591278	27	2.2	28	94	2	108	59	0	25	14	1.35
13592432--13592478	13	3.7	12	86	11	58	27	2	12	57	1.47
13596460--13596510	6	8.5	6	100	0	102	31	0	17	50	1.46
13597765--13597882	57	2.1	57	95	0	209	24	19	15	40	1.90
13599348--13599469	48	2.5	48	93	2	210	24	21	30	23	1.99
13599348--13599521	48	3.6	48	89	0	186	25	20	30	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13601152--13601215	30	2.1	30	94	0	110	42	7	18	31	1.79
13601967--13602198	114	2.0	114	94	1	412	26	10	30	32	1.90
13602081--13602417	186	1.8	186	96	0	629	27	11	27	33	1.92
13605433--13605602	48	3.6	47	81	1	169	26	20	28	24	1.99
13612641--13612759	57	2.1	57	87	10	172	43	9	21	25	1.82
13614143--13614237	39	2.5	39	80	12	101	8	8	7	75	1.18
13615775--13615902	65	2.0	65	90	0	202	26	15	14	43	1.85
13616798--13616828	5	6.2	5	100	0	62	0	19	0	80	0.71
13618074--13618118	23	2.0	23	95	0	81	28	17	24	28	1.97
13618945--13618986	11	3.6	11	81	18	50	69	0	26	4	1.08
13621133--13621212	33	2.4	33	87	0	106	17	23	16	42	1.88
13626430--13626479	26	1.9	26	91	0	82	50	16	6	28	1.68
13628289--13628337	20	2.5	20	96	0	89	20	22	34	22	1.97
13631671--13631993	163	2.0	163	93	0	547	32	12	20	34	1.90
13632791--13632830	14	2.9	14	84	0	53	32	7	17	42	1.77
13632814--13632853	20	2.0	20	90	0	62	27	10	12	50	1.72
13632799--13632865	34	1.9	35	87	3	100	32	8	11	46	1.72
13640347--13640377	6	5.2	6	100	0	62	16	16	32	35	1.91
13648424--13648482	23	2.7	21	78	19	59	23	6	8	61	1.49
13648628--13648654	14	1.9	14	100	0	54	66	3	7	22	1.33
13650010--13650059	25	2.0	25	100	0	100	52	12	12	24	1.72
13650353--13650390	19	2.0	19	89	0	58	71	2	18	7	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13659552--13659602	26	1.9	27	84	4	68	27	21	17	33	1.96
13664258--13664315	30	1.9	30	86	6	82	20	39	0	39	1.53
13687394--13687435	22	2.1	19	86	13	57	45	0	0	54	0.99
13687394--13687432	16	2.5	15	83	8	51	46	0	0	53	1.00
13694557--13694632	27	2.8	27	84	4	91	18	25	23	32	1.97
13696950--13697036	27	3.2	27	91	0	138	44	22	18	13	1.85
13697380--13697457	33	2.3	33	84	4	93	24	24	23	28	2.00
13702395--13702425	11	2.8	11	90	0	53	38	0	0	61	0.96
13708646--13709002	46	8.2	46	81	13	459	34	15	20	29	1.93
13708682--13708836	36	4.0	36	75	15	148	37	14	19	28	1.91
13708646--13708974	82	3.9	82	86	9	480	35	14	20	29	1.93
13717210--13717263	28	1.9	28	88	0	81	29	24	27	18	1.98
13717480--13717745	32	8.4	32	75	6	209	36	22	20	20	1.96
13717505--13717745	96	2.5	95	76	6	236	35	24	20	19	1.96
13717978--13718500	27	19.5	27	82	4	542	23	22	19	34	1.97
13719982--13720111	63	2.0	64	88	4	192	46	4	20	28	1.71
13736596--13736633	18	2.0	19	90	10	60	28	0	7	63	1.23
13740468--13740549	27	3.1	27	67	22	84	30	7	12	50	1.67
13740456--13740531	24	3.0	23	67	22	55	28	6	13	51	1.65
13740456--13740596	51	2.7	51	92	5	221	28	7	12	51	1.66
13740477--13740558	27	3.1	27	67	22	84	31	8	10	48	1.68
13742115--13742162	20	2.5	20	82	3	62	20	20	2	56	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13756176--13756228	20	2.5	21	81	6	63	37	20	18	22	1.94
13756296--13756320	12	2.1	12	100	0	50	8	8	24	60	1.52
13773983--13774043	20	3.2	20	65	25	60	45	3	19	31	1.66
13773977--13774049	36	2.0	36	100	0	146	43	2	19	34	1.65
13777870--13777965	24	4.0	24	78	2	95	31	27	15	26	1.96
13793862--13793896	16	2.2	16	94	0	61	25	8	31	34	1.86
13794055--13794081	14	1.9	14	100	0	54	29	0	0	70	0.88
13802441--13802468	8	3.5	8	100	0	56	50	0	10	39	1.37
13804022--13804484	36	12.7	36	75	8	361	37	14	22	25	1.93
13804022--13804484	73	6.4	71	80	6	464	37	14	22	25	1.93

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