genome.fa.s6.2.7.7.80.10.50.1000.106.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  106  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)
31385145--31385185	19	2.2	19	86	8	57	63	9	0	26	1.25
31385174--31385226	20	2.7	20	82	5	63	62	1	0	35	1.06
31385169--31385237	20	3.5	20	71	13	52	60	1	1	36	1.14
31385935--31385961	11	2.5	11	100	0	54	66	14	18	0	1.25
31390323--31390373	15	3.4	15	73	10	50	25	15	7	50	1.71
31390301--31390392	30	3.0	30	87	3	121	29	19	6	44	1.76
31390335--31390387	15	3.5	15	80	10	63	32	15	7	45	1.74
31400349--31400406	19	2.7	22	84	10	68	36	8	17	37	1.80
31407019--31407076	24	2.4	24	97	0	107	34	12	24	29	1.91
31407457--31407593	72	1.9	72	81	3	168	32	13	26	27	1.94
31407414--31407644	123	1.9	122	83	7	306	29	16	26	27	1.97
31407880--31408348	170	2.7	171	84	3	597	31	19	18	29	1.96
31407881--31408340	44	10.7	44	69	10	197	31	19	19	29	1.96
31408348--31408576	89	2.6	89	85	0	323	26	23	24	25	2.00
31408513--31408634	58	2.1	58	81	0	145	27	22	25	24	2.00
31408648--31408820	87	2.0	87	81	4	206	28	20	23	27	1.99
31409255--31409312	19	2.7	22	79	10	59	36	6	17	39	1.76
31413530--31413690	47	3.3	47	80	6	155	25	22	31	21	1.98
31413530--31413664	47	2.8	48	82	5	157	24	22	33	20	1.97
31416473--31416515	20	2.2	19	87	4	59	23	0	2	74	0.93
31421713--31421794	42	2.0	42	85	4	112	30	24	14	30	1.95
31428101--31428125	11	2.3	11	100	0	50	36	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31432005--31432069	21	3.0	22	75	8	80	18	20	24	36	1.94
31432299--31432376	23	3.4	23	89	0	120	21	19	20	38	1.94
31432361--31432411	21	2.3	22	86	10	77	13	27	27	31	1.94
31441513--31441949	224	2.0	224	80	6	510	35	15	11	37	1.84
31443717--31443742	13	2.0	13	100	0	52	38	7	0	53	1.30
31444010--31444042	5	6.6	5	92	0	57	39	0	0	60	0.97
31444666--31444705	20	2.0	20	90	5	62	42	2	5	50	1.37
31452257--31452295	15	2.4	16	87	8	53	43	5	25	25	1.75
31456713--31456835	43	2.9	43	92	2	194	24	17	26	31	1.97
31456816--31456853	18	2.1	18	100	0	76	26	15	26	31	1.96
31458214--31458259	3	15.3	3	100	0	92	32	0	0	67	0.91
31461743--31461780	18	2.1	18	85	9	51	0	26	0	73	0.83
31463762--31463814	27	2.0	27	85	7	72	62	0	1	35	1.06
31464528--31464554	8	3.4	8	100	0	54	44	0	0	55	0.99
31465924--31465952	15	1.9	15	100	0	58	44	0	0	55	0.99
31465909--31465982	26	2.8	27	72	20	66	50	0	2	47	1.15
31466176--31466210	16	2.2	16	89	0	52	25	22	5	45	1.74
31466866--31466915	16	2.8	18	76	14	59	46	2	6	46	1.39
31467275--31467300	3	8.7	3	100	0	52	69	0	30	0	0.89
31474260--31474295	16	2.2	16	100	0	72	25	0	36	38	1.56
31474530--31474564	18	2.0	17	88	5	52	54	0	0	45	0.99
31487429--31487494	28	2.4	28	94	0	114	46	0	10	42	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31487655--31487723	32	2.2	31	87	7	95	42	4	8	44	1.55
31488543--31488599	15	3.5	15	69	17	51	47	0	3	49	1.18
31489603--31489655	27	2.0	27	96	0	97	13	56	11	18	1.66
31490747--31490820	32	2.3	32	83	4	96	39	10	4	45	1.58
31493647--31493693	25	2.0	23	100	0	76	29	8	2	59	1.39
31494486--31494529	22	2.0	22	82	8	54	27	2	11	59	1.44
31496049--31496079	12	2.6	12	94	0	53	35	3	41	19	1.67
31496436--31496667	72	3.2	72	74	3	234	35	6	13	44	1.69
31499267--31499300	13	2.5	14	85	9	52	17	17	17	47	1.84
31499956--31500144	9	21.6	9	72	12	81	48	15	0	35	1.49
31499954--31500144	45	4.4	43	87	5	276	48	15	0	35	1.49
31499954--31500144	87	2.2	88	93	0	321	48	15	0	35	1.49
31508880--31509022	43	3.4	41	74	9	119	25	13	27	34	1.93
31508905--31509069	43	3.9	43	79	3	140	24	13	27	34	1.93
31510873--31510930	16	3.6	16	71	19	50	60	1	3	34	1.24
31510801--31510951	49	3.2	48	70	16	134	52	1	3	41	1.31
31511151--31511186	16	2.2	16	100	0	72	25	0	36	38	1.56
31524964--31525013	18	2.8	18	84	6	66	32	44	0	24	1.54
31525413--31525447	2	17.5	2	93	0	61	51	2	0	45	1.16
31527831--31527978	72	2.1	72	80	5	165	24	20	22	31	1.98
31528077--31528219	74	1.9	76	85	2	200	18	25	25	30	1.98
31528574--31528636	21	3.0	21	80	11	65	17	3	42	36	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31529062--31529143	21	3.9	19	77	13	65	19	2	31	46	1.63
31529062--31529143	7	12.0	6	75	16	56	19	2	31	46	1.63
31529062--31529143	14	5.9	13	77	17	67	19	2	31	46	1.63
31529596--31529833	115	2.1	114	92	3	390	28	20	19	31	1.97
31529696--31530225	261	2.0	260	92	0	880	26	17	21	34	1.95
31531540--31531587	23	2.1	23	88	0	69	33	6	14	45	1.70
31533010--31533439	9	49.2	9	75	10	322	47	16	2	34	1.59
31535211--31535268	21	2.8	21	86	0	80	27	20	48	3	1.66
31535600--31535916	42	7.5	42	90	2	433	38	21	20	19	1.94
31538258--31538291	16	2.1	16	88	0	50	41	2	20	35	1.68
31539692--31539737	18	2.6	18	93	3	76	45	6	0	47	1.28
31539710--31539772	5	12.6	5	78	6	56	49	1	1	47	1.20
31539710--31539772	15	4.2	15	76	13	67	49	1	1	47	1.20
31541517--31541581	32	2.1	32	94	2	114	49	12	9	29	1.71
31548555--31548580	12	2.2	12	100	0	52	34	7	19	38	1.80
31551320--31551372	2	26.5	2	100	0	106	50	0	0	49	1.00
31558371--31558399	14	2.0	15	93	6	51	24	0	6	68	1.13
31561755--31561780	2	13.0	2	100	0	52	50	0	0	50	1.00
31563812--31563838	7	3.9	7	100	0	54	25	0	44	29	1.54
31563914--31564025	46	2.3	46	80	13	111	48	1	0	49	1.18
31564639--31564806	42	4.0	42	91	1	255	27	19	18	34	1.95
31564639--31564806	85	2.0	84	89	1	255	27	19	18	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31565146--31565212	21	3.2	21	82	6	82	2	47	17	31	1.63
31569955--31570192	9	27.3	9	71	23	172	35	0	20	43	1.55
31569955--31570083	22	5.7	24	71	22	77	34	0	20	43	1.58
31569990--31570140	62	2.5	62	91	5	236	35	0	19	44	1.51
31570068--31570195	52	2.4	54	94	5	228	36	0	18	44	1.50
31570296--31570450	25	6.4	25	86	10	232	33	0	20	45	1.51
31570296--31570450	51	3.2	48	90	6	210	33	0	20	45	1.51
31570928--31571008	39	2.0	40	88	2	119	38	38	2	20	1.67
31571691--31571767	39	2.0	40	84	7	104	37	38	3	19	1.70
31571921--31571952	15	2.1	16	94	5	57	50	3	0	46	1.17
31572044--31572087	15	2.9	15	86	0	70	36	40	0	22	1.54
31572383--31572825	113	3.9	110	78	10	410	27	25	22	23	2.00
31573317--31573365	25	2.0	25	88	8	73	46	0	2	51	1.12
31574519--31574649	41	3.2	41	84	4	149	27	19	23	29	1.99
31574835--31574859	13	1.9	13	100	0	50	24	8	20	48	1.76
31580673--31580745	36	2.0	37	84	12	98	43	0	5	50	1.25
31580701--31580748	14	3.4	14	78	18	55	47	0	2	50	1.12
31581934--31581971	2	19.0	2	94	0	67	47	0	2	50	1.15
31582384--31582468	41	2.0	42	86	2	118	25	18	20	35	1.95
31585016--31585353	102	3.4	102	95	1	603	39	6	14	39	1.72
31585016--31585353	47	6.7	52	72	13	278	39	6	14	39	1.72
31585459--31585613	41	3.8	41	92	0	238	16	20	31	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31585460--31585632	82	2.1	82	85	0	229	17	19	29	33	1.95
31594142--31594244	49	2.1	49	85	10	140	31	11	23	33	1.90
31600835--31600994	72	2.2	71	80	8	173	25	18	23	33	1.96
31615001--31615041	15	2.9	15	75	10	50	68	7	0	24	1.15
31622509--31622560	25	2.1	25	100	0	104	40	36	3	19	1.70
31623778--31623823	22	2.0	23	83	8	58	30	4	15	50	1.63
31624027--31624065	20	2.0	20	89	0	60	46	0	0	53	1.00
31625994--31626127	39	3.5	37	76	12	110	31	26	20	22	1.98
31626219--31626291	37	2.0	36	86	2	101	28	24	1	45	1.62
31626539--31626586	3	16.0	3	100	0	96	66	0	0	33	0.92

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