genome.fa.s7.2.7.7.80.10.50.1000.46.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: Chr07 ID=Chr07-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  60982465

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   200   201   202   203   204   

This is table  46  of  204  ( 24458 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)
15434653--15434727	25	3.1	24	84	7	89	22	30	16	30	1.95
15434670--15434727	25	2.3	25	96	0	107	24	31	17	27	1.97
15434670--15434741	25	2.9	25	89	0	90	22	29	19	29	1.98
15434563--15434741	99	1.8	99	79	7	211	20	29	20	30	1.97
15438456--15438718	130	2.0	130	93	0	454	42	7	7	41	1.63
15457793--15457844	22	2.4	22	84	9	63	46	1	1	50	1.23
15457803--15457847	22	2.1	22	91	4	74	40	2	0	57	1.11
15460221--15460591	182	2.0	183	98	0	726	44	13	10	32	1.77
15462803--15462883	3	26.3	3	74	18	60	34	3	2	59	1.29
15462803--15462883	24	3.4	23	74	14	76	34	3	2	59	1.29
15467291--15467380	46	2.0	46	82	4	110	72	5	12	10	1.27
15469561--15469922	127	2.8	128	89	2	559	32	17	24	25	1.97
15470014--15470134	45	2.7	44	81	1	134	28	21	23	26	1.99
15470057--15470169	44	2.6	43	82	2	145	30	18	20	30	1.96
15469907--15470313	174	2.3	174	82	6	414	29	18	24	27	1.98
15471787--15471867	3	26.3	3	75	18	69	33	3	2	60	1.27
15473092--15473128	7	4.9	8	80	12	51	24	0	0	75	0.80
15473092--15473130	15	2.6	16	92	8	64	25	0	0	74	0.82
15474657--15474702	12	3.8	12	79	0	56	67	23	4	4	1.27
15474633--15474702	36	1.9	36	82	0	86	65	21	7	5	1.38
15474986--15475028	14	3.0	14	82	3	50	51	2	2	44	1.27
15477754--15477793	16	2.5	16	87	0	53	45	5	7	42	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15477782--15477934	59	2.6	59	95	2	274	40	5	8	45	1.57
15477917--15477943	9	3.0	9	100	0	54	33	0	11	55	1.35
15478984--15479036	25	2.1	26	82	10	65	15	9	9	66	1.45
15488245--15488270	12	2.2	12	100	0	52	46	0	23	30	1.53
15490123--15490453	166	2.0	166	93	0	572	33	23	12	30	1.92
15491700--15491741	15	2.7	15	96	3	75	42	9	19	28	1.82
15495418--15495457	17	2.4	17	100	0	80	32	22	22	22	1.98
15495826--15496048	27	8.3	26	79	5	214	46	21	14	17	1.83
15495826--15496048	53	4.2	53	82	1	266	46	21	14	17	1.83
15495837--15496045	107	2.0	107	84	1	276	45	21	15	17	1.85
15495826--15496050	80	2.8	80	79	5	267	46	21	14	17	1.84
15504957--15505028	27	2.8	27	83	6	78	30	19	27	22	1.98
15505363--15505404	21	2.0	22	85	4	59	52	14	0	33	1.42
15506333--15506644	112	2.9	108	85	6	416	32	18	16	32	1.93
15506854--15506906	18	3.0	17	80	5	52	75	1	1	20	0.99
15506880--15506906	6	4.5	6	100	0	54	85	0	0	14	0.61
15507140--15507165	2	13.0	2	100	0	52	50	0	0	50	1.00
15508021--15508109	39	2.3	39	90	2	133	48	25	10	15	1.77
15508973--15509573	307	2.0	307	85	5	822	26	22	19	30	1.98
15508969--15509920	87	10.9	86	71	11	462	26	22	19	30	1.98
15509195--15509936	218	3.4	218	94	0	1270	27	22	19	29	1.98
15508973--15509936	44	22.1	43	73	9	491	26	22	19	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15509954--15510078	44	2.8	44	81	1	115	25	24	20	29	1.99
15510156--15510768	125	4.9	125	93	0	1012	26	19	19	34	1.96
15510643--15510824	50	3.7	49	72	7	170	26	19	20	34	1.96
15510823--15510885	29	2.2	29	91	0	99	26	22	23	26	2.00
15510738--15510976	128	1.9	128	90	1	381	25	18	22	33	1.96
15510920--15511069	51	3.0	49	70	6	131	24	21	22	32	1.98
15512333--15512386	7	8.0	7	87	8	85	14	16	0	68	1.21
15512333--15512386	13	4.0	14	85	9	85	14	16	0	68	1.21
15512333--15512386	20	2.7	20	97	0	99	14	16	0	68	1.21
15513367--15513406	6	6.7	6	88	0	53	15	5	10	70	1.32
15513367--15513412	18	2.6	18	78	0	56	13	6	8	71	1.29
15513315--15513424	57	1.9	57	80	10	127	10	11	6	71	1.29
15517336--15517362	6	4.5	6	100	0	54	85	0	0	14	0.61
15517538--15517627	35	2.4	37	80	12	94	47	4	11	36	1.59
15518424--15518507	39	2.2	39	93	0	150	45	27	11	15	1.81
15523735--15523810	23	3.3	23	92	0	134	22	21	26	30	1.99
15533245--15533546	158	1.9	158	97	0	568	34	13	11	39	1.82
15533790--15533900	54	2.1	54	98	0	213	42	18	13	26	1.87
15537960--15537988	3	10.0	3	92	7	51	68	0	0	31	0.89
15545686--15545947	63	4.2	63	76	2	204	34	33	7	24	1.83
15547508--15547550	23	1.9	22	85	4	59	69	2	25	2	1.12
15549518--15549581	32	2.0	32	100	0	128	40	9	25	25	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15550772--15550853	33	2.4	33	80	17	96	42	9	7	40	1.66
15551826--15551898	22	3.3	22	88	0	101	28	15	27	28	1.96
15552202--15552244	22	2.0	22	90	4	70	62	4	4	27	1.35
15552218--15552258	17	2.4	18	80	12	50	65	4	2	26	1.25
15552774--15552879	53	2.0	53	100	0	212	24	28	3	43	1.71
15556077--15556272	97	2.0	97	100	0	392	34	14	22	28	1.93
15559303--15559358	29	2.0	28	86	10	78	23	17	8	50	1.74
15565589--15565630	17	2.5	17	88	0	66	73	0	4	21	1.01
15572017--15572064	10	4.9	10	76	2	53	66	0	8	25	1.19
15574540--15574586	22	2.3	19	82	17	51	29	2	4	63	1.25
15578104--15578132	13	2.1	14	93	6	51	34	0	0	65	0.93
15587340--15587428	46	1.9	46	100	0	178	37	13	26	22	1.91
15591583--15591623	22	1.9	22	95	5	75	43	9	0	46	1.36
15591766--15591937	70	2.5	70	82	8	210	35	16	4	43	1.69
15594499--15594525	2	13.5	2	100	0	54	51	0	0	48	1.00
15594823--15594850	2	14.0	2	100	0	56	50	0	0	50	1.00
15595293--15595395	41	2.5	41	83	0	125	26	25	20	28	1.99
15596061--15596092	2	16.0	2	100	0	64	50	0	0	50	1.00
15597036--15597060	13	1.9	13	100	0	50	40	24	4	32	1.73
15597619--15597799	67	2.7	67	80	9	185	35	18	6	39	1.77
15598782--15598844	30	2.1	30	82	5	74	30	0	47	22	1.51
15598903--15598939	9	4.1	9	92	0	65	29	10	13	45	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15598993--15599022	9	3.4	9	90	9	53	40	23	13	23	1.90
15601150--15601189	18	2.2	19	86	4	55	40	0	2	57	1.12
15606118--15606188	35	2.0	35	94	0	124	40	11	33	14	1.81
15608104--15608144	21	2.0	21	81	18	50	21	26	19	31	1.97
15610348--15610596	50	4.8	50	84	4	291	20	28	23	26	1.99
15610347--15610596	100	2.4	104	87	5	346	20	28	23	26	1.99
15610691--15610722	13	2.5	13	94	0	55	56	12	0	31	1.37
15610896--15610959	33	1.9	33	96	0	119	39	29	4	26	1.76
15617776--15618024	50	4.8	50	84	4	291	20	28	23	26	1.99
15617775--15618024	100	2.4	104	87	5	346	20	28	23	26	1.99
15622982--15623033	26	2.1	24	86	10	70	28	0	1	69	0.99
15622959--15623036	26	3.0	26	70	24	65	30	0	2	66	1.05
15624562--15624596	18	1.9	18	88	0	52	28	25	2	42	1.69
15627960--15628483	126	4.2	126	91	1	825	27	18	17	36	1.93
15628541--15628646	34	2.9	38	74	14	123	38	16	0	45	1.47
15640438--15640481	13	3.5	13	90	3	72	45	0	0	54	0.99
15640438--15640481	2	23.0	2	88	9	65	45	0	0	54	0.99
15640528--15640609	2	41.0	2	100	0	164	50	0	0	50	1.00
15641497--15641529	15	2.3	15	89	5	50	54	6	6	33	1.50
15642058--15642421	196	1.9	196	94	1	649	35	17	6	41	1.75
15645417--15645460	22	2.0	22	100	0	88	27	22	4	45	1.72
15647450--15647609	41	3.9	41	82	3	135	26	18	27	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15647506--15647615	41	2.7	41	89	0	175	28	18	29	24	1.98
15649068--15649556	91	5.4	90	86	3	611	23	20	15	40	1.90
15649070--15649556	46	10.7	45	87	2	609	23	20	15	41	1.90
15654537--15654671	68	2.0	69	86	1	191	50	3	4	41	1.40
15655433--15655465	15	2.2	15	100	0	66	39	18	21	21	1.93
15663080--15663145	28	2.4	28	92	0	105	43	10	0	45	1.38
15663080--15663153	28	2.6	28	87	4	87	47	12	0	40	1.41
15663200--15663272	27	2.7	27	89	0	110	31	20	30	17	1.96
15664402--15664460	27	2.2	27	87	0	82	15	28	25	30	1.96
15664503--15664564	27	2.3	27	94	0	106	50	0	6	43	1.28

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   200   201   202   203   204