genome.fa.s2.2.7.7.80.10.50.1000.16.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: Chr02 ID=Chr02-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62769430

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   205   206   

This is table  16  of  206  ( 24623 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)
4875537--4875605	32	2.2	32	89	0	102	36	17	24	21	1.95
4884329--4884372	21	2.0	22	86	4	63	22	13	9	54	1.67
4886237--4886283	19	2.5	19	86	6	60	27	19	8	44	1.79
4890417--4890554	45	3.2	44	67	15	115	28	21	23	26	1.99
4890432--4890566	41	3.2	42	67	15	114	25	25	22	25	2.00
4890388--4890524	44	3.2	44	68	15	131	24	21	22	31	1.98
4890376--4890597	86	2.6	86	94	1	385	27	22	22	27	1.99
4896631--4896674	21	2.0	22	86	4	63	22	13	9	54	1.67
4898580--4898633	15	3.6	14	78	14	54	29	3	0	66	1.09
4899856--4899896	21	1.9	22	85	5	57	46	12	2	39	1.54
4900572--4900780	50	4.2	50	83	3	199	21	30	22	26	1.98
4900964--4901163	30	6.8	29	79	4	145	36	22	3	38	1.70
4901690--4901767	19	4.1	20	77	14	85	79	0	20	0	0.73
4901690--4901768	13	6.1	13	77	12	74	79	0	20	0	0.73
4901696--4901769	20	3.8	20	75	7	64	79	0	20	0	0.73
4901703--4901768	15	4.3	14	76	16	60	81	0	18	0	0.68
4901693--4901769	15	5.6	13	77	22	54	79	0	20	0	0.74
4901897--4901936	4	10.0	4	84	10	55	77	0	22	0	0.77
4901949--4902002	26	2.1	25	86	3	72	22	38	35	3	1.72
4902043--4902094	10	4.9	10	74	21	52	82	0	17	0	0.66
4902048--4902093	7	6.9	7	75	9	51	82	0	17	0	0.67
4902658--4902828	18	9.6	18	69	19	94	31	10	12	45	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4902788--4902833	18	2.5	18	89	3	65	30	6	13	50	1.66
4902686--4903322	17	36.5	17	68	13	172	30	12	11	45	1.77
4902891--4902933	19	2.3	18	88	8	59	51	9	6	32	1.61
4902997--4903187	18	10.7	18	72	12	63	29	14	12	43	1.82
4902925--4903196	72	3.8	72	78	8	270	28	13	11	45	1.79
4902923--4903271	72	5.0	71	76	9	254	28	13	12	45	1.80
4903083--4903316	120	2.0	119	82	7	287	26	11	14	47	1.79
4903247--4903344	38	2.5	39	80	11	112	35	9	11	43	1.72
4903301--4903345	22	2.0	22	95	0	81	42	11	8	37	1.72
4903281--4903360	39	2.1	38	83	6	99	40	10	10	40	1.72
4903283--4903395	56	2.0	59	86	8	162	34	12	11	41	1.79
4909566--4909621	22	2.5	22	85	11	69	83	14	1	0	0.72
4909568--4909622	10	5.6	10	76	8	51	85	12	1	0	0.68
4909566--4909621	16	3.4	17	85	7	64	83	14	1	0	0.72
4909571--4909629	6	9.8	6	77	18	52	84	11	3	0	0.73
4909571--4909629	13	4.4	13	76	14	57	84	11	3	0	0.73
4909568--4909622	23	2.3	23	87	9	76	85	12	1	0	0.68
4910511--4911094	76	7.6	77	83	7	594	29	16	19	34	1.94
4910511--4911094	151	3.8	150	80	11	627	29	16	19	34	1.94
4911403--4911604	30	6.8	30	79	5	189	36	22	3	38	1.71
4911429--4911610	59	3.1	58	75	8	170	35	21	2	40	1.68
4912135--4912198	22	2.8	23	83	9	87	76	0	23	0	0.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4912132--4912181	13	4.2	12	82	12	59	76	0	24	0	0.80
4912131--4912207	29	2.7	31	81	15	78	75	0	24	0	0.81
4912141--4912198	12	5.2	11	76	19	66	77	0	22	0	0.77
4912320--4912373	16	3.2	16	78	16	56	72	3	24	0	1.01
4912386--4912467	34	2.5	32	86	6	110	20	45	31	2	1.64
4912493--4912540	7	6.9	7	76	9	53	81	0	18	0	0.70
4912488--4912543	10	5.9	10	79	10	64	80	0	19	0	0.71
4913143--4913841	17	39.8	17	69	14	194	30	12	11	45	1.78
4913149--4913226	35	2.2	35	82	8	97	29	11	12	46	1.77
4913149--4913292	53	2.8	50	77	10	146	29	12	12	45	1.78
4913354--4913396	19	2.3	18	88	8	59	51	9	6	32	1.61
4913450--4913661	37	5.9	37	75	6	132	29	15	11	43	1.81
4913446--4913735	71	4.2	70	77	9	265	27	14	12	45	1.81
4913493--4913659	88	1.9	87	81	9	205	26	14	12	46	1.81
4913555--4913780	119	1.9	120	81	6	280	26	12	14	46	1.80
4913711--4913801	38	2.4	39	81	10	107	31	8	13	46	1.73
4913765--4913809	22	2.0	22	95	0	81	42	11	8	37	1.72
4913745--4913824	39	2.1	38	83	6	99	40	10	10	40	1.72
4913747--4913859	56	2.0	59	87	8	171	33	11	12	42	1.79
4914212--4914388	50	3.5	50	78	11	162	24	29	18	27	1.98
4915428--4915495	30	2.2	31	86	2	93	25	22	5	47	1.73
4916568--4916611	6	7.2	6	81	2	52	0	56	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4916568--4916611	18	2.4	18	92	3	70	0	56	0	43	0.99
4916671--4916720	25	2.0	25	92	0	82	4	32	4	60	1.34
4929198--4929306	51	2.1	51	98	0	209	43	15	11	30	1.81
4942261--4942295	18	1.9	18	88	0	52	17	11	25	45	1.81
4948348--4948440	32	3.0	31	74	12	84	21	13	23	40	1.89
4951520--4951548	6	4.8	6	100	0	58	17	31	0	51	1.45
4956662--4956763	28	3.6	28	94	0	168	32	12	26	28	1.93
4956661--4956788	56	2.3	54	84	9	168	33	12	25	28	1.92
4957484--4958131	23	28.0	23	72	14	406	28	14	16	39	1.89
4957511--4957991	70	7.0	69	75	12	366	28	15	16	39	1.89
4957585--4958153	93	6.1	93	91	2	840	28	14	17	39	1.89
4957479--4957805	163	2.0	163	93	2	559	29	15	16	38	1.90
4957479--4957900	163	2.6	161	85	8	529	28	15	16	39	1.89
4957585--4958153	184	3.1	184	91	2	881	28	14	17	39	1.89
4964532--4964655	28	4.4	28	89	2	178	31	12	25	30	1.93
4966906--4967156	23	10.8	23	73	9	179	29	12	17	40	1.86
4965355--4967215	93	20.0	93	89	3	1754	28	14	17	39	1.89
4973460--4973498	20	2.0	20	84	0	51	30	17	2	48	1.61
4977207--4977240	10	3.3	10	91	4	50	14	2	2	79	0.97
4980500--4980544	15	2.7	16	83	16	56	46	11	0	42	1.39
4983914--4984206	43	6.8	43	89	0	424	29	33	17	19	1.95
4984584--4984616	17	1.9	17	100	0	66	48	18	9	24	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4988085--4988186	52	2.0	52	98	0	195	32	19	9	38	1.85
4988792--4988818	14	1.9	14	100	0	54	44	48	0	7	1.31
4988835--4989008	81	2.1	82	82	9	205	44	26	2	26	1.66
4989000--4989064	14	4.6	14	79	5	69	35	38	0	26	1.57
4989000--4989078	28	2.8	29	82	3	81	36	39	1	22	1.63
4989527--4989669	41	3.5	41	89	4	227	34	30	20	15	1.93
4989705--4989840	40	3.4	40	81	2	148	18	25	20	36	1.95
5001880--5002006	45	2.8	44	85	5	175	47	14	18	18	1.83
5001925--5001994	21	3.2	21	67	25	63	50	10	18	21	1.76
5004930--5004961	6	5.3	6	100	0	64	34	0	50	15	1.45
5005291--5005339	3	16.3	3	100	0	98	67	0	0	32	0.91
5010532--5010564	17	1.9	17	88	11	50	45	12	0	42	1.41
5013425--5013453	12	2.5	12	94	5	51	0	44	0	55	0.99
5018730--5018772	14	2.9	15	86	10	61	6	0	9	83	0.80
5019723--5019778	18	3.0	20	87	7	73	80	1	10	7	0.97
5022209--5022276	22	3.0	22	69	12	57	27	22	13	36	1.91
5041532--5041739	51	4.1	51	91	1	312	32	14	24	28	1.95
5041532--5041739	102	2.0	101	94	0	362	32	14	24	28	1.95
5043421--5043514	36	2.6	36	84	3	118	13	28	12	44	1.81
5043414--5043478	18	3.6	18	67	8	51	13	29	12	44	1.81
5045796--5045874	24	3.3	23	84	7	95	55	21	1	21	1.50
5046301--5046332	16	2.0	17	88	11	50	59	15	0	25	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5048718--5048808	45	2.0	45	91	0	146	30	25	17	26	1.97
5052737--5053010	138	2.0	136	90	2	435	46	5	13	33	1.67
5062203--5062257	13	4.2	13	81	9	58	54	29	5	10	1.57
5062963--5063069	35	3.0	35	78	6	117	44	13	16	25	1.84
5071780--5071811	3	10.7	3	100	0	64	31	0	0	68	0.90
5072541--5072596	23	2.4	23	82	11	69	69	1	7	21	1.22
5073270--5073316	21	2.1	24	84	11	64	40	6	0	53	1.27
5073160--5073624	161	3.0	157	86	6	651	42	9	4	43	1.57
5084202--5084334	66	2.0	66	95	0	239	29	21	23	25	1.99
5090945--5090975	9	3.4	9	90	0	53	25	12	22	38	1.90

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   205   206